format-version: 1.2
data-version: 2026-05-08
date: 08:05:2026 11:34
synonymtypedef: OMO:0003000 "abbreviation"
synonymtypedef: OMO:0003001 "ambiguous synonym"
synonymtypedef: OMO:0003002 "dubious synonym"
synonymtypedef: OMO:0003003 "layperson synonym"
synonymtypedef: OMO:0003004 "plural form"
synonymtypedef: OMO:0003005 "UK spelling synonym"
synonymtypedef: OMO:0003006 "misspelling"
synonymtypedef: OMO:0003007 "misnomer"
synonymtypedef: OMO:0003008 "previous name"
synonymtypedef: OMO:0003009 "legal name"
synonymtypedef: OMO:0003010 "International Nonproprietary Name"
synonymtypedef: OMO:0003011 "latin term"
synonymtypedef: OMO:0003012 "acronym"
remark: Please cite the OBI consortium http://purl.obolibrary.org/obo/obi where traditional citation is called for. However it is adequate that individual terms be attributed simply by use of the identifying PURL for the term, in projects that refer to them.
ontology: obi
property_value: defaultLanguage "en" xsd:string
property_value: http://purl.org/dc/elements/1.1/contributor "Advisors for this project come from the IFOMIS group, Saarbruecken and from the Co-ODE group in Manchester" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Alan Ruttenberg" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Allyson Lister" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Barry Smith" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Bill Bug" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Bjoern Peters" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Carlo Torniai" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Chris Mungall" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Chris Stoeckert" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Chris Taylor" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Christian Bolling" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Cristian Cocos" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Daniel Rubin" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Daniel Schober" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Dawn Field" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Dirk Derom" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Elisabetta Manduchi" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Eric Deutsch" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Frank Gibson" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Gilberto Fragoso" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Helen C. Causton" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Helen Parkinson" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Holger Stenzhorn" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "James A. Overton" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "James Malone" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Jay Greenbaum" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Jeffrey Grethe" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Jennifer Fostel" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Jessica Turner" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Jie Zheng" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Joe White" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "John Westbrook" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Kevin Clancy" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Larisa Soldatova" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Lawrence Hunter" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Liju Fan" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Luisa Montecchi" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Matthew Brush" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Matthew Pocock" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Melanie Courtot" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Melissa Haendel" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Mervi Heiskanen" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Monnie McGee" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Norman Morrison" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Philippe Rocca-Serra" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Phillip Lord" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Pierre Grenon" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Richard Bruskiewich" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Richard Scheuermann" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Robert Stevens" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Ryan R. Brinkman" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Stefan Wiemann" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Susanna-Assunta Sansone" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Tanya Gray" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Tina Hernandez-Boussard" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Trish Whetzel" xsd:string
property_value: http://purl.org/dc/elements/1.1/creator "Yongqun He" xsd:string
property_value: http://purl.org/dc/elements/1.1/description "An ontology for representing biomedical investigations, including study designs, the collection and preparation of the targets of investigation, assays, instrumentation and reagents used, as well as the data generated and the types of analysis performed on the data to reach conclusions, and their documentation." xsd:string
property_value: http://purl.org/dc/elements/1.1/format "OWL-DL" xsd:string
property_value: http://purl.org/dc/elements/1.1/subject "An ontology for the annotation of biomedical and functional genomics experiments." xsd:string
property_value: http://purl.org/dc/terms/license "http://creativecommons.org/licenses/by/4.0/" xsd:string
property_value: http://purl.org/dc/terms/title "Ontology for Biomedical Investigations" xsd:string
property_value: IAO:0000589 "Ontology for Biomedical Investigations" xsd:string
property_value: owl:versionInfo "2026-05-08" xsd:string

[Term]
id: BFO:0000015
name: process

[Term]
id: BFO:0000016
name: disposition
is_a: BFO:0000017 ! realizable entity

[Term]
id: BFO:0000017
name: realizable entity
is_a: COB:0000502 ! characteristic

[Term]
id: BFO:0000023
name: role
is_a: BFO:0000017 ! realizable entity

[Term]
id: BFO:0000029
name: site
is_a: BFO:0000141 ! immaterial entity

[Term]
id: BFO:0000034
name: function
is_a: BFO:0000016 ! disposition

[Term]
id: BFO:0000040
name: material entity
def: "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." []

[Term]
id: BFO:0000141
name: immaterial entity

[Term]
id: CHEBI:10545
name: electron
def: "Elementary particle not affected by the strong force having a spin 1/2, a negative elementary charge and a rest mass of 0.000548579903(13) u, or 0.51099906(15) MeV." []
is_a: CHEBI:36342 ! subatomic particle

[Term]
id: CHEBI:145810
name: insulin
def: "A peptide hormone which consists of two polypeptide chains, A- and B- chains which are linked together by disulfide bonds. The amino acid sequence of insulin varies across species and certain segments of the molecule are highly conserved. In most species, the A chain consists of 21 amino acids and the B chain consists of 30 amino acids. In mammals, insulin is synthesised in the pancreas within the β cells whereas in certain species of fish, the insulin-producing tissue is uniquely located in separate structures called Brockmann bodies." []
is_a: CHEBI:16670 ! peptide

[Term]
id: CHEBI:15377
name: water
def: "An oxygen hydride consisting of an oxygen atom that is covalently bonded to two hydrogen atoms" []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:15422
name: ATP
def: "An adenosine 5'-phosphate in which the 5'-phosphate is a triphosphate group. It is involved in the transportation of chemical energy during metabolic pathways." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:15956
name: biotin
def: "An organic heterobicyclic compound that consists of 2-oxohexahydro-1<em>H</em>-thieno[3,4-<em>d</em>]imidazole having a valeric acid substituent attached to the tetrahydrothiophene ring. The parent of the class of biotins." []
is_a: OBI:0002744 ! molecular label

[Term]
id: CHEBI:16113
name: cholesterol
def: "A cholestanoid consisting of cholestane having a double bond at the 5,6-position as well as a 3β-hydroxy group." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:16134
name: ammonia
def: "An azane that consists of a single nitrogen atom covelently bonded to three hydrogen atoms." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:16247
name: phospholipid
def: "A lipid containing phosphoric acid as a mono- or di-ester. The term encompasses phosphatidic acids and phosphoglycerides." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:16301
name: nitrite
def: "The nitrogen oxoanion formed by loss of a proton from nitrous acid." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:16526
name: carbon dioxide
def: "A one-carbon compound with formula CO<small><sub>2</sub></small> in which the carbon is attached to each oxygen atom by a double bond. A colourless, odourless gas under normal conditions, it is produced during respiration by all animals, fungi and microorganisms that depend directly or indirectly on living or decaying plants for food." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:16670
name: peptide
def: "Amide derived from two or more amino carboxylic acid molecules (the same or different) by formation of a covalent bond from the carbonyl carbon of one to the nitrogen atom of another with formal loss of water. The term is usually applied to structures formed from α-amino acids, but it includes those derived from any amino carboxylic acid. X = OH, OR, NH2, NHR, etc." []
is_a: CHEBI:33839 ! macromolecule

[Term]
id: CHEBI:166899
name: globulin type
def: "One of the major classifications of proteins, which may be further divided into the euglobulins and the pseudoglobulins. The former group is insoluble in water but soluble in saline solutions and may be precipitated in water that has been half-saturated with a salt such as ammonium sulfate. The latter group is soluble in water and has properties that resemble those of the true globulins. Globulins are an important source of protein in seed plants and are found in minute amounts in cereals. Globulins found in animal fluids are enzymes, antibodies, and fibrous and contractile proteins usually contained in the blood plasma." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:16737
name: creatinine
def: "A lactam obtained by formal cyclocondensation of creatine. It is a metabolite of creatine." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:168396
name: mycophenolic acid
def: "A member of the class of 2-benzofurans that is 2-benzofuran-1(3<em>H</em>)-one which is substituted at positions 4, 5, 6, and 7 by methyl, methoxy, (2<i>E</i>)-5-carboxy-3-methylpent-2-en-1-yl, and hydroxy groups, respectively. It is an antibiotic produced by <em>Penicillium brevi-compactum, P. stoloniferum, P. echinulatum</em> and related species. An immunosuppressant, it is widely used (partiularly as its sodium salt and as the 2-(morpholin-4-yl)ethyl ester prodrug, mycophenolate mofetil) to prevent tissue rejection following organ transplants and for the treatment of certain autoimmune diseases." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:16919
name: creatine
def: "A glycine derivative having methyl and amidino groups attached to the nitrogen." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:16990
name: bilirubin IXalpha
def: "A member of the class of  biladienes that is a linear tetrapyrrole with the dipyrrole units being of both exovinyl and endovinyl type. A product of heme degradation, it is produced in the reticuloendothelial system by the reduction of biliverdin and transported to the liver as a complex with serum albumin." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:16991
name: deoxyribonucleic acid
def: "High molecular weight, linear polymers, composed of nucleotides containing deoxyribose and linked by phosphodiester bonds; DNA contain the genetic information of organisms." []
is_a: CHEBI:33696 ! nucleic acid

[Term]
id: CHEBI:17026
name: progesterone
def: "A C<small><sub>21</sub></small>-steroid hormone in which a pregnane skeleton carries oxo substituents at positions 3 and 20 and is unsaturated at C(4)-C(5). As a hormone, it is involved in the female menstrual cycle, pregnancy and embryogenesis of humans and other species." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:17137
name: hydrogensulfite
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:17230
name: homocysteine
def: "A sulfur-containing amino acid consisting of a glycine core with a 2-mercaptoethyl side-chain." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:17234
name: glucose
def: "An aldohexose used as a source of energy and metabolic intermediate." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:17347
name: testosterone
def: "An androstanoid having 17β-hydroxy and 3-oxo groups, together with unsaturation at C-4‒C-5.." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:17423
name: methemoglobin
def: "A hemoprotein that is the ferric (Fe<small><sup>3+</small></sup>) form of hemoglobin." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:17544
name: hydrogencarbonate
def: "The carbon oxoanion resulting from the removal of a proton from carbonic acid." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:17650
name: cortisol
def: "A 17α-hydroxy-C<small><sub>21</sub></small>-steroid that is pregn-4-ene substituted by oxo groups at positions 3 and 20 and hydroxy groups at positions 11, 17 and 21. Cortisol is a corticosteroid hormone or glucocorticoid produced by zona fasciculata of the adrenal cortex, which is a part of the adrenal gland. It is usually referred to as the \"stress hormone\" as it is involved in response to stress and anxiety, controlled by corticotropin-releasing hormone (CRH). It increases blood pressure and blood sugar, and reduces immune responses." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:17709
name: 5'-adenylyl sulfate
def: "An adenosine 5'-phosphate having a sulfo group attached to one the phosphate OH groups." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:17855
name: triglyceride
def: "Any glyceride resulting from the condensation of all three hydroxy groups of glycerol (propane-1,2,3-triol) with fatty acids." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:17996
name: chloride
def: "A halide anion formed when chlorine picks up an electron to form an an anion." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:20067
name: 3-hydroxybutyric acid
def: "A straight-chain 3-hydroxy monocarboxylic acid comprising a butyric acid core with a single hydroxy substituent in the 3- position; a ketone body whose levels are raised during ketosis, used as an energy source by the brain during fasting in humans. Also used to synthesise biodegradable plastics." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:22868
name: bile salt
def: "A sodium salt of the conjugate of any bile acid with either glycine or taurine." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:23528
name: cytochalasin
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:23965
name: estradiol
def: "A 3-hydroxy steroid that is estra-1,3,5(10)-triene substituted by hydroxy groups at positions 3 and 17." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:23995
name: N-ethyl-N-nitrosourea
def: "A member of the class of <em>N</em>-nitrosoureas that is urea in which one of the nitrogens is substituted by ethyl and nitroso groups." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:24621
name: hormone
def: "Originally referring to an endogenous compound that is formed in specialized organ or group of cells and carried to another organ or group of cells, in the same organism, upon which it has a specific regulatory function, the term is now commonly used to include non-endogenous, semi-synthetic and fully synthetic analogues of such compounds." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:24636
name: proton
is_a: CHEBI:36342 ! subatomic particle
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:24875
name: iron cation
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:25078
name: luciferin
def: "A low-molecular-mass compound present in bioluminescent organisms that emits light when oxidized in presence of enzyme luciferase." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:25555
name: nitrogen atom

[Term]
id: CHEBI:2637
name: amikacin
def: "An amino cyclitol glycoside that is kanamycin A acylated at the N-1 position by a 4-amino-2-hydroxybutyryl group." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:26710
name: sodium chloride
def: "An inorganic chloride salt having sodium(1+) as the counterion." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:27226
name: uric acid
def: "An oxopurine that is the final oxidation product of purine metabolism." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:27889
name: lead(0)
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:28001
name: vancomycin
def: "A complex glycopeptide from <em>Streptomyces orientalis</em>. It inhibits a specific step in the synthesis of the peptidoglycan layer in the Gram-positive bacteria <em>Staphylococcus aureus</em> and <em>Clostridium difficile</em>." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:28358
name: rac-lactic acid
def: "A racemate comprising equimolar amounts of (<i>R</i>)- and (<i>S</i>)-lactic acid." []
is_a: BFO:0000040 ! material entity

[Term]
id: CHEBI:28619
name: acrylamide
def: "A member of the class of acrylamides that results from the formal condensation of acrylic acid with ammonia." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:28689
name: dehydroepiandrosterone
def: "An androstanoid that is androst-5-ene substituted by a β-hydroxy group at position 3 and an oxo group at position 17. It is a naturally occurring steroid hormone produced by the adrenal glands." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:28774
name: 3,3',5'-triiodothyronine
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:28864
name: tobramycin
def: "A amino cyclitol glycoside that is kanamycin B lacking the 3-hydroxy substituent from the 2,6-diaminoglucose ring." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:29101
name: sodium(1+)
def: "A monoatomic monocation obtained from sodium." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:29103
name: potassium(1+)
def: "A monoatomic monocation obtained from potassium." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:29191
name: hydroxyl
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:29237
name: deuterium atom
def: "The stable isotope of hydrogen with relative atomic mass 2.014102 and a natural abundance of 0.0115 atom percent (from Greek δευτερον, second)." []
is_a: COB:0000011 ! atom

[Term]
id: CHEBI:30222
name: neutron
def: "Nuclear particle of zero charge, spin 1/2 and rest mass of 1.008664904(14) u." []
is_a: CHEBI:36342 ! subatomic particle

[Term]
id: CHEBI:30660
name: thyroxine
def: "An iodothyronine compound having iodo substituents at the 3-, 3'-, 5- and 5'-positions." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:30682
name: ruthenium atom
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:3098
name: bile acid
def: "Any member of a group of hydroxy-5β-cholanic acids occuring in bile, where they are present as the sodium salts of their amides with glycine or taurine. In mammals bile acids almost invariably have 5β-configuration." []

[Term]
id: CHEBI:31624
name: fluorescein (lactone form)
def: "A xanthene dye that is highly fluorescent, detectable even when present in minute quantities. Used forensically to detect traces of blood, in analytical chemistry as an indicator in silver nitrate titrations and in microscopy." []
is_a: OBI:0002744 ! molecular label

[Term]
id: CHEBI:31642
name: gadodiamide hydrate
def: "The hydrate of gadodiamide." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:31643
name: gadoteridol
def: "A non-ionic gadolinium chelate having a macrocyclic tetraamine framework. It is used as a paramagnetic contrast agent in magnetic resonance imaging (MRI)." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:31991
name: phenol red
def: "3<em>H</em>-2,1-Benzoxathiole 1,1-dioxide in which both of the hydrogens at position 3 have been substituted by 4-hydroxyphenyl groups. A pH indicator changing colour from yellow below pH 6.8 to bright pink above pH 8.2, it is commonly used as an indicator in cell cultures and in home swimming pool test kits. It is also used in the (now infrequently performed) phenolsulfonphthalein (PSP) test for estimation of overall blood flow through the kidney." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:32142
name: sodium citrate dihydrate
def: "The dihydrate of trisodium citrate." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:32875
name: methyl group
def: "An alkyl group that is the univalent group derived from methane by removal of a hydrogen atom." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:33252
name: atomic nucleus
def: "A nucleus is the positively charged central portion of an atom, excluding the orbital electrons." []
is_a: CHEBI:36342 ! subatomic particle

[Term]
id: CHEBI:33262
name: elemental oxygen
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:33321
name: rare earth metal atom
is_a: COB:0000011 ! atom

[Term]
id: CHEBI:33359
name: rhodium atom
def: "A cobalt group element atom of atomic number 45." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:33375
name: gadolinium atom
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:33376
name: terbium atom
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:33696
name: nucleic acid
def: "A macromolecule made up of nucleotide units and hydrolysable into certain pyrimidine or purine bases (usually adenine, cytosine, guanine, thymine, uracil), <small>D</small>-ribose or 2-deoxy-<small>D</small>-ribose and phosphoric acid." []
is_a: CHEBI:33839 ! macromolecule

[Term]
id: CHEBI:33697
name: ribonucleic acid
def: "High molecular weight, linear polymers, composed of nucleotides containing ribose and linked by phosphodiester bonds; RNA is central to the synthesis of proteins." []
is_a: CHEBI:33696 ! nucleic acid

[Term]
id: CHEBI:33709
name: amino acid
def: "A carboxylic acid containing one or more amino groups." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:33839
name: macromolecule
def: "A macromolecule is a molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." []
synonym: "polymer" EXACT []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:35143
name: hemoglobin
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:35366
name: fatty acid
def: "Any aliphatic monocarboxylic acid derived from or contained in esterified form in an animal or vegetable fat, oil or wax. Natural fatty acids commonly have a chain of 4 to 28 carbons (usually unbranched and even-numbered), which may be saturated or unsaturated. By extension, the term is sometimes used to embrace all acyclic aliphatic carboxylic acids." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:35729
name: gadolinium molecular entity
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:35780
name: phosphate ion
def: "A phosphorus oxoanion that is the conjugate base of phosphoric acid." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:36342
name: subatomic particle
def: "A particle smaller than an atom." []
is_a: BFO:0000040 ! material entity
disjoint_from: COB:0000011 ! atom

[Term]
id: CHEBI:37333
name: gadodiamide
def: "A non-ionic gadolinium chelate having a macrocyclic triamine framework. It is used as a paramagnetic contrast agent in magnetic resonance imaging (MRI)." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:37445
name: folic acids
def: "A group of heterocyclic compounds based on the pteroic acid skeleton conjugated with one or more <small>L</small>-glutamic acid units." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:37586
name: sodium phosphate
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:37972
name: phosphorus-32 atom
def: "The radioactive isotope of phosphorus with relative atomic mass 31.973907 and half-life of 14.26 days." []
is_a: COB:0000011 ! atom
is_a: OBI:0001879 ! reagent

[Term]
id: CHEBI:37973
name: phosphorus-33 atom
def: "The radioactive isotope of phosphorus with relative atomic mass 32.971725, half-life of 25.34 days and nuclear spin <small><sup>1</small></sup>/<small><sub>2</sub></small>." []
is_a: COB:0000011 ! atom
is_a: OBI:0001879 ! reagent

[Term]
id: CHEBI:37987
name: Cy3 dye
is_a: OBI:0002744 ! molecular label

[Term]
id: CHEBI:37989
name: Cy5 dye
is_a: OBI:0002744 ! molecular label

[Term]
id: CHEBI:38559
name: cytochrome P450
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:39025
name: high-density lipoprotein
def: "A class of lipoproteins of small size (4-13 nm) and dense (greater than 1.063 g/ml) particles. They are synthesized in the liver without a lipid core, accumulate cholesterol esters from peripheral tissues and transport them to the liver for re-utilization or elimination from the body (the reverse cholesterol transport)." []
is_a: CHEBI:6495 ! lipoprotein

[Term]
id: CHEBI:39026
name: low-density lipoprotein
def: "A class of lipoproteins of small size (18-25 nm) and low density (1.019-1.063 g/ml) particles with a core composed mainly of cholesterol esters and smaller amounts of triglycerides. The surface monolayer consists mostly of phospholipids, a single copy of apolipoprotein B-100, and free cholesterol molecules. The main function of LDL is to transport cholesterol and cholesterol esters from the liver. Excessive levels are associated with cardiovascular disease." []
is_a: CHEBI:6495 ! lipoprotein

[Term]
id: CHEBI:39027
name: very-low-density lipoprotein
def: "A class of lipoproteins of large size (30-80 nm), very low density (0.93-1.006 g/ml) particles with a core composed mainly of triglycerides and a surface monolayer of phospholipids and cholesterol into which are imbedded the apolipoproteins B, E, and C. VLDL facilitate the transport of endogenously made triglycerides to extrahepatic tissues." []
is_a: CHEBI:6495 ! lipoprotein

[Term]
id: CHEBI:39123
name: calcium cation
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:39124
name: calcium ion
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:39127
name: magnesium cation
def: "Any magnesium ion that is positively charged." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:39867
name: valproic acid
def: "A branched-chain saturated fatty acid that comprises of a propyl substituent on a pentanoic acid stem." []
is_a: CHEBI:35366 ! fatty acid

[Term]
id: CHEBI:42098
name: digoxigenin
def: "A hydroxy steroid that consists of 5β-cardanolide having a double bond at the 20(22)-position as well as hydroxy groups at the 3β-, 12β- and 14β-positions. It has been isolated from the plant species of the genus <em>Digitalis</em>." []
is_a: OBI:0002744 ! molecular label

[Term]
id: CHEBI:42191
name: EDTA(4-)
def: "A tetracarboxylic acid anion formed by deprotonation of all four carboxy groups in ethylenediaminetetraacetic acid (EDTA)." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:4431
name: deoxyribonucleotide
def: "A nucleotide in which the ribose moiety has one or more of its hydroxy groups substituted by hydrogen." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:4551
name: digoxin
def: "A  cardenolide glycoside that is digitoxin β-hydroxylated at C-12. A cardiac glycoside extracted from the foxglove plant, <em>Digitalis lanata</em>, it is used to control ventricular rate in atrial fibrillation and in the management of congestive heart failure with atrial fibrillation, but the margin between toxic and therapeutic doses is small." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:4705
name: double-stranded DNA
is_a: CHEBI:16991 ! deoxyribonucleic acid

[Term]
id: CHEBI:472552
name: 5-bromo-2'-deoxyuridine
def: "A pyrimidine 2'-deoxyribonucleoside compound having 5-bromouracil as the nucleobase." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:47774
name: low-density lipoprotein cholesterol
def: "Cholesterol esters and free cholesterol which are contained in or bound to low-density lipoproteins (LDL)." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:47775
name: high-density lipoprotein cholesterol
def: "Cholesterol esters and free cholesterol which are contained in or bound to high-density lipoproteins (HDL)." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:50076
name: chromium-51
def: "A synthetic radioactive isotope of chromium having a half-life of 27.7 days and decaying by electron capture with emission of γ rays (0.32 MeV); it is used to label red blood cells for measurement of mass or volume, survival time, and sequestration studies, for the diagnosis of gastrointestinal bleeding, and to label platelets to study their survival." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:51232
name: 2'-(4-ethoxyphenyl)-5-(4-methylpiperazin-1-yl)-2,5'-bibenzimidazole
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:51602
name: resorufin
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:51756
name: Alexa Fluor 532
is_a: OBI:0002744 ! molecular label

[Term]
id: CHEBI:51760
name: Alexa Fluor 546
is_a: OBI:0002744 ! molecular label

[Term]
id: CHEBI:52673
name: Alexa Fluor 555
def: "A fluorescent dye of absorption wavelength 555 nm and emission wavelength 565 nm, derived from a 3,6-diaminoxanthene-4,5-disulfate." []
is_a: OBI:0002744 ! molecular label

[Term]
id: CHEBI:53526
name: tritiated thymidine
def: "Thymidine linked to the radioisotope tritium. Used to label DNA in the study of cellular and viral DNA synthesis." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:59050
name: dimethyl sulfate
def: "The dimethyl ester of sulfuric acid." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:59051
name: diethyl pyrocarbonate
def: "The diethyl ester of dicarbonic acid." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:59052
name: 1,1-dihydroxy-3-ethoxy-2-butanone
def: "A butanone derivative having two hydroxy substituents at the 1-position and an ethoxy substituent at the 3-position." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:59053
name: N-cyclohexyl-N'-(2-(4-morpholinyl)ethyl)carbodiimide
def: "A carbodiimide having cyclcohexyl and 2-(4-morpholinyl)ethyl as the two <em>N</em>-substituents." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:59054
name: N-methylisatoic anhydride
def: "A 3,1-benzoxazin-1,4-dione having an <em>N</em>-methyl substituent." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:59055
name: (S)-1-(4-bromoacetamidobenzyl)EDTA
def: "A tetracarboxylic acid consisting of ethylenediaminetetraacetic acid having a 4-bromoacetamidobenzyl group at the C1-position and (<i>S</i>)-configuration." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:59056
name: EDTA methidiumpropylamide
def: "A combined intercalating and chelating reagent. The iron chelate, prepared by adding Fe(NH4)2(SO4)2, effects random oxidative cleavage of DNA in the presence of O2 and a reducing agent. This activity is useful as a footprinting probe." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:59424
name: bromophenol blue
def: "3<em>H</em>-2,1-Benzoxathiole 1,1-dioxide in which both of the hydrogens at position 3 have been substituted by 3,5-dibromo-4-hydroxyphenyl groups. It is used as a laboratory indicator, changing from yellow below pH 3 to purple at pH 4.6, and as a size marker for monitoring the progress of agarose gel and polyacrylamide gel electrophoresis. It has also been used as an industrial dye." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:60343
name: 1-methyl-7-nitroisatoic anhydride
def: "A 3,1-benzoxazin-1,4-dione having an <em>N</em>-methyl substituent and a nitro group at the 7-position." []

[Term]
id: CHEBI:61057
name: tacrolimus hydrate
def: "A hydrate that is the monohydrate form of tacrolimus." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:61073
name: oxygen radical
def: "An inorganic radical in which a free electron resides on one or more oxygen atoms of an oxygen species." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:6495
name: lipoprotein
def: "A clathrate complex consisting of a lipid enwrapped in a protein host without covalent binding in such a way that the complex has a hydrophilic outer surface consisting of all the protein and the polar ends of any phospholipids." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:81567
name: thyroid stimulating hormone
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:81568
name: Luteinizing hormone
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:81569
name: Follicle stimulating hormone
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:86319
name: 25-hydroxyvitamin D2
def: "A hydroxycalciol that is vitamin D<small><sub>2</sub></small> in which the hydrogen at position 25 has been replaced by a hydroxy group." []
is_a: COB:0000013 ! molecule

[Term]
id: CHEBI:9754
name: tris
def: "A primary amino compound that is <em>tert</em>-butylamine in which one hydrogen attached to each methyl group is replaced by a hydroxy group. A compound widely used as a biological buffer substance in the pH range 7—9; p<em>K</em><small><sub>a</sub></small> = 8.3 at 20 °C; p<em>K</em><small><sub>a</sub></small> = 7.82 at 37 °C." []
is_a: COB:0000013 ! molecule

[Term]
id: CHMO:0000087
name: fluorescence microscopy assay
def: "Any type of light microscopy assay where the specimen can be made to fluoresce (emit energy as visible light) by illuminating it with light of specific wavelengths. These specimens are called fluorophores." []
synonym: "fluorescence imaging" EXACT []
synonym: "fluorescence microscopic imaging" EXACT []
synonym: "FM" EXACT []
is_a: CHMO:0000102 ! light microscopy assay
is_a: OBI:0001501 ! fluorescence detection assay

[Term]
id: CHMO:0000089
name: confocal fluorescence microscopy assay
def: "Microscopy where the specimen can be made to fluoresce (emit energy as visible light) by scanning a gas (Ar or Kr) laser spot of specific wavelength over its surface and using a spatial pinhole to eliminate out-of-focus fluorescence." []
synonym: "CLSM" EXACT []
synonym: "confocal fluorescence imaging" EXACT []
synonym: "confocal laser scanning fluorescence microscopy" EXACT []
synonym: "confocal laser scanning microscopy" EXACT []
synonym: "confocal-laser scanning microscopy" EXACT []
synonym: "fluorescence confocal microscopy" EXACT []
synonym: "fluorescence confocal scanning laser microscopy" EXACT []
synonym: "LSCM" EXACT []
synonym: "scanning confocal fluorescence microscopy" EXACT []
is_a: OBI:0002119 ! microscopy assay

[Term]
id: CHMO:0000102
name: light microscopy assay
def: "Microscopy where the specimen is illuminated with visible light and a system of lenses is used to produce an image." []
synonym: "light microscopy" EXACT []
synonym: "OM" EXACT []
synonym: "optical microscopy" EXACT []
is_a: OBI:0002119 ! microscopy assay

[Term]
id: CHMO:0000701
name: liquid chromatography-tandem mass spectrometry
def: "A method where a sample mixture is first separated by liquid chromatography before being ionised and characterised by mass-to-charge ratio and relative abundance using two mass spectrometers in series." []
synonym: "LC-MS-MS" EXACT []
synonym: "LC-MS/MS" EXACT []
synonym: "LC-MS2" EXACT []
synonym: "LC-MSMS" EXACT []
synonym: "LC/MS/MS" EXACT []
synonym: "LCMSMS" EXACT []
synonym: "liquid chromatography tandem mass spectrometry" EXACT []
synonym: "liquid chromatography tandem mass spectroscopy" EXACT []
synonym: "liquid chromatography-tandem mass spectroscopy" EXACT []
is_a: OBI:0003097 ! liquid chromatography mass spectrometry assay
is_a: OBI:0003540 ! tandem mass spectrometry assay

[Term]
id: CL:0000000
name: cell
def: "A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane." []
is_a: UBERON:0000465 ! material anatomical entity

[Term]
id: CL:0000001
name: primary cultured cell
def: "A cultured cell that is freshly isolated from a organismal source, or derives in culture from such a cell prior to the culture being passaged." []
is_a: CL:0000010 ! cultured cell

[Term]
id: CL:0000010
name: cultured cell
def: "A cell in vitro that is or has been maintained or propagated as part of a cell culture." []
is_a: CL:0000578 ! experimentally modified cell in vitro

[Term]
id: CL:0000019
name: sperm
def: "A mature male germ cell that develops from a spermatid." []
is_a: CL:0000000 ! cell

[Term]
id: CL:0000057
name: fibroblast
def: "A connective tissue cell which secretes an extracellular matrix rich in collagen and other macromolecules. Flattened and irregular in outline with branching processes; appear fusiform or spindle-shaped." []
is_a: CL:0000000 ! cell

[Term]
id: CL:0000066
name: epithelial cell
def: "A cell that is usually found in a two-dimensional sheet with a free surface. The cell has a cytoskeleton that allows for tight cell to cell contact and for cell polarity where apical part is directed towards the lumen and the basal part to the basal lamina." []
is_a: CL:0000000 ! cell
disjoint_from: CL:0000738 ! leukocyte

[Term]
id: CL:0000077
name: mesothelial cell
def: "A flat, squamous-like epithelial cell of mesodermal origin. It forms the mesothelium, which lines the body's serous cavities including the pleural, peritoneal, and pericardial spaces. This cell plays a crucial role in synthesizing and secreting lubricants, such as glycosaminoglycans and surfactants, which minimize friction between adjacent tissues during movement." []
is_a: CL:0000066 ! epithelial cell

[Term]
id: CL:0000081
name: blood cell
def: "A cell found predominately in the blood." []
is_a: CL:0000000 ! cell

[Term]
id: CL:0000084
name: T cell
def: "A type of lymphocyte whose defining characteristic is the expression of a T cell receptor complex." []
is_a: CL:0000542 ! lymphocyte

[Term]
id: CL:0000097
name: mast cell
def: "A cell that is found in almost all tissues containing numerous basophilic granules and capable of releasing large amounts of histamine and heparin upon activation. Progenitors leave bone marrow and mature in connective and mucosal tissue. Mature mast cells are found in all tissues, except the bloodstream. Their phenotype is CD117-high, CD123-negative, CD193-positive, CD200R3-positive, and FceRI-high. Stem-cell factor (KIT-ligand; SCF) is the main controlling signal of their survival and development." []
is_a: CL:0000738 ! leukocyte

[Term]
id: CL:0000128
name: oligodendrocyte
def: "A class of large neuroglial (macroglial) cells in the central nervous system. Form the insulating myelin sheath of axons in the central nervous system." []
is_a: CL:0002319 ! neural cell

[Term]
id: CL:0000182
name: hepatocyte
def: "The main structural component of the liver. They are specialized epithelial cells that are organized into interconnected plates called lobules. Majority of cell population of liver, polygonal in shape, arranged in plates or trabeculae between sinusoids; may have single nucleus or binucleated." []
is_a: CL:0000066 ! epithelial cell

[Term]
id: CL:0000232
name: erythrocyte
def: "A red blood cell. In mammals, mature erythrocytes are biconcave disks containing hemoglobin whose function is to transport oxygen." []
is_a: CL:0000081 ! blood cell

[Term]
id: CL:0000233
name: platelet
def: "A non-nucleated disk-shaped cell formed by extrusion from megakaryocytes, found in the blood of all mammals, and mainly involved in blood coagulation." []
is_a: CL:0000081 ! blood cell

[Term]
id: CL:0000235
name: macrophage
def: "A mononuclear phagocyte present in variety of tissues, typically differentiated from monocytes, capable of phagocytosing a variety of extracellular particulate material, including immune complexes, microorganisms, and dead cells." []
is_a: CL:0000842 ! mononuclear leukocyte

[Term]
id: CL:0000236
name: B cell
def: "A lymphocyte of B lineage that is capable of B cell mediated immunity." []
is_a: CL:0000542 ! lymphocyte

[Term]
id: CL:0000404
name: electrically signaling cell
def: "A cell that initiates an electrical signal and passes that signal to another cell." []
is_a: CL:0000000 ! cell

[Term]
id: CL:0000451
name: dendritic cell
def: "A cell of hematopoietic origin, typically resident in particular tissues, specialized in the uptake, processing, and transport of antigens to lymph nodes for the purpose of stimulating an immune response via T cell activation. These cells are lineage negative (CD3-negative, CD19-negative, CD34-negative, and CD56-negative)." []
is_a: CL:0000842 ! mononuclear leukocyte
disjoint_from: CL:0000542 ! lymphocyte

[Term]
id: CL:0000540
name: neuron
def: "The basic cellular unit of nervous tissue. Each neuron consists of a body, an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses in the nervous system." []
is_a: CL:0000404 ! electrically signaling cell
is_a: CL:0002319 ! neural cell

[Term]
id: CL:0000542
name: lymphocyte
def: "A lymphocyte is a leukocyte commonly found in the blood and lymph that has the characteristics of a large nucleus, a neutral staining cytoplasm, and prominent heterochromatin." []
is_a: CL:0000842 ! mononuclear leukocyte

[Term]
id: CL:0000556
name: megakaryocyte
def: "A large hematopoietic cell (50 to 100 micron) with a lobated nucleus. Once mature, this cell undergoes multiple rounds of endomitosis and cytoplasmic restructuring to allow platelet formation and release." []
is_a: CL:0000000 ! cell

[Term]
id: CL:0000558
name: reticulocyte
def: "An immature erythrocyte that changes the protein composition of its plasma membrane by exosome formation and extrusion. The types of protein removed differ between species though removal of the transferrin receptor is apparent in mammals and birds." []
is_a: CL:0000000 ! cell

[Term]
id: CL:0000560
name: band form neutrophil
def: "A late neutrophilic metamyelocyte in which the nucleus is indented to more than half the distance to the farthest nuclear margin but in no area being condensed to a single filament. The nucleus is in the form of a curved or coiled band, not having acquired the typical multilobar shape of the mature neutrophil. These cells are fMLP receptor-positive, CD11b-positive, CD35-negative, and CD49d-negative." []
is_a: CL:0000775 ! neutrophil

[Term]
id: CL:0000562
name: nucleate erythrocyte
def: "An erythrocyte having a nucleus." []
is_a: CL:0000232 ! erythrocyte

[Term]
id: CL:0000576
name: monocyte
def: "Myeloid mononuclear recirculating leukocyte that can act as a precursor of tissue macrophages, osteoclasts and some populations of tissue dendritic cells." []
is_a: CL:0000842 ! mononuclear leukocyte

[Term]
id: CL:0000578
name: experimentally modified cell in vitro
def: "A cell in vitro that has undergone physical changes as a consequence of a deliberate and specific experimental procedure." []
is_a: CL:0000000 ! cell

[Term]
id: CL:0000623
name: natural killer cell
def: "A lymphocyte that can spontaneously kill a variety of target cells without prior antigenic activation via germline encoded activation receptors and also regulate immune responses via cytokine release and direct contact with other cells." []
is_a: CL:0000542 ! lymphocyte

[Term]
id: CL:0000624
name: CD4-positive, alpha-beta T cell
def: "A mature alpha-beta T cell that expresses an alpha-beta T cell receptor and the CD4 coreceptor." []
is_a: CL:0000789 ! alpha-beta T cell
disjoint_from: CL:0000625 ! CD8-positive, alpha-beta T cell

[Term]
id: CL:0000625
name: CD8-positive, alpha-beta T cell
def: "A T cell expressing an alpha-beta T cell receptor and the CD8 coreceptor." []
is_a: CL:0000789 ! alpha-beta T cell

[Term]
id: CL:0000681
name: radial glial cell
def: "A cell present in the developing CNS. Functions as both a precursor cell and as a scaffold to support neuronal migration." []
is_a: CL:0002319 ! neural cell

[Term]
id: CL:0000738
name: leukocyte
def: "An achromatic cell of the myeloid or lymphoid lineages capable of ameboid movement, found in blood or other tissue." []
is_a: CL:0000000 ! cell

[Term]
id: CL:0000767
name: basophil
def: "Any of the immature or mature forms of a granular leukocyte that in its mature form has an irregularly shaped, pale-staining nucleus that is partially constricted into two lobes, and with cytoplasm that contains coarse, bluish-black granules of variable size. Basophils contain vasoactive amines such as histamine and serotonin, which are released on appropriate stimulation. A basophil is CD123-positive, CD193-positive, CD203c-positive, and FceRIa-positive." []
is_a: CL:0000081 ! blood cell
is_a: CL:0000738 ! leukocyte

[Term]
id: CL:0000771
name: eosinophil
def: "Any of the immature or mature forms of a granular leukocyte with a nucleus that usually has two lobes connected by one or more slender threads of chromatin, and cytoplasm containing coarse, round granules that are uniform in size and which can be stained by the dye eosin. Eosinophils are CD9-positive, CD191-positive, and CD193-positive." []
is_a: CL:0000081 ! blood cell
is_a: CL:0000738 ! leukocyte

[Term]
id: CL:0000775
name: neutrophil
def: "Any of the immature or mature forms of a granular leukocyte that in its mature form has a nucleus with three to five lobes connected by slender threads of chromatin, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes." []
is_a: CL:0000081 ! blood cell
is_a: CL:0000738 ! leukocyte

[Term]
id: CL:0000776
name: immature neutrophil
def: "Any of the immature forms of a neutrophil in which neutrophilic specific granules are present but other phenotypic features of the mature form may be lacking." []
is_a: CL:0000775 ! neutrophil

[Term]
id: CL:0000786
name: plasma cell
def: "A terminally differentiated, post-mitotic, antibody secreting cell of the B cell lineage with the phenotype CD138-positive, surface immunonoglobulin-negative, and MHC Class II-negative. Plasma cells are oval or round with extensive rough endoplasmic reticulum, a well-developed Golgi apparatus, and a round nucleus having a characteristic cartwheel heterochromatin pattern and are devoted to producing large amounts of immunoglobulin." []
is_a: CL:0000542 ! lymphocyte

[Term]
id: CL:0000789
name: alpha-beta T cell
def: "A T cell that expresses an alpha-beta T cell receptor complex." []
is_a: CL:0000084 ! T cell

[Term]
id: CL:0000794
name: CD8-positive, alpha-beta cytotoxic T cell
def: "A CD8-positive, alpha-beta T cell that is capable of killing target cells in an antigen specific manner with the phenotype perforin-positive and granzyme B-positive." []
is_a: CL:0000625 ! CD8-positive, alpha-beta T cell

[Term]
id: CL:0000814
name: mature NK T cell
def: "A mature alpha-beta T cell of a distinct lineage that bears natural killer markers and a T cell receptor specific for a limited set of ligands. NK T cells have activation and regulatory roles particularly early in an immune response." []
is_a: CL:0000789 ! alpha-beta T cell

[Term]
id: CL:0000836
name: promyelocyte
def: "A precursor in the granulocytic series, being a cell intermediate in development between a myeloblast and myelocyte, that has distinct nucleoli, a nuclear-to-cytoplasmic ratio of 5:1 to 3:1, and containing a few primary cytoplasmic granules. Markers for this cell are fucosyltransferase FUT4-positive, CD33-positive, integrin alpha-M-negative, low affinity immunoglobulin gamma Fc region receptor III-negative, and CD24-negative." []
is_a: CL:0000000 ! cell

[Term]
id: CL:0000842
name: mononuclear leukocyte
def: "A leukocyte with a single non-segmented nucleus in the mature form." []
is_a: CL:0000738 ! leukocyte

[Term]
id: CL:0001064
name: malignant cell
def: "A neoplastic cell that is capable of entering a surrounding tissue" []
is_a: CL:0000000 ! cell

[Term]
id: CL:0002192
name: metamyelocyte
def: "A eosinophil precursor in the granulocytic series, being a cell intermediate in development between a myelocyte and a band form cell. The nucleus becomes indented where the indentation is smaller than half the distance to the farthest nuclear margin; chromatin becomes coarse and clumped; specific granules predominate while primary granules are rare." []
is_a: CL:0000000 ! cell

[Term]
id: CL:0002193
name: myelocyte
def: "A cell type that is the first of the maturation stages of the granulocytic leukocytes normally found in the bone marrow. Granules are seen in the cytoplasm. The nuclear material of the myelocyte is denser than that of the myeloblast but lacks a definable membrane. The cell is flat and contains increasing numbers of granules as maturation progresses." []
is_a: CL:0000000 ! cell

[Term]
id: CL:0002319
name: neural cell
def: "A cell that is part of the nervous system." []
is_a: CL:0000000 ! cell

[Term]
id: CL:0002368
name: respiratory tract epithelial cell
def: "An epithelial cell of the respiratory tract epithelium.  These cells have an endodermal origin." []
is_a: CL:0000066 ! epithelial cell

[Term]
id: CL:0011012
name: neural crest cell
def: "A cell of the neural crest. Neural crest cells are multipotent. Premigratory neural crest cells are found at the neural plate boarder, some of which will undergo ectomesynchymal transition and delamination to form migratory neural crest cells." []
is_a: CL:0000000 ! cell

[Term]
id: CL:0011114
name: segmented neutrophil of bone marrow
def: "A segmented neutrophilic cell of the bone marrow reserve pool that expresses CD11b (integrin alpha-M) and high levels of CD16 (low affinity immunoglobulin gamma Fc region receptor III) on its cell surface." []
is_a: CL:0000775 ! neutrophil

[Term]
id: CL:2000001
name: peripheral blood mononuclear cell
def: "A leukocyte with a single non-segmented nucleus in the mature form found in the circulatory pool of blood." []
is_a: CL:0000842 ! mononuclear leukocyte

[Term]
id: CLO:0000001
name: cell line cell
comment: 'derives from' is transitive, so even cell line cells created through modification of an existing cell line cell have derived_from some initial primary cultured cell that existed at some point in time.
is_a: CL:0000010 ! cultured cell

[Term]
id: CLO:0000018
name: mortal cell line cell
def: "A cell line cell that is capable of replicating a limited number of times in culture before undergoing senescence." []
is_a: CLO:0000001 ! cell line cell

[Term]
id: CLO:0000019
name: immortal cell line cell
def: "A cell line cell that is expected to be capable of an unlimited number of divisions, and is thus able to support indefinite propagation in vitro as part of an immortal cell line." []
is_a: CLO:0000001 ! cell line cell

[Term]
id: CLO:0000031
name: cell line
is_a: OBI:0100060 ! cultured cell population

[Term]
id: CLO:0009828
name: immortal cell line
def: "A cell line that is expected to be capable of indefinite propagation in an vitro culture." []
is_a: CLO:0000031 ! cell line

[Term]
id: CLO:0009829
name: mortal cell line
def: "A cell line is able to support only a limited number of passages in vitro." []
is_a: CLO:0000031 ! cell line

[Term]
id: COB:0000005
name: obsolete elementary charge
is_obsolete: true

[Term]
id: COB:0000011
name: atom
def: "A material entity consisting of exactly one atomic nucleus and the electron(s) orbiting it." []
is_a: BFO:0000040 ! material entity
disjoint_from: COB:0000013 ! molecule

[Term]
id: COB:0000013
name: molecule
def: "A material entity that consists of two or more atoms that are all connected via covalent bonds such that any atom can be transitively connected with any other atom." []
is_a: BFO:0000040 ! material entity

[Term]
id: COB:0000014
name: obsolete macromolecular entity
is_obsolete: true

[Term]
id: COB:0000020
name: obsolete subcellular structure
is_obsolete: true
replaced_by: GO:0110165

[Term]
id: COB:0000021
name: gross anatomical part
def: "A part of a multicellular organism that is a collection of cell components that are not all contained in one cell." []
is_a: UBERON:0000465 ! material anatomical entity

[Term]
id: COB:0000022
name: organism
def: "A material entity that is a maximal functionally integrated unit that develops from a program encoded in a genome" []
is_a: UBERON:0000465 ! material anatomical entity

[Term]
id: COB:0000026
name: processed material entity
def: "A material entity processed by human activity with an intent to produce it." []
is_a: BFO:0000040 ! material entity

[Term]
id: COB:0000032
name: obsolete geographical location
is_obsolete: true

[Term]
id: COB:0000035
name: completely executed planned process
is_a: COB:0000082 ! planned process
disjoint_from: COB:0000083 ! failed planned process
disjoint_from: GO:0008150 ! biological_process

[Term]
id: COB:0000049
name: nucleic acid chain
def: "A molecule that consists of nucleotides (unmodified nucleotide residues and/or modified nucleotide residues) linked by phosphodiester bonds or derivatives of such bonds." []
is_a: COB:0000013 ! molecule

[Term]
id: COB:0000056
name: obsolete immaterial anatomical entity
is_obsolete: true
replaced_by: UBERON:0000466

[Term]
id: COB:0000073
name: obsolete gene product
is_obsolete: true

[Term]
id: COB:0000077
name: obsolete action specification
is_obsolete: true
replaced_by: IAO:0000007

[Term]
id: COB:0000080
name: complex of molecules
def: "A complex of two or more molecules that are not covalently bound." []
is_a: BFO:0000040 ! material entity

[Term]
id: COB:0000082
name: planned process
def: "A process that is initiated by an agent who intends to carry out a plan to achieve an objective through one or more actions as described in a plan specification." []
is_a: BFO:0000015 ! process

[Term]
id: COB:0000083
name: failed planned process
is_a: COB:0000082 ! planned process

[Term]
id: COB:0000110
name: material processing
def: "A completely executed planned process that intends to output material entities from input material entities" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: COB:0000116
name: obsolete cellular membrane
is_obsolete: true

[Term]
id: COB:0000122
name: obsolete physical information carrier
is_obsolete: true

[Term]
id: COB:0000502
name: characteristic

[Term]
id: COB:0001000
name: exposure of organism
def: "A process during which an organism comes into contact with another entity." []
is_a: BFO:0000015 ! process

[Term]
id: COB:0001300
name: device
def: "A processed material entity which is designed to be capable of a process." []
is_a: COB:0000026 ! processed material entity

[Term]
id: ENVO:00001998
name: soil
def: "An environmental material which is primarily composed of minerals, varying proportions of sand, silt, and clay, organic material such as humus, interstitial gases, liquids, and a broad range of resident micro- and macroorganisms." []
is_a: BFO:0000040 ! material entity

[Term]
id: ENVO:00002257
name: podzol
def: "Podzols are soils with a typically ash-grey upper subsurface horizon, bleached by loss of organic matter and iron oxides, on top of a dark accumulation horizon with brown, reddish or black illuviated humus and/or reddish Fe compounds. Podzols occur in humid areas in the boreal and temperate zones and locally also in the tropics." []
is_a: ENVO:00001998 ! soil

[Term]
id: ENVO:00010483
name: environmental material
def: "A material entity which other material entities in an environmental system are primarily or partially composed of." []
is_a: BFO:0000040 ! material entity

[Term]
id: ENVO:01000813
name: geophysical entity
def: "A material part of an astronomical body." []
is_a: BFO:0000040 ! material entity

[Term]
id: ENVO:01001110
name: ecosystem
def: "An environmental system which includes both living and non-living components." []
is_a: BFO:0000040 ! material entity

[Term]
id: ENVO:02500000
name: environmental system process
def: "A process in which includes the components of an environmental system as participants." []
is_a: BFO:0000015 ! process

[Term]
id: FOODON:00002147
name: food material by consumer group
is_a: FOODON:00002403 ! food material

[Term]
id: FOODON:00002403
name: food material
def: "Any substance that can be consumed by an organism to satisfy nutritional or other health needs, or to provide a social or organoleptic food experience" []
is_a: BFO:0000040 ! material entity

[Term]
id: FOODON:00004325
name: animal feed
def: "Food material which can be used to meet nutritional requirements of animals, particularly livestock such as cattle, goats, sheep, horses, chickens and pigs." []
is_a: FOODON:03309997 ! food material for animals

[Term]
id: FOODON:03309997
name: food material for animals
def: "Food product for animal covers foods intended for consumption by domesticated animals." []
is_a: FOODON:00002147 ! food material by consumer group

[Term]
id: GAZ:00000448
name: geographic location
def: "A reference to a place on the Earth, by its name or by its geographical location." []
is_a: BFO:0000029 ! site

[Term]
id: GO:0000785
name: chromatin
def: "The ordered and organized complex of DNA, protein, and sometimes RNA, that forms the chromosome." []
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0001046
name: core promoter sequence-specific DNA binding
def: "Binding to a sequence of DNA that is part of a core promoter region. The core promoter is composed of the transcription start site and binding sites for the RNA polymerase and the basal transcription machinery. The transcribed region might be described as a gene, cistron, or operon." []
is_a: GO:0003674 ! molecular_function
is_a: GO:0043565 ! sequence-specific DNA binding

[Term]
id: GO:0001047
is_a: OBI:0001588 ! binding

[Term]
id: GO:0001172
name: RNA-templated transcription
def: "The synthesis of an RNA transcript from an RNA template." []
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0001508
name: action potential
def: "A process in which membrane potential cycles through a depolarizing spike, triggered in response to depolarization above some threshold, followed by repolarization. This cycle is driven by the flow of ions through various voltage gated channels with different thresholds and ion specificities." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0001755
name: neural crest cell migration
def: "The characteristic movement of cells from the dorsal ridge of the neural tube to a variety of locations in a vertebrate embryo." []
is_a: GO:0016477 ! cell migration

[Term]
id: GO:0001764
name: neuron migration
def: "The characteristic movement of an immature neuron from germinal zones to specific positions where they will reside as they mature." []
is_a: GO:0016477 ! cell migration

[Term]
id: GO:0001788
name: antibody-dependent cellular cytotoxicity
def: "Cytolysis of target cells by natural killer cells, eosinophils, neutrophils, monocytes, or macrophages following engagement of antibodies bound to the target cells by Fc receptors on the effector cells." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0001806
name: type IV hypersensitivity
def: "An inflammatory response driven by T cell recognition of processed soluble or cell-associated antigens leading to cytokine release and leukocyte activation." []
is_a: GO:0002524 ! hypersensitivity

[Term]
id: GO:0001816
name: cytokine production
def: "The appearance of a cytokine due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0001906
name: cell killing
def: "Any process in an organism that results in the killing of its own cells or those of another organism, including in some cases the death of the other organism. Killing here refers to the induction of death in one cell by another cell, not cell-autonomous death due to internal or other environmental conditions." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0001913
name: T cell mediated cytotoxicity
def: "The directed killing of a target cell by a T cell through the release of granules containing cytotoxic mediators or through the engagement of death receptors." []
is_a: GO:0001906 ! cell killing

[Term]
id: GO:0001964
name: startle response
def: "An action or movement due to the application of a sudden unexpected stimulus." []
is_a: GO:0050896 ! response to stimulus
is_a: GO:0050905 ! neuromuscular process

[Term]
id: GO:0002027
name: regulation of heart rate
def: "Any process that modulates the frequency or rate of heart contraction." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0002244
name: hematopoietic progenitor cell differentiation
def: "The process in which precursor cell type acquires the specialized features of a hematopoietic progenitor cell, a class of cell types including myeloid progenitor cells and lymphoid progenitor cells." []
is_a: GO:0030154 ! cell differentiation

[Term]
id: GO:0002250
name: adaptive immune response
def: "An immune response mediated by cells expressing specific receptors for antigens produced through a somatic diversification process, and allowing for an enhanced secondary response to subsequent exposures to the same antigen (immunological memory)." []
is_a: GO:0006955 ! immune response

[Term]
id: GO:0002367
name: cytokine production involved in immune response
def: "The appearance of a cytokine due to biosynthesis or secretion following a cellular stimulus contributing to an immune response, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0002390
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0002507
name: tolerance induction
def: "A process that directly activates any of the steps required for tolerance, a physiologic state in which the immune system does not react destructively against the components of an organism that harbors it or against antigens that are introduced to it." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0002514
name: B cell tolerance induction
def: "A process involving any mechanism for tolerance induction in B cells." []
is_a: GO:0002507 ! tolerance induction

[Term]
id: GO:0002517
name: T cell tolerance induction
def: "A process involving any mechanism for tolerance induction in T cells." []
is_a: GO:0002507 ! tolerance induction

[Term]
id: GO:0002524
name: hypersensitivity
def: "An inflammatory response to an exogenous environmental antigen or an endogenous antigen initiated by the adaptive immune system." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0002534
name: cytokine production involved in inflammatory response
def: "The synthesis or release of a cytokine following a inflammatory stimulus as part of an inflammatory response, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0003014
name: renal system process
def: "An organ system process carried out by any of the organs or tissues of the renal system. The renal system maintains fluid balance, and contributes to electrolyte balance, acid/base balance, and disposal of nitrogenous waste products. In humans, the renal system comprises a pair of kidneys, a pair of ureters, urinary bladder, urethra, sphincter muscle and associated blood vessels; in other species, the renal system may comprise related structures (e.g., nephrocytes and malpighian tubules in Drosophila)." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0003015
name: heart process
def: "A circulatory system process carried out by the heart. The heart is a hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood. The heart is a hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0003016
name: respiratory system process
def: "A process carried out by the organs or tissues of the respiratory system. The respiratory system is an organ system responsible for respiratory gaseous exchange." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0003094
name: glomerular filtration
def: "The process in which plasma is filtered through the glomerular membrane which consists of capillary endothelial cells, the basement membrane, and epithelial cells. The glomerular filtrate is the same as plasma except it has no significant amount of protein." []
is_a: GO:0003014 ! renal system process

[Term]
id: GO:0003674
name: molecular_function
def: "A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs." []
is_a: BFO:0000015 ! process

[Term]
id: GO:0003823
name: antigen binding
def: "Binding to an antigen, any substance which is capable of inducing a specific immune response and of reacting with the products of that response, the specific antibody or specifically sensitized T-lymphocytes, or both. Binding may counteract the biological activity of the antigen. Antigen binding by an MHC protein complex allows the antigen to be displayed to a T cell or NK cell." []
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0003824
name: catalytic activity
def: "Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic." []
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0003939
name: L-iditol 2-dehydrogenase (NAD+) activity
def: "Catalysis of the reaction: L-iditol + NAD+ = L-sorbose + NADH + H+. Acts on a number of sugar alcohols, including (but not limited to) L-iditol, D-glucitol, D-xylitol, and D-galactitol." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0003964
name: RNA-directed DNA polymerase activity
def: "Catalysis of the reaction: a 2'-deoxyribonucleoside 5'-triphosphate + DNA(n) = diphosphate + DNA(n+1); RNA-template-directed extension of the 3'-end of a DNA strand by one deoxynucleotide at a time." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0003990
name: acetylcholinesterase activity
def: "Catalysis of the reaction: acetylcholine + H2O = choline + acetate." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0003997
name: acyl-CoA oxidase activity
def: "Catalysis of the reaction: a 2,3-saturated acyl-CoA + O2 = a (2E)-enoyl-CoA + H2O2." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0004021
name: L-alanine:2-oxoglutarate transaminase activity
def: "Catalysis of the reaction: L-alanine + 2-oxoglutarate = pyruvate + L-glutamate." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0004035
name: alkaline phosphatase activity
def: "Catalysis of the reaction: a phosphate monoester + H2O = an alcohol + phosphate, with an alkaline pH optimum." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0004069
name: L-aspartate:2-oxoglutarate transaminase activity
def: "Catalysis of the reaction: L-aspartate + 2-oxoglutarate = oxaloacetate + L-glutamate." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0004104
name: cholinesterase activity
def: "Catalysis of the reaction: an acylcholine + H2O = choline + a carboxylic acid anion." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0004111
name: creatine kinase activity
def: "Catalysis of the reaction: ATP + creatine = N-phosphocreatine + ADP + 2 H+." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0004353
name: L-glutamate dehydrogenase [NAD(P)+] activity
def: "Catalysis of the reaction: L-glutamate + NAD(P)+ + H2O = 2-oxoglutarate + NH4+ + NAD(P)H + H+." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0004364
name: glutathione transferase activity
def: "Catalysis of the reaction: RX + glutathione = an S-substituted glutathione + a halide anion + H+." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0004448
name: isocitrate dehydrogenase [NAD(P)+] activity
def: "Catalysis of the reaction: isocitrate + NAD(P)+ = 2-oxoglutarate + CO2 + NAD(P)H." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0004457
name: lactate dehydrogenase activity
def: "Catalysis of the reaction: lactate + NAD+ = H+ + NADH + pyruvate." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0004540
name: RNA nuclease activity
def: "Catalysis of the cleavage of phosphodiester bonds in chains of RNA." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0005216
name: monoatomic ion channel activity
def: "Enables the facilitated diffusion of a monoatomic ion (by an energy-independent process) by passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism. May be either selective (it enables passage of a specific ion only) or non-selective (it enables passage of two or more ions of same charge but different size)." []
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0005575
name: cellular_component
def: "A location, relative to cellular compartments and structures, occupied by a macromolecular machine. There are three types of cellular components described in the gene ontology: (1) the cellular anatomical entity where a gene product carries out a molecular function (e.g., plasma membrane, cytoskeleton) or membrane-enclosed compartments (e.g., mitochondrion); (2) virion components, where viral proteins act, and (3) the stable macromolecular complexes of which gene product are parts (e.g., the clathrin complex)." []
is_a: BFO:0000040 ! material entity

[Term]
id: GO:0005577
name: fibrinogen complex
def: "A highly soluble, elongated protein complex found in blood plasma and involved in clot formation. It is converted into fibrin monomer by the action of thrombin. In the mouse, fibrinogen is a hexamer, 46 nm long and 9 nm maximal diameter, containing two sets of nonidentical chains (alpha, beta, and gamma) linked together by disulfide bonds." []
is_a: GO:0032991 ! protein-containing complex

[Term]
id: GO:0005694
name: chromosome
def: "A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information." []
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0005739
name: mitochondrion
def: "A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration." []
is_a: GO:0043227 ! membrane-bounded organelle

[Term]
id: GO:0006006
name: glucose metabolic process
def: "The chemical reactions and pathways involving glucose, the aldohexose gluco-hexose. D-glucose is dextrorotatory and is sometimes known as dextrose; it is an important source of energy for living organisms and is found free as well as combined in homo- and hetero-oligosaccharides and polysaccharides." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0006260
name: DNA replication
def: "The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by the origin recognition complex, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0006282
name: regulation of DNA repair
def: "Any process that modulates the frequency, rate or extent of DNA repair." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0006338
name: chromatin remodeling
def: "A dynamic process of chromatin reorganization resulting in changes to chromatin structure. These changes allow DNA metabolic processes such as transcriptional regulation, DNA recombination, DNA repair, and DNA replication." []
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0006909
name: phagocytosis
def: "A vesicle-mediated transport process that results in the engulfment of external particulate material by phagocytes and their delivery to the lysosome. The particles are initially contained within phagocytic vacuoles (phagosomes), which then fuse with primary lysosomes to effect digestion of the particles." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0006915
name: apoptotic process
def: "A programmed cell death process which begins when a cell receives an internal (e.g. DNA damage) or external signal (e.g. an extracellular death ligand), and proceeds through a series of biochemical events (signaling pathway phase) which trigger an execution phase. The execution phase is the last step of an apoptotic process, and is typically characterized by rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), plasma membrane blebbing and fragmentation of the cell into apoptotic bodies. When the execution phase is completed, the cell has died." []
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0006955
name: immune response
def: "Any immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat." []
is_a: GO:0050896 ! response to stimulus

[Term]
id: GO:0006974
name: DNA damage response
def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism." []
is_a: GO:0050896 ! response to stimulus

[Term]
id: GO:0007009
name: plasma membrane organization
def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the plasma membrane." []
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0007049
name: cell cycle
def: "The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0007283
name: spermatogenesis
def: "The developmental process by which male germ line stem cells self renew or give rise to successive cell types resulting in the development of a spermatozoa." []
is_a: GO:0022414 ! reproductive process

[Term]
id: GO:0007565
name: female pregnancy
def: "The set of physiological processes that allow an embryo or foetus to develop within the body of a female animal. It covers the time from fertilization of a female ovum by a male spermatozoon until birth." []
is_a: GO:0022414 ! reproductive process

[Term]
id: GO:0007566
name: embryo implantation
def: "Attachment of the blastocyst to the uterine lining." []
is_a: GO:0022414 ! reproductive process

[Term]
id: GO:0007596
name: blood coagulation
def: "The sequential process in which the multiple coagulation factors of the blood interact, ultimately resulting in the formation of an insoluble fibrin clot; it may be divided into three stages: stage 1, the formation of intrinsic and extrinsic prothrombin converting principle; stage 2, the formation of thrombin; stage 3, the formation of stable fibrin polymers." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0007611
name: learning or memory
def: "The acquisition and processing of information and/or the storage and retrieval of this information over time." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0008083
name: growth factor activity
def: "The function that stimulates a cell to grow or proliferate. Most growth factors have other actions besides the induction of cell growth or proliferation." []
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0008150
name: biological_process
def: "A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence." []
is_a: BFO:0000015 ! process

[Term]
id: GO:0008217
name: regulation of blood pressure
def: "Any process that modulates the force with which blood travels through the circulatory system. The process is controlled by a balance of processes that increase pressure and decrease pressure." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0008228
name: opsonization
def: "The process in which a microorganism (or other particulate material) is rendered more susceptible to phagocytosis by coating with an opsonin, a blood serum protein such as a complement component or antibody." []
is_a: GO:0006909 ! phagocytosis

[Term]
id: GO:0008253
name: 5'-nucleotidase activity
def: "Catalysis of the reaction: a 5'-ribonucleotide + H2O = a ribonucleoside + phosphate." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0008283
name: cell population proliferation
def: "The multiplication or reproduction of cells, resulting in the expansion of a cell population." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0008347
name: glial cell migration
def: "The orderly movement of a glial cell, non-neuronal cells that provide support and nutrition, maintain homeostasis, form myelin, and participate in signal transmission in the nervous system." []
is_a: GO:0016477 ! cell migration

[Term]
id: GO:0009566
name: fertilization
def: "The union of gametes of opposite sexes during the process of sexual reproduction to form a zygote. It involves the fusion of the gametic nuclei (karyogamy) and cytoplasm (plasmogamy)." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0009636
name: response to toxic substance
def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a toxic stimulus." []
is_a: GO:0050896 ! response to stimulus

[Term]
id: GO:0009987
name: cellular process
def: "Any process that is carried out at the cellular level, but not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0010467
name: gene expression
def: "The process in which a gene's sequence is converted into a mature gene product (protein or RNA). This includes the production of an RNA transcript and its processing, as well as translation and maturation for protein-coding genes." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0010573
name: vascular endothelial growth factor production
def: "The appearance of vascular endothelial growth factor production due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0015925
name: galactosidase activity
def: "Catalysis of the hydrolysis of galactosyl compounds, substances containing a group derived from a cyclic form of galactose or a galactose derivative." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0016064
name: immunoglobulin mediated immune response
def: "An immune response mediated by immunoglobulins, whether cell-bound or in solution." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0016160
name: amylase activity
def: "Catalysis of the hydrolysis of amylose or an amylose derivative." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0016231
name: beta-N-acetylglucosaminidase activity
def: "Catalysis of the hydrolysis of terminal non-reducing N-acetyl-D-glucosamine residues in N-acetyl-beta-D-glucosaminides." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0016477
name: cell migration
def: "The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues." []
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0016491
name: oxidoreductase activity
def: "Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0016788
name: hydrolase activity, acting on ester bonds
def: "Catalysis of the hydrolysis of any ester bond." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0019814
name: immunoglobulin complex
def: "A protein complex that in its canonical form is composed of two identical immunoglobulin heavy chains and two identical immunoglobulin light chains, held together by disulfide bonds and sometimes complexed with additional proteins. An immunoglobulin complex may be embedded in the plasma membrane or present in the extracellular space, in mucosal areas or other tissues, or circulating in the blood or lymph." []
is_a: GO:0032991 ! protein-containing complex

[Term]
id: GO:0019815
name: B cell receptor complex
def: "An immunoglobulin complex that is present in the plasma membrane of B cells and that in its canonical form is composed of two identical immunoglobulin heavy chains and two identical immunoglobulin light chains and a signaling subunit, a heterodimer of the Ig-alpha and Ig-beta proteins." []
is_a: OBI:1110022 ! adaptive immune receptor

[Term]
id: GO:0019835
name: cytolysis
def: "The rupture of cell membranes and the loss of cytoplasm." []
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0019882
name: antigen processing and presentation
def: "The process in which an antigen-presenting cell expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0019904
name: protein domain specific binding
def: "Binding to a specific domain of a protein." []
is_a: OBI:0001588 ! binding

[Term]
id: GO:0021700
name: developmental maturation
def: "A developmental process, independent of morphogenetic (shape) change, that is required for an anatomical structure, cell or cellular component to attain its fully functional state." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0022414
name: reproductive process
def: "A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0030041
name: actin filament polymerization
def: "Assembly of actin filaments by the addition of actin monomers to a filament." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0030097
name: hemopoiesis
def: "The process whose specific outcome is the progression of the myeloid and lymphoid derived organ/tissue systems of the blood and other parts of the body over time, from formation to the mature structure. The site of hemopoiesis is variable during development, but occurs primarily in bone marrow or kidney in many adult vertebrates." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0030154
name: cell differentiation
def: "The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state." []
is_a: GO:0048869 ! cellular developmental process

[Term]
id: GO:0030182
name: neuron differentiation
def: "The process in which a relatively unspecialized cell acquires specialized features of a neuron." []
is_a: GO:0030154 ! cell differentiation

[Term]
id: GO:0031175
name: neuron projection development
def: "The process whose specific outcome is the progression of a neuron projection over time, from its formation to the mature structure. A neuron projection is any process extending from a neural cell, such as axons or dendrites (collectively called neurites)." []
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0032601
name: connective tissue growth factor production
def: "The appearance of connective tissue growth factor due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032602
name: chemokine production
def: "The appearance of a chemokine due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels. All chemokines possess a number of conserved cysteine residues involved in intramolecular disulfide bond formation. Some chemokines are considered pro-inflammatory and can be induced during an immune response to recruit cells of the immune system to a site of infection, while others are considered homeostatic and are involved in controlling the migration of cells during normal processes of tissue maintenance or development. Chemokines are found in all vertebrates, some viruses and some bacteria." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032604
name: granulocyte macrophage colony-stimulating factor production
def: "The appearance of granulocyte macrophage colony-stimulating factor due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032605
name: hepatocyte growth factor production
def: "The appearance of hepatocyte growth factor due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032606
name: type I interferon production
def: "The appearance of type I interferon due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels. Type I interferons include the interferon-alpha, beta, delta, episilon, zeta, kappa, tau, and omega gene families." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032607
name: interferon-alpha production
def: "The appearance of interferon-alpha due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032606 ! type I interferon production

[Term]
id: GO:0032608
name: interferon-beta production
def: "The appearance of interferon-beta due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032609
name: type II interferon production
def: "The appearance of interferon-gamma due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels. Interferon-gamma is also known as type II interferon." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032610
name: interleukin-1 alpha production
def: "The appearance of interleukin-1 alpha due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032612 ! interleukin-1 production

[Term]
id: GO:0032611
name: interleukin-1 beta production
def: "The appearance of interleukin-1 beta due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032612 ! interleukin-1 production

[Term]
id: GO:0032612
name: interleukin-1 production
def: "The appearance of interleukin-1 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032613
name: interleukin-10 production
def: "The appearance of interleukin-10 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032614
name: interleukin-11 production
def: "The appearance of interleukin-11 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032615
name: interleukin-12 production
def: "The appearance of interleukin-12 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032616
name: interleukin-13 production
def: "The appearance of interleukin-13 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032617
name: obsolete interleukin-14 production
def: "OBSOLETE. The appearance of interleukin-14 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032618
name: interleukin-15 production
def: "The appearance of interleukin-15 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032619
name: interleukin-16 production
def: "The appearance of interleukin-16 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032620
name: interleukin-17 production
def: "The appearance of any member of the interleukin-17 family of cytokines due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032621
name: interleukin-18 production
def: "The appearance of interleukin-18 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032622
name: interleukin-19 production
def: "The appearance of interleukin-19 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032623
name: interleukin-2 production
def: "The appearance of interleukin-2 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032624
name: interleukin-20 production
def: "The appearance of interleukin-20 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032625
name: interleukin-21 production
def: "The appearance of interleukin-21 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032626
name: interleukin-22 production
def: "The appearance of interleukin-22 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032627
name: interleukin-23 production
def: "The appearance of interleukin-23 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032628
name: interleukin-24 production
def: "The appearance of interleukin-24 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032629
name: interleukin-25 production
def: "The appearance of interleukin-25 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032630
name: interleukin-26 production
def: "The appearance of interleukin-26 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032631
name: interleukin-27 production
def: "The appearance of interleukin-27 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032632
name: interleukin-3 production
def: "The appearance of interleukin-3 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032633
name: interleukin-4 production
def: "The appearance of interleukin-4 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032634
name: interleukin-5 production
def: "The appearance of interleukin-5 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032635
name: interleukin-6 production
def: "The appearance of interleukin-6 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032636
name: interleukin-7 production
def: "The appearance of interleukin-7 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032637
name: interleukin-8 production
def: "The appearance of interleukin-8 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032638
name: interleukin-9 production
def: "The appearance of interleukin-9 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032639
name: TRAIL production
def: "The appearance of TRAIL due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032640
name: tumor necrosis factor production
def: "The appearance of tumor necrosis factor due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels. Tumor necrosis factor is an inflammatory cytokine produced by macrophages/monocytes during acute inflammation and which is responsible for a diverse range of signaling events within cells, leading to necrosis or apoptosis." []
synonym: "TNF alpha production" EXACT []
is_a: GO:0071706 ! tumor necrosis factor superfamily cytokine production

[Term]
id: GO:0032641
name: lymphotoxin A production
def: "The chemical reactions and pathways resulting in the formation of the cytokine lymphotoxin A." []
synonym: "TNF beta production" EXACT []
is_a: GO:0071706 ! tumor necrosis factor superfamily cytokine production

[Term]
id: GO:0032905
name: transforming growth factor beta1 production
def: "The appearance of transforming growth factor-beta1 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032906
name: transforming growth factor beta2 production
def: "The appearance of transforming growth factor-beta2 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032907
name: transforming growth factor beta3 production
def: "The appearance of transforming growth factor-beta3 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0032991
name: protein-containing complex
def: "A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together." []
synonym: "protein complex" EXACT []
is_a: COB:0000080 ! complex of molecules
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0033036
name: macromolecule localization
def: "Any process in which a macromolecule is transported to, or maintained in, a specific location." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0034061
name: DNA polymerase activity
def: "Catalysis of the reaction: a 2'-deoxyribonucleoside 5'-triphosphate + DNA(n) = diphosphate + DNA(n+1)." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0034343
name: type III interferon production
def: "The appearance of type III interferon due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels. Interferon lambda is the only member of the type III interferon found so far." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0035393
name: chemokine (C-X-C motif) ligand 9 production
def: "The appearance of chemokine (C-X-C motif) ligand 9 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032602 ! chemokine production

[Term]
id: GO:0035397
name: helper T cell enhancement of adaptive immune response
def: "Positive regulation of an adaptive immune response mediated via cytokine production by helper T cell." []
is_a: GO:0002250 ! adaptive immune response

[Term]
id: GO:0035398
name: helper T cell enhancement of T cell mediated immune response
def: "Positive regulation of a T cell mediated immune response mediated via cytokine production by a helper T cell." []
is_a: GO:0035397 ! helper T cell enhancement of adaptive immune response

[Term]
id: GO:0035399
name: helper T cell enhancement of B cell mediated immune response
def: "Positive regulation of a B cell mediated immune response mediated via cytokine production by a helper T cell." []
is_a: GO:0035397 ! helper T cell enhancement of adaptive immune response

[Term]
id: GO:0035746
name: granzyme A production
def: "The appearance of granzyme A due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0035944
name: perforin production
def: "The appearance of a perforin protein due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0036262
name: granulysin production
def: "The appearance of granulysin due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0036392
name: chemokine (C-C motif) ligand 20 production
def: "The appearance of chemokine (C-C motif) ligand 20 (CCL20) due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032602 ! chemokine production

[Term]
id: GO:0040008
name: regulation of growth
def: "Any process that modulates the frequency, rate or extent of the growth of all or part of an organism so that it occurs at its proper speed, either globally or in a specific part of the organism's development." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0042098
name: T cell proliferation
def: "The expansion of a T cell population by cell division. Follows T cell activation." []
is_a: GO:0008283 ! cell population proliferation

[Term]
id: GO:0042101
name: T cell receptor complex
def: "A protein complex that contains a disulfide-linked heterodimer of T cell receptor (TCR) chains, which are members of the immunoglobulin superfamily, and mediates antigen recognition, ultimately resulting in T cell activation. The TCR heterodimer is associated with the CD3 complex, which consists of the nonpolymorphic polypeptides gamma, delta, epsilon, zeta, and, in some cases, eta (an RNA splice variant of zeta) or Fc epsilon chains." []
is_a: OBI:1110022 ! adaptive immune receptor

[Term]
id: GO:0042110
name: T cell activation
def: "The change in morphology and behavior of a mature or immature T cell resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0042446
name: hormone biosynthetic process
def: "The chemical reactions and pathways resulting in the formation of any hormone, naturally occurring substances secreted by specialized cells that affects the metabolism or behavior of other cells possessing functional receptors for the hormone." []
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0042447
name: hormone catabolic process
def: "The chemical reactions and pathways resulting in the breakdown of any hormone, naturally occurring substances secreted by specialized cells that affects the metabolism or behavior of other cells possessing functional receptors for the hormone." []
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0042571
name: immunoglobulin complex, circulating
def: "An immunoglobulin complex that is secreted into extracellular space and found in mucosal areas or other tissues or circulating in the blood or lymph. In its canonical form, a circulating immunoglobulin complex is composed of two identical heavy chains and two identical light chains, held together by disulfide bonds. Some forms of are polymers of the basic structure and contain additional components such as J-chain and the secretory component." []
synonym: "antibody" EXACT []
is_a: GO:0019814 ! immunoglobulin complex
is_a: OBI:1110022 ! adaptive immune receptor

[Term]
id: GO:0042575
name: DNA polymerase complex
def: "A protein complex that possesses DNA polymerase activity and is involved in template directed synthesis of DNA." []
is_a: GO:0032991 ! protein-containing complex
is_a: OBI:0000427 ! enzyme

[Term]
id: GO:0042605
name: peptide antigen binding
def: "Binding to an antigen peptide." []
is_a: GO:0003823 ! antigen binding

[Term]
id: GO:0042611
name: MHC protein complex
def: "A transmembrane protein complex composed of an MHC alpha chain and, in most cases, either an MHC class II beta chain or an invariant beta2-microglobin chain, and with or without a bound peptide, lipid, or polysaccharide antigen." []
is_a: GO:0032991 ! protein-containing complex

[Term]
id: GO:0042756
name: drinking behavior
def: "The specific behavior of an organism relating to the intake of liquids, especially water." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0043005
name: neuron projection
def: "A prolongation or process extending from a nerve cell, e.g. an axon or dendrite." []
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0043227
name: membrane-bounded organelle
def: "Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane." []
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0043316
name: cytotoxic T cell degranulation
def: "The regulated exocytosis of secretory granules containing preformed mediators such as perforin and granzymes by a cytotoxic T cell." []
is_a: GO:0001906 ! cell killing

[Term]
id: GO:0043565
name: sequence-specific DNA binding
def: "Binding to DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding." []
is_a: OBI:0001588 ! binding

[Term]
id: GO:0044423
name: virion component
def: "Any constituent part of a virion, a complete fully infectious extracellular virus particle." []
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0044807
name: macrophage migration inhibitory factor production
def: "The appearance of macrophage migration inhibitory factor due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0044808
name: oncostatin M production
def: "The appearance of oncostatin M due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0044809
name: chemokine (C-C motif) ligand 17 production
def: "The appearance of chemokine (C-C motif) ligand 17 (CCL17) due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032602 ! chemokine production

[Term]
id: GO:0045005
name: DNA-templated DNA replication maintenance of fidelity
def: "A DNA metabolic process that prevents or corrects errors to ensure that DNA is replicated accurately. Errors can be corrected either by intrinsic DNA polymerase proofreading activity or via mismatch repair." []
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0045087
name: innate immune response
def: "Innate immune responses are defense responses mediated by germline encoded components that directly recognize components of potential pathogens." []
is_a: GO:0006955 ! immune response

[Term]
id: GO:0045202
name: synapse
def: "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane." []
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0045289
name: luciferin monooxygenase activity
def: "Catalysis of the generalized reaction: luciferin + O2 = oxidized luciferin + CO2 + light. There may be additional substrates and reactants involved in the reaction. The reaction results in light emission as luciferin returns to the ground state after enzymatic oxidation." []
is_a: GO:0016491 ! oxidoreductase activity

[Term]
id: GO:0047823
name: D-glutamyltransferase activity
def: "Catalysis of the reaction: D-glutamate + D-glutamine = gamma-D-glutamyl-D-glutamate + NH4+. Can also transfer additional glutamyl residues to a peptide, extending the polypeptide chain." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0048709
name: oligodendrocyte differentiation
def: "The process in which a relatively unspecialized cell acquires the specialized features of an oligodendrocyte. An oligodendrocyte is a type of glial cell involved in myelinating the axons of neurons in the central nervous system." []
is_a: GO:0030154 ! cell differentiation

[Term]
id: GO:0048856
name: anatomical structure development
def: "The biological process whose specific outcome is the progression of an anatomical structure from an initial condition to its mature state. This process begins with the formation of the structure and ends with the mature structure, whatever form that may be including its natural destruction. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0048869
name: cellular developmental process
def: "A biological process whose specific outcome is the progression of a cell over time from an initial condition to a later condition." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0048871
name: multicellular organismal-level homeostasis
def: "Any process involved in the maintenance of an internal steady state at the level of the multicellular organism." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0050896
name: response to stimulus
def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0050905
name: neuromuscular process
def: "Any process pertaining to the functions of the nervous and muscular systems of an organism." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0051276
name: chromosome organization
def: "A process that is carried out at the cellular level that results in the assembly, arrangement of constituent parts, or disassembly of chromosomes, structures composed of a very long molecule of DNA and associated proteins that carries hereditary information. This term covers covalent modifications at the molecular level as well as spatial relationships among the major components of a chromosome." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0052689
name: carboxylic ester hydrolase activity
def: "Catalysis of the hydrolysis of a carboxylic ester bond." []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0060136
name: embryonic process involved in female pregnancy
def: "A reproductive process occurring in the embryo or fetus that allows the embryo or fetus to develop within the mother." []
is_a: GO:0022414 ! reproductive process

[Term]
id: GO:0060206
name: estrous cycle phase
def: "The progression of physiological phases, occurring in the endometrium during the estrous cycle that recur at regular intervals during the reproductive years. The estrous cycle is an ovulation cycle where the endometrium is resorbed if pregnancy does not occur." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0060259
name: regulation of feeding behavior
def: "Any process that modulates the rate, frequency or extent of the behavior associated with the intake of food." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0061028
name: establishment of endothelial barrier
def: "The establishment of a barrier between endothelial cell layers, such as those in the brain, lung or intestine, to exert specific and selective control over the passage of water and solutes, thus allowing formation and maintenance of compartments that differ in fluid and solute composition." []
is_a: GO:0048856 ! anatomical structure development
is_a: GO:0048869 ! cellular developmental process

[Term]
id: GO:0070288
name: ferritin complex
def: "A protein complex that binds iron and acts as a major iron storage system. There are three major subclasses of ferritins: the classical ferritins (Ftn), the heme-containing bacterioferritins (Bfr) and the DNA-binding proteins from starved cells (Dps). Ftn and Bfr are made of 24 subunits, whereas Dps are smaller with 12 subunits. Ftn is found in most kindoms, while Bfr and Dps are restricted to prokaryotes." []
is_a: GO:0032991 ! protein-containing complex

[Term]
id: GO:0070358
name: actin polymerization-dependent cell motility
def: "A process involved in the controlled movement of a bacterial cell powered by the continuous polymerization of actin at one pole of the cell." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0071604
name: transforming growth factor beta production
def: "The appearance of any member of the transforming growth factor-beta family of cytokines due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels. Transforming growth factor-beta family members include TGF-B1, TGF-B2, and TGF-B3." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0071605
name: monocyte chemotactic protein-1 production
def: "The appearance of monocyte chemotactic protein-1 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032602 ! chemokine production

[Term]
id: GO:0071606
name: chemokine (C-C motif) ligand 4 production
def: "The appearance of chemokine (C-C motif) ligand 4 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032602 ! chemokine production

[Term]
id: GO:0071607
name: macrophage inflammatory protein-1 gamma production
def: "The appearance of macrophage inflammatory protein-1 gamma due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032602 ! chemokine production

[Term]
id: GO:0071608
name: macrophage inflammatory protein-1 alpha production
def: "The appearance of macrophage inflammatory protein 1 alpha due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032602 ! chemokine production

[Term]
id: GO:0071609
name: chemokine (C-C motif) ligand 5 production
def: "The appearance of chemokine (C-C motif) ligand 5 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032602 ! chemokine production

[Term]
id: GO:0071610
name: chemokine (C-C motif) ligand 1 production
def: "The appearance of chemokine (C-C motif) ligand 1 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032602 ! chemokine production

[Term]
id: GO:0071611
name: granulocyte colony-stimulating factor production
def: "The appearance of granulocyte colony-stimulating factor due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0071612
name: IP-10 production
def: "The appearance of IP-10 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032602 ! chemokine production

[Term]
id: GO:0071613
name: granzyme B production
def: "The appearance of granzyme B due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0071706
name: tumor necrosis factor superfamily cytokine production
def: "The appearance of any member of the TNF superfamily due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0071735
name: IgG immunoglobulin complex
def: "A protein complex composed of two identical immunoglobulin heavy chains of an IgG isotype and two identical immunoglobulin light chains, held together by disulfide bonds. An IgG immunoglobulin complex may be embedded in the plasma membrane or present in the extracellular space, in mucosal areas or other tissues, or circulating in the blood or lymph." []
is_a: GO:0019814 ! immunoglobulin complex

[Term]
id: GO:0071742
name: IgE immunoglobulin complex
def: "A protein complex composed of two identical immunoglobulin heavy chains of the IgE isotype and two identical immunoglobulin light chains, held together by disulfide bonds. An IgE immunoglobulin complex may be embedded in the plasma membrane or present in the extracellular space, in mucosal areas or other tissues, or circulating in the blood or lymph." []
is_a: GO:0019814 ! immunoglobulin complex

[Term]
id: GO:0071745
name: IgA immunoglobulin complex
def: "A protein complex composed of two identical immunoglobulin heavy chains of the IgA isotype and two identical immunoglobulin light chains, held together by disulfide bonds, and sometimes complexed with J chain or J chain and secretory component. An IgA immunoglobulin complex may be embedded in the plasma membrane or present in the extracellular space, in mucosal areas or other tissues, or circulating in the blood or lymph." []
is_a: GO:0019814 ! immunoglobulin complex

[Term]
id: GO:0071753
name: IgM immunoglobulin complex
def: "A protein complex composed of two identical immunoglobulin heavy chains of the IgM isotype and two identical immunoglobulin light chains, held together by disulfide bonds, and in its circulating form complexed with J chain in polymeric forms. An IgM immunoglobulin complex may be embedded in the plasma membrane or present in the extracellular space, in mucosal areas or other tissues, or circulating in the blood or lymph." []
is_a: GO:0019814 ! immunoglobulin complex

[Term]
id: GO:0071924
name: chemokine (C-C motif) ligand 22 production
def: "The appearance of chemokine (C-C motif) ligand 22 (CCL22) due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032602 ! chemokine production

[Term]
id: GO:0072535
name: tumor necrosis factor (ligand) superfamily member 11 production
def: "The appearance of tumor necrosis factor superfamily member 11 (TNFSF11; RANKL) due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0071706 ! tumor necrosis factor superfamily cytokine production

[Term]
id: GO:0090128
name: regulation of synapse maturation
def: "Any process that modulates the extent of synapse maturation, the process that organizes a synapse so that it attains its fully functional state." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0097087
name: interleukin-17A production
def: "The appearance of interleukin-17A due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032620 ! interleukin-17 production

[Term]
id: GO:0097088
name: interleukin-17F production
def: "The appearance of interleukin-17F due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032620 ! interleukin-17 production

[Term]
id: GO:0097278
name: complement-dependent cytotoxicity
def: "Cell killing caused by the membrane attack complex formed following complement activation." []
is_a: GO:0001906 ! cell killing

[Term]
id: GO:0097280
name: histamine secretion mediated by immunoglobulin
def: "Histamine release triggered by the binding of an antigen to an immunoglobulin bound to the cell surface." []
is_a: GO:0006955 ! immune response

[Term]
id: GO:0097281
name: immune complex formation
def: "The process that gives rise to an immune complex. Immune complexes are clusters of antibodies bound to antigen, to which complement may also be fixed, and which may precipitate or remain in solution. Examples are the clumping of cells such as bacteria or red blood cells in the presence of an antibody, precipitation of a toxin after an antibody binds to it, and clumping of viral particles as a result of antibody binding to the virus." []
is_a: GO:0016064 ! immunoglobulin mediated immune response

[Term]
id: GO:0097282
name: immunoglobulin-mediated neutralization
def: "The inhibition of an antigen's biological effects by antibody binding to it. An example is neutralization of diphtheria toxin by preventing its entry into human cells via the binding of antibody specific for diphtheria toxin." []
is_a: GO:0016064 ! immunoglobulin mediated immune response

[Term]
id: GO:0097388
name: chemokine (C-C motif) ligand 19 production
def: "The appearance of chemokine (C-C motif) ligand 19 (CCL19) due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032602 ! chemokine production

[Term]
id: GO:0097389
name: chemokine (C-C motif) ligand 21 production
def: "The appearance of chemokine (C-C motif) ligand 21 (CCL21) due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032602 ! chemokine production

[Term]
id: GO:0097390
name: chemokine (C-X-C motif) ligand 12 production
def: "The appearance of chemokine (C-X-C motif) ligand 12 (CXCL12) due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032602 ! chemokine production

[Term]
id: GO:0097391
name: chemokine (C-X-C motif) ligand 13 production
def: "The appearance of chemokine (C-X-C motif) ligand 13 (CXCL13) due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032602 ! chemokine production

[Term]
id: GO:0097392
name: chemokine (C-X-C motif) ligand 16 production
def: "The appearance of chemokine (C-X-C motif) ligand 16 (CXCL16) due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0032602 ! chemokine production

[Term]
id: GO:0099536
name: synaptic signaling
def: "Cell-cell signaling to, from or within a synapse." []
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0110165
name: cellular anatomical entity
def: "A part of a cellular organism that is either an immaterial entity or a material entity with granularity above the level of a protein complex but below that of an anatomical system. Or, a substance produced by a cellular organism with granularity above the level of a protein complex." []
is_a: GO:0005575 ! cellular_component
is_a: UBERON:0000465 ! material anatomical entity

[Term]
id: GO:0140058
name: neuron projection arborization
def: "The process in which the anatomical structures of a neuron projection are generated and organized into branches. A neuron projection is any process extending from a neural cell, such as axons or dendrites." []
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0140730
name: amphiregulin production
def: "The appearance of amphiregulin due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels. Amphiregulin (AREG) is a ligand of the epidermal growth factor receptor (EGFR), a widely expressed transmembrane tyrosine kinase. AREG is synthesized as a membrane-anchored precursor protein that can engage in juxtacrine signaling on adjacent cells. Alternatively, after proteolytic processing by cell membrane proteases, mainly TACE/ADAM17, AREG is secreted and behaves as an autocrine or paracrine factor." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:0140779
name: XCL1 production
def: "The appearance of XCL1 due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." []
is_a: GO:0001816 ! cytokine production

[Term]
id: GO:1903339
name: negative regulation of cell wall organization or biogenesis
def: "Any process that stops, prevents or reduces the frequency, rate or extent of cell wall organization or biogenesis." []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:1990505
name: mitotic DNA replication maintenance of fidelity
def: "Any maintenance of fidelity that is involved in mitotic cell cycle DNA replication." []
is_a: GO:0045005 ! DNA-templated DNA replication maintenance of fidelity

[Term]
id: HP:0000855
name: Insulin resistance
def: "Increased resistance towards insulin, that is, diminished effectiveness of insulin in reducing blood glucose levels." []
is_a: BFO:0000016 ! disposition

[Term]
id: HP:0002664
name: Neoplasm
def: "An organ or organ-system abnormality that consists of uncontrolled autonomous cell-proliferation which can occur in any part of the body as a benign or malignant neoplasm (tumor)." []
is_a: UBERON:0000465 ! material anatomical entity

[Term]
id: HP:0012824
name: Severity
def: "The intensity or degree of a manifestation." []
is_a: COB:0000502 ! characteristic

[Term]
id: IAO:0000001
name: conditional specification
def: "A directive information entity that specifies what should happen if the trigger condition is fulfilled." []
is_a: IAO:0000033 ! directive information entity

[Term]
id: IAO:0000003
name: measurement unit label
def: "A measurement unit label is as a label that is part of a scalar measurement datum and denotes a unit of measure." []
is_a: IAO:0000009 ! datum label

[Term]
id: IAO:0000005
name: objective specification
def: "A directive information entity that describes an intended process endpoint. When part of a plan specification the concretization is realized in a planned process in which the bearer tries to effect the world so that the process endpoint is achieved." []
is_a: IAO:0000033 ! directive information entity

[Term]
id: IAO:0000006
name: narrative object
def: "A narrative object is an information content entity that is a set of propositions." []
is_a: IAO:0000030 ! information content entity

[Term]
id: IAO:0000007
name: action specification
def: "A directive information entity that describes an action the bearer will take." []
is_a: IAO:0000033 ! directive information entity

[Term]
id: IAO:0000009
name: datum label
def: "A label is a symbol that is part of some other datum and is used to either partially define  the denotation of that datum or to provide a means for identifying the datum as a member of the set of data with the same label" []
is_a: IAO:0000030 ! information content entity

[Term]
id: IAO:0000010
name: software
def: "Software is a plan specification composed of a series of instructions that can be \ninterpreted by or directly executed by a processing unit." []
is_a: IAO:0000104 ! plan specification

[Term]
id: IAO:0000027
name: data item
is_a: IAO:0000030 ! information content entity

[Term]
id: IAO:0000028
name: symbol
def: "An information content entity that is a mark(s) or character(s) used as a conventional representation of another entity." []
is_a: IAO:0000030 ! information content entity

[Term]
id: IAO:0000030
name: information content entity
def: "A generically dependent continuant that is about some thing." []

[Term]
id: IAO:0000032
name: scalar measurement datum
def: "A scalar measurement datum is a measurement datum that is composed of two parts, numerals and a unit label." []
is_a: IAO:0000109 ! measurement datum

[Term]
id: IAO:0000033
name: directive information entity
def: "An information content entity whose concretizations indicate to their bearer how to realize them in a process." []
is_a: IAO:0000030 ! information content entity

[Term]
id: IAO:0000037
name: dot plot
def: "A dot plot is a report graph which is a graphical representation of data where each data point is represented by a single dot placed on coordinates corresponding to data point values in particular dimensions." []
is_a: IAO:0000038 ! graph

[Term]
id: IAO:0000038
name: graph
def: "A diagram that presents one or more tuples of information by mapping those tuples in to a two dimensional space in a non arbitrary way." []
is_a: IAO:0000308 ! figure

[Term]
id: IAO:0000055
name: rule
def: "A rule is an executable which guides, defines, restricts actions." []
is_a: IAO:0000001 ! conditional specification

[Term]
id: IAO:0000064
name: algorithm
def: "A plan specification which describes the inputs and output of mathematical functions as well as workflow of execution for achieving an predefined objective. Algorithms are realized usually by means of implementation as computer programs for execution by automata." []
is_a: IAO:0000104 ! plan specification

[Term]
id: IAO:0000078
name: curation status specification
def: "The curation status of the term. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value." []
is_a: IAO:0000102 ! data about an ontology part

[Term]
id: IAO:0000079
name: density plot
def: "A density plot is a report graph which is a graphical representation of data where the tint of a particular pixel corresponds to some kind of function corresponding the the amount of data points relativelly with their distance from the the pixel." []
is_a: IAO:0000038 ! graph

[Term]
id: IAO:0000088
name: report
def: "A document assembled by an author for the purpose of providing information for the audience. A report is the output of a documenting process and has the objective to be consumed by a specific audience. Topic of the report is on something that has completed. A report is not a single figure. Examples of reports are journal article, patent application, grant progress report, case report (not patient record)." []
is_a: IAO:0000310 ! document

[Term]
id: IAO:0000098
name: data format specification
def: "A data format specification is the information content borne by the document published defining the specification.\nExample: The ISO document specifying what encompasses an XML document; The instructions in a XSD file" []
is_a: IAO:0000033 ! directive information entity

[Term]
id: IAO:0000100
name: homogenous data collection
def: "A data item that is an aggregate of other data items of the same type that have something in common. Averages and distributions can be determined for data sets." []
is_a: IAO:0000027 ! data item

[Term]
id: IAO:0000101
name: image
def: "An image is an affine projection to a two dimensional surface, of measurements of some quality of an entity or entities repeated at regular intervals across a spatial range, where the measurements are represented as color and luminosity on the projected on surface." []
is_a: IAO:0000308 ! figure

[Term]
id: IAO:0000102
name: data about an ontology part
def: "Data about an ontology part is a data item about a part of an ontology, for example a term" []
is_a: IAO:0000027 ! data item

[Term]
id: IAO:0000104
name: plan specification
def: "A directive information entity with action specifications and objective specifications as parts, and that may be concretized as a realizable entity that, if realized, is realized in a process in which the bearer tries to achieve the objectives by taking the actions specified." []
is_a: IAO:0000033 ! directive information entity

[Term]
id: IAO:0000109
name: measurement datum
def: "A measurement datum is an information content entity that is a recording of the output of a measurement such as produced by a device." []
is_a: IAO:0000027 ! data item

[Term]
id: IAO:0000144
name: conclusion textual entity
def: "A textual entity that expresses the results of reasoning about a problem, for instance as typically found towards the end of scientific papers." []
is_a: IAO:0000300 ! textual entity
is_a: OBI:0001909 ! conclusion based on data

[Term]
id: IAO:0000178
name: material information bearer
def: "A material entity in which a concretization of an information content entity inheres." []
is_a: BFO:0000040 ! material entity

[Term]
id: IAO:0000179
name: histogram
def: "A histogram is a report graph which is a statistical description of a\ndistribution in terms of occurrence frequencies of different event classes." []
is_a: IAO:0000038 ! graph

[Term]
id: IAO:0000180
name: heatmap
def: "A heatmap is a report graph which is a graphical representation of data\nwhere the values taken by a variable(s) are shown as colors in a\ntwo-dimensional map." []
is_a: IAO:0000038 ! graph

[Term]
id: IAO:0000183
name: dendrogram
def: "A dendrogram is a report graph which is a tree diagram\nfrequently used to illustrate the arrangement of the clusters produced by a\nclustering algorithm." []
is_a: IAO:0000038 ! graph

[Term]
id: IAO:0000184
name: scatter plot
def: "A scatterplot is a graph which uses Cartesian coordinates to display values for two variables for a set of data. The data is displayed as a collection of points, each having the value of one variable determining the position on the horizontal axis and the value of the other variable determining the position on the vertical axis." []
is_a: IAO:0000038 ! graph

[Term]
id: IAO:0000225
name: obsolescence reason specification
def: "The reason for which a term has been deprecated. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value." []
is_a: IAO:0000102 ! data about an ontology part

[Term]
id: IAO:0000300
name: textual entity
def: "A textual entity is a part of a manifestation (FRBR sense), a generically dependent continuant whose concretizations are patterns of glyphs intended to be interpreted as words, formulas, etc." []
is_a: IAO:0000030 ! information content entity

[Term]
id: IAO:0000306
name: table
def: "A textual entity that contains a two-dimensional arrangement of texts repeated at regular intervals across a spatial range, such that the spatial relationships among the constituent texts expresses propositions" []
is_a: IAO:0000300 ! textual entity

[Term]
id: IAO:0000308
name: figure
def: "An information content entity consisting of a two dimensional arrangement of information content entities such that the arrangement itself is about something." []
is_a: IAO:0000030 ! information content entity

[Term]
id: IAO:0000310
name: document
def: "A collection of information content entities intended to be understood together as a whole" []
is_a: IAO:0000030 ! information content entity

[Term]
id: IAO:0000311
name: publication
def: "A document that is the output of a publishing process." []
is_a: IAO:0000310 ! document

[Term]
id: IAO:0000312
name: publication about an investigation
def: "A publication that is about an investigation" []
is_a: IAO:0000311 ! publication

[Term]
id: IAO:0000401
name: one dimensional cartesian spatial coordinate datum
def: "A cartesion spatial coordinate datum that  uses one value to specify a position along a one dimensional spatial region" []
is_a: IAO:0000027 ! data item

[Term]
id: IAO:0000408
name: length measurement datum
def: "A scalar measurement datum that is the result of measurement of length quality" []
is_a: IAO:0000032 ! scalar measurement datum

[Term]
id: IAO:0000409
name: denotator type
def: "A denotator type indicates how a term should be interpreted from an ontological perspective." []
is_a: IAO:0000102 ! data about an ontology part

[Term]
id: IAO:0000414
name: mass measurement datum
def: "A scalar measurement datum that is the result of measurement of mass quality" []
is_a: IAO:0000032 ! scalar measurement datum

[Term]
id: IAO:0000416
name: time measurement datum
def: "A scalar measurement datum that is the result of measuring a temporal interval" []
is_a: IAO:0000032 ! scalar measurement datum

[Term]
id: IAO:0000422
name: postal address
def: "A textual entity that is used as directive to deliver something to a person, or organization" []
is_a: IAO:0000300 ! textual entity

[Term]
id: IAO:0000429
name: email address
is_a: IAO:0000030 ! information content entity

[Term]
id: IAO:0000572
name: documenting
def: "A planned process in which a document is created or added to by including the specified input in it." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: IAO:0000573
name: line graph
def: "A line graph is a type of graph created by connecting a series of data\npoints together with a line." []
is_a: IAO:0000038 ! graph

[Term]
id: IAO:0000574
name: assigning a centrally registered identifier
def: "A planned process in which a new CRID is created, associated with an entity, and stored in the CRID registry thereby registering it as being associated with some entity" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: IAO:0000577
name: centrally registered identifier symbol
def: "A symbol that is part of a CRID and that is sufficient to look up a record from the CRID's registry." []
is_a: IAO:0000028 ! symbol

[Term]
id: IAO:0000579
name: centrally registered identifier registry
def: "A code set of CRID records, each consisting of a CRID symbol and additional information which was recorded in the code set through an assigning a centrally registered identifier process." []
is_a: IAO:0000030 ! information content entity

[Term]
id: IAO:0000594
name: software application
def: "A software application is software that can be directly executed by some processing unit." []
is_a: IAO:0000010 ! software

[Term]
id: IAO:8000000
name: ontology module
synonym: "ontology file" EXACT []
is_a: IAO:0000102 ! data about an ontology part

[Term]
id: IAO:8000001
name: base ontology module
def: "An ontology module that comprises only of asserted axioms local to the ontology, excludes import directives, and excludes axioms or declarations from external ontologies." []
is_a: IAO:8000000 ! ontology module

[Term]
id: IAO:8000002
name: editors ontology module
def: "An ontology module that is intended to be directly edited, typically managed in source control, and typically not intended for direct consumption by end-users." []
synonym: "source ontology module" EXACT []
is_a: IAO:8000000 ! ontology module

[Term]
id: IAO:8000003
name: main release ontology module
def: "An ontology module that is intended to be the primary release product and the one consumed by the majority of tools." []
is_a: IAO:8000000 ! ontology module

[Term]
id: IAO:8000004
name: bridge ontology module
def: "An ontology module that consists entirely of axioms that connect or bridge two distinct ontology modules. For example, the Uberon-to-ZFA bridge module." []
is_a: IAO:8000000 ! ontology module

[Term]
id: IAO:8000005
name: import ontology module
def: "A subset ontology module that is intended to be imported from another ontology." []
synonym: "import file" EXACT []
is_a: IAO:8000006 ! subset ontology module

[Term]
id: IAO:8000006
name: subset ontology module
def: "An ontology module that is extracted from a main ontology module and includes only a subset of entities or axioms." []
synonym: "ontology slim" EXACT []
synonym: "subset ontology" EXACT []
is_a: IAO:8000000 ! ontology module

[Term]
id: IAO:8000007
name: curation subset ontology module
def: "A subset ontology that is intended as a whitelist for curators using the ontology. Such a subset will exclude classes that curators should not use for curation." []
is_a: IAO:8000006 ! subset ontology module

[Term]
id: IAO:8000008
name: analysis subset ontology module
def: "An ontology module that is intended for usage in analysis or discovery applications." []
is_a: IAO:8000006 ! subset ontology module

[Term]
id: IAO:8000009
name: single layer subset ontology module
def: "A subset ontology that is largely comprised of a single layer or strata in an ontology class hierarchy. The purpose is typically for rolling up for visualization. The classes in the layer need not be disjoint." []
synonym: "ribbon subset" EXACT []
is_a: IAO:8000006 ! subset ontology module

[Term]
id: IAO:8000010
name: exclusion subset ontology module
def: "A subset of an ontology that is intended to be excluded for some purpose. For example, a blacklist of classes." []
synonym: "antislim" EXACT []
is_a: IAO:8000006 ! subset ontology module

[Term]
id: IAO:8000011
name: external import ontology module
def: "An imported ontology module that is derived from an external ontology. Derivation methods include the OWLAPI SLME approach." []
synonym: "external import" EXACT []
is_a: IAO:8000005 ! import ontology module

[Term]
id: IAO:8000012
name: species subset ontology module
def: "A subset ontology that is crafted to either include or exclude a taxonomic grouping of species." []
synonym: "taxon subset" EXACT []
is_a: IAO:8000006 ! subset ontology module

[Term]
id: IAO:8000013
name: reasoned ontology module
def: "An ontology module that contains axioms generated by a reasoner. The generated axioms are typically direct SubClassOf axioms, but other possibilities are available." []
is_a: IAO:8000000 ! ontology module

[Term]
id: IAO:8000014
name: generated ontology module
def: "An ontology module that is automatically generated, for example via a SPARQL query or via template and a CSV." []
is_a: IAO:8000000 ! ontology module

[Term]
id: IAO:8000015
name: template generated ontology module
def: "An ontology module that is automatically generated from a template specification and fillers for slots in that template." []
is_a: IAO:8000014 ! generated ontology module

[Term]
id: IAO:8000016
name: taxonomic bridge ontology module
is_a: IAO:8000004 ! bridge ontology module

[Term]
id: IAO:8000017
name: ontology module subsetted by expressivity
is_a: IAO:8000006 ! subset ontology module

[Term]
id: IAO:8000018
name: obo basic subset ontology module
def: "A subset ontology that is designed for basic applications to continue to make certain simplifying assumptions; many of these simplifying assumptions were based on the initial version of the Gene Ontology, and have become enshrined in many popular and useful tools such as term enrichment tools.\n\nExamples of such assumptions include: traversing the ontology graph ignoring relationship types using a naive algorithm will not lead to cycles (i.e. the ontology is a DAG); every referenced term is declared in the ontology (i.e. there are no dangling clauses).\n\nAn ontology is OBO Basic if and only if it has the following characteristics:\nDAG\nUnidirectional\nNo Dangling Clauses\nFully Asserted\nFully Labeled\nNo equivalence axioms\nSingly labeled edges\nNo qualifier lists\nNo disjointness axioms\nNo owl-axioms header\nNo imports" []
is_a: IAO:8000017 ! ontology module subsetted by expressivity

[Term]
id: IAO:8000019
name: ontology module subsetted by OWL profile
is_a: IAO:8000017 ! ontology module subsetted by expressivity

[Term]
id: IAO:8000020
name: EL++ ontology module
is_a: IAO:8000019 ! ontology module subsetted by OWL profile

[Term]
id: IDO:0000450
name: pathogenic disposition
def: "A disposition to initiate processes that result in a disorder." []
is_a: BFO:0000016 ! disposition

[Term]
id: IDO:0000528
name: pathogen
def: "A material entity with a pathogenic disposition." []
is_a: BFO:0000040 ! material entity

[Term]
id: IDO:0000562
name: antibacterial
def: "A material entity bearing an antibacterial disposition." []
is_a: BFO:0000040 ! material entity

[Term]
id: IDO:0000586
name: infection
def: "A part of an extended organism that itself has as part a population of one or more infectious agents and that (1) exists as a result of processes initiated by members of the infectious agent population and is (2) clinically abnormal in virtue of the presence of this infectious agent population, or (3) has a disposition to bring clinical abnormality to immunocompetent organisms of the same Species as the host (the organism corresponding to the extended organism) through transmission of a member or offspring of a member of the infectious agent population." []
is_a: BFO:0000040 ! material entity

[Term]
id: IDO:0000666
name: human pathogenicity disposition
def: "A disposition to initiate processes that result in a disorder in a human organism." []
is_a: IDO:0000450 ! pathogenic disposition

[Term]
id: MOP:0000543
name: physico-chemical process
def: "A process in which at least one of the participants is a molecule." []
is_a: BFO:0000015 ! process

[Term]
id: MRO:0000013
name: HLA-DR protein complex
is_a: MRO:0001455 ! human MHC class II protein complex

[Term]
id: MRO:0000966
name: H2-Db protein complex
is_a: MRO:0001759 ! mouse MHC class I protein complex with H2-b haplotype

[Term]
id: MRO:0000967
name: H2-Dd protein complex
is_a: MRO:0001460 ! mouse MHC class I protein complex

[Term]
id: MRO:0000971
name: H2-IA protein complex
is_a: MRO:0001461 ! mouse MHC class II protein complex

[Term]
id: MRO:0000973
name: H2-IAd protein complex
is_a: MRO:0000971 ! H2-IA protein complex

[Term]
id: MRO:0000975
name: H2-IAg7 protein complex
is_a: MRO:0000971 ! H2-IA protein complex

[Term]
id: MRO:0000991
name: H2-Kb protein complex
is_a: MRO:0001759 ! mouse MHC class I protein complex with H2-b haplotype

[Term]
id: MRO:0000992
name: H2-Kd protein complex
is_a: MRO:0001460 ! mouse MHC class I protein complex

[Term]
id: MRO:0000994
name: H2-Ks protein complex
is_a: MRO:0001460 ! mouse MHC class I protein complex

[Term]
id: MRO:0000997
name: H2-Ld protein complex
is_a: MRO:0001460 ! mouse MHC class I protein complex

[Term]
id: MRO:0001149
name: HLA-C protein complex
is_a: MRO:0001454 ! human MHC class I protein complex

[Term]
id: MRO:0001167
name: HLA-DP protein complex
is_a: MRO:0001455 ! human MHC class II protein complex

[Term]
id: MRO:0001355
name: MHC class I protein complex
is_a: GO:0042611 ! MHC protein complex

[Term]
id: MRO:0001356
name: MHC class II protein complex
is_a: GO:0042611 ! MHC protein complex

[Term]
id: MRO:0001434
name: cattle MHC class I protein complex
is_a: MRO:0001355 ! MHC class I protein complex

[Term]
id: MRO:0001435
name: cattle MHC class II protein complex
is_a: MRO:0001356 ! MHC class II protein complex

[Term]
id: MRO:0001454
name: human MHC class I protein complex
is_a: MRO:0001355 ! MHC class I protein complex

[Term]
id: MRO:0001455
name: human MHC class II protein complex
is_a: MRO:0001356 ! MHC class II protein complex

[Term]
id: MRO:0001460
name: mouse MHC class I protein complex
is_a: MRO:0001355 ! MHC class I protein complex

[Term]
id: MRO:0001461
name: mouse MHC class II protein complex
is_a: MRO:0001356 ! MHC class II protein complex

[Term]
id: MRO:0001465
name: pig MHC class I protein complex
is_a: MRO:0001355 ! MHC class I protein complex

[Term]
id: MRO:0001498
name: mouse MHC protein complex with H2-p haplotype
is_a: GO:0042611 ! MHC protein complex

[Term]
id: MRO:0001530
name: HLA protein complex with A2 serotype
is_a: GO:0042611 ! MHC protein complex

[Term]
id: MRO:0001533
name: HLA protein complex with A24 serotype
is_a: GO:0042611 ! MHC protein complex

[Term]
id: MRO:0001537
name: HLA protein complex with A28 serotype
is_a: GO:0042611 ! MHC protein complex

[Term]
id: MRO:0001538
name: HLA protein complex with A29 serotype
is_a: GO:0042611 ! MHC protein complex

[Term]
id: MRO:0001557
name: HLA protein complex with B27 serotype
is_a: GO:0042611 ! MHC protein complex

[Term]
id: MRO:0001622
name: HLA protein complex with DQ3 serotype
is_a: GO:0042611 ! MHC protein complex

[Term]
id: MRO:0001759
name: mouse MHC class I protein complex with H2-b haplotype
is_a: MRO:0001460 ! mouse MHC class I protein complex

[Term]
id: MRO:0001790
name: rat MHC class I protein complex
is_a: MRO:0001355 ! MHC class I protein complex

[Term]
id: MRO:0001793
name: rat MHC class II protein complex with RT1-A haplotype
is_a: MRO:0001356 ! MHC class II protein complex

[Term]
id: MRO:0002026
name: H2-Dq protein complex
is_a: MRO:0001460 ! mouse MHC class I protein complex

[Term]
id: MRO:0002027
name: H2-Kq protein complex
is_a: MRO:0001460 ! mouse MHC class I protein complex

[Term]
id: NCBITaxon:10090
name: Mus musculus
synonym: "house mouse" EXACT []
synonym: "mouse" EXACT []
is_a: NCBITaxon:39107 ! Murinae

[Term]
id: NCBITaxon:10116
name: Rattus norvegicus
synonym: "brown rat" EXACT []
synonym: "Norway rat" EXACT []
synonym: "rat" EXACT []
synonym: "rats" EXACT []
is_a: NCBITaxon:39107 ! Murinae

[Term]
id: NCBITaxon:10239
name: Viruses
is_a: COB:0000022 ! organism

[Term]
id: NCBITaxon:10358
name: Cytomegalovirus
is_a: NCBITaxon:3044472 ! Orthoherpesviridae

[Term]
id: NCBITaxon:10376
name: human gammaherpesvirus 4
synonym: "Epstein Barr virus" EXACT []
synonym: "Epstein-Barr virus" EXACT []
synonym: "Epstein-Barr virus EBV" EXACT []
synonym: "Human herpesvirus 4" EXACT []
synonym: "Human herpesvirus 4 (Epstein-Barr virus)" EXACT []
synonym: "Human herpesvirus type 4" EXACT []
is_a: NCBITaxon:3044472 ! Orthoherpesviridae

[Term]
id: NCBITaxon:10407
name: Hepatitis B virus
synonym: "hepatitis B virus (HBV)" EXACT []
synonym: "hepatitis B virus HBV" EXACT []
synonym: "hepatitis B virus, HBV" EXACT []
synonym: "Human hepatitis B virus" EXACT []
synonym: "human hepatitis B virus HBV" EXACT []
is_a: NCBITaxon:2732514 ! Revtraviricetes

[Term]
id: NCBITaxon:11050
name: Flaviviridae
synonym: "Flavivirus (arbovirus group B)" EXACT []
is_a: NCBITaxon:2732406 ! Kitrinoviricota

[Term]
id: NCBITaxon:11646
name: Lentivirus
synonym: "Lentivirinae" EXACT []
is_a: NCBITaxon:2732514 ! Revtraviricetes

[Term]
id: NCBITaxon:11676
name: Human immunodeficiency virus 1
synonym: "human immunodeficiency virus 1 HIV-1" EXACT []
synonym: "human immunodeficiency virus HIV-1" EXACT []
synonym: "human immunodeficiency virus type 1 HIV 1" EXACT []
synonym: "human immunodeficiency virus type 1 HIV1" EXACT []
synonym: "human immunodeficiency virus type 1, HIV-1" EXACT []
synonym: "human immunodeficiency virus type I HIV-1" EXACT []
synonym: "human immunodeficiency virus type-1 HIV-1" EXACT []
synonym: "human immunodeficiency virus-1 HIV-1" EXACT []
is_a: NCBITaxon:11646 ! Lentivirus

[Term]
id: NCBITaxon:11709
name: Human immunodeficiency virus 2
synonym: "HIV type 2" EXACT []
synonym: "Human immunodeficiency virus type 2" EXACT []
synonym: "human immunodeficiency virus type 2 HIV-2" EXACT []
synonym: "human immunodeficiency virus type 2, HIV-2" EXACT []
synonym: "Human immunodeficiency virus-2" EXACT []
is_a: NCBITaxon:11646 ! Lentivirus

[Term]
id: NCBITaxon:117571
name: Euteleostomi
synonym: "bony vertebrates" EXACT []
is_a: NCBITaxon:7742 ! Vertebrata <vertebrates>

[Term]
id: NCBITaxon:1206794
name: Ecdysozoa
is_a: NCBITaxon:33213 ! Bilateria

[Term]
id: NCBITaxon:12637
name: Dengue virus
is_a: NCBITaxon:11050 ! Flaviviridae

[Term]
id: NCBITaxon:131567
name: cellular organism
is_a: COB:0000022 ! organism

[Term]
id: NCBITaxon:160
name: Treponema pallidum
is_a: NCBITaxon:3379134 ! Pseudomonadati

[Term]
id: NCBITaxon:197562
name: Pancrustacea
is_a: NCBITaxon:6656 ! Arthropoda

[Term]
id: NCBITaxon:2
name: Bacteria
synonym: "bacteria" EXACT []
synonym: "eubacteria" EXACT []
is_a: COB:0000022 ! organism

[Term]
id: NCBITaxon:2157
name: Archaea
is_a: COB:0000022 ! organism

[Term]
id: NCBITaxon:2559587
name: Riboviria
synonym: "RNA viruses" EXACT []
synonym: "RNA viruses and retroviruses" EXACT []
synonym: "RNA viruses and viroids" EXACT []
is_a: NCBITaxon:10239 ! Viruses

[Term]
id: NCBITaxon:2732406
name: Kitrinoviricota
synonym: "Tombus-Noda-like virus sp." EXACT []
is_a: NCBITaxon:2559587 ! Riboviria

[Term]
id: NCBITaxon:2732514
name: Revtraviricetes
is_a: NCBITaxon:2559587 ! Riboviria

[Term]
id: NCBITaxon:2759
name: Eukaryota
synonym: "eukaryotes" EXACT []
is_a: COB:0000022 ! organism

[Term]
id: NCBITaxon:3044472
name: Orthoherpesviridae
synonym: "Herpesviridae" EXACT []
is_a: NCBITaxon:10239 ! Viruses

[Term]
id: NCBITaxon:3052230
name: Hepacivirus hominis
synonym: "Hepacivirus C" EXACT []
synonym: "Hepatitis C virus" EXACT []
synonym: "hepatitis C virus HCV" EXACT []
synonym: "human hepatitis C virus" EXACT []
synonym: "human hepatitis C virus HCV" EXACT []
synonym: "human hepatitis virus C HCV" EXACT []
synonym: "post-transfusion hepatitis non A non B virus" EXACT []
is_a: NCBITaxon:11050 ! Flaviviridae

[Term]
id: NCBITaxon:314146
name: Euarchontoglires
is_a: NCBITaxon:40674 ! Mammalia

[Term]
id: NCBITaxon:32523
name: Tetrapoda
synonym: "tetrapods" EXACT []
is_a: NCBITaxon:117571 ! Euteleostomi

[Term]
id: NCBITaxon:32524
name: Amniota
synonym: "amniotes" EXACT []
is_a: NCBITaxon:32523 ! Tetrapoda

[Term]
id: NCBITaxon:33154
name: Opisthokonta
is_a: NCBITaxon:2759 ! Eukaryota

[Term]
id: NCBITaxon:33208
name: Metazoa
synonym: "animals" EXACT []
synonym: "metazoans" EXACT []
synonym: "multicellular animals" EXACT []
is_a: NCBITaxon:33154 ! Opisthokonta

[Term]
id: NCBITaxon:33213
name: Bilateria
is_a: NCBITaxon:33208 ! Metazoa

[Term]
id: NCBITaxon:3379134
name: Pseudomonadati
is_a: NCBITaxon:2 ! Bacteria

[Term]
id: NCBITaxon:3702
name: Arabidopsis thaliana
synonym: "mouse-ear cress" EXACT []
synonym: "thale cress" EXACT []
synonym: "thale-cress" EXACT []
is_a: NCBITaxon:2759 ! Eukaryota

[Term]
id: NCBITaxon:37124
name: Chikungunya virus
is_a: NCBITaxon:2732406 ! Kitrinoviricota

[Term]
id: NCBITaxon:388799
name: HIV-1 group O
is_a: NCBITaxon:11676 ! Human immunodeficiency virus 1

[Term]
id: NCBITaxon:39107
name: Murinae
is_a: NCBITaxon:9989 ! Rodentia

[Term]
id: NCBITaxon:40674
name: Mammalia
synonym: "mammals" EXACT []
is_a: NCBITaxon:32524 ! Amniota

[Term]
id: NCBITaxon:44689
name: Dictyostelium discoideum
is_a: NCBITaxon:2759 ! Eukaryota

[Term]
id: NCBITaxon:4890
name: Ascomycota
synonym: "ascomycete fungi" EXACT []
synonym: "sac fungi" EXACT []
is_a: NCBITaxon:33154 ! Opisthokonta

[Term]
id: NCBITaxon:4896
name: Schizosaccharomyces pombe
synonym: "fission yeast" EXACT []
is_a: NCBITaxon:4890 ! Ascomycota

[Term]
id: NCBITaxon:4932
name: Saccharomyces cerevisiae
synonym: "baker's yeast" EXACT []
synonym: "brewer's yeast" EXACT []
synonym: "Saccharomyces boulardii" EXACT []
synonym: "Saccharomyces cerevisiae 'var. diastaticus'" EXACT []
is_a: NCBITaxon:716545 ! saccharomyceta

[Term]
id: NCBITaxon:5140
name: Neurospora
is_a: NCBITaxon:716545 ! saccharomyceta

[Term]
id: NCBITaxon:5820
name: Plasmodium
is_a: NCBITaxon:2759 ! Eukaryota

[Term]
id: NCBITaxon:6239
name: Caenorhabditis elegans
is_a: NCBITaxon:1206794 ! Ecdysozoa

[Term]
id: NCBITaxon:6656
name: Arthropoda
synonym: "arthropods" EXACT []
is_a: NCBITaxon:1206794 ! Ecdysozoa

[Term]
id: NCBITaxon:6668
name: Daphnia
synonym: "common water fleas" EXACT []
is_a: NCBITaxon:197562 ! Pancrustacea

[Term]
id: NCBITaxon:7147
name: Diptera
synonym: "flies" EXACT []
is_a: NCBITaxon:197562 ! Pancrustacea

[Term]
id: NCBITaxon:7157
name: Culicidae
synonym: "mosquitos" EXACT []
is_a: NCBITaxon:7147 ! Diptera

[Term]
id: NCBITaxon:716545
name: saccharomyceta
is_a: NCBITaxon:4890 ! Ascomycota

[Term]
id: NCBITaxon:7227
name: Drosophila melanogaster
synonym: "fruit fly" EXACT []
is_a: NCBITaxon:7147 ! Diptera

[Term]
id: NCBITaxon:7742
name: Vertebrata <vertebrates>
synonym: "Vertebrata" EXACT []
synonym: "vertebrates" EXACT []
is_a: NCBITaxon:33213 ! Bilateria

[Term]
id: NCBITaxon:784
name: Orientia tsutsugamushi
is_a: NCBITaxon:3379134 ! Pseudomonadati

[Term]
id: NCBITaxon:7955
name: Danio rerio
synonym: "leopard danio" EXACT []
synonym: "zebra danio" EXACT []
synonym: "zebra fish" EXACT []
synonym: "zebrafish" EXACT []
is_a: NCBITaxon:117571 ! Euteleostomi

[Term]
id: NCBITaxon:8353
name: Xenopus <genus>
synonym: "Xenopus" EXACT []
is_a: NCBITaxon:32523 ! Tetrapoda

[Term]
id: NCBITaxon:9031
name: Gallus gallus
synonym: "bantam" EXACT []
synonym: "chicken" EXACT []
synonym: "chickens" EXACT []
synonym: "Gallus domesticus" EXACT []
is_a: NCBITaxon:32524 ! Amniota

[Term]
id: NCBITaxon:9606
name: Homo sapiens
synonym: "human" EXACT []
synonym: "human being" EXACT []
is_a: NCBITaxon:314146 ! Euarchontoglires

[Term]
id: NCBITaxon:9989
name: Rodentia
synonym: "rodent" EXACT []
synonym: "rodents" EXACT []
is_a: NCBITaxon:314146 ! Euarchontoglires

[Term]
id: OBA:0000001
name: biological attribute
is_a: COB:0000502 ! characteristic

[Term]
id: OBA:2060180
name: limb coordination efficacy
def: "The process efficacy of a limb coordination." []
is_a: OBA:0000001 ! biological attribute

[Term]
id: OBA:2060181
name: upper limb coordination efficacy
def: "The process efficacy of a upper limb coordination." []
is_a: OBA:2060180 ! limb coordination efficacy

[Term]
id: OBA:2060182
name: lower limb coordination efficacy
def: "The process efficacy of a lower limb coordination." []
is_a: OBA:2060180 ! limb coordination efficacy

[Term]
id: OBA:2060184
name: whole organism stability
def: "The stability of a multicellular organism." []
is_a: OBA:0000001 ! biological attribute

[Term]
id: OBA:2060185
name: facial muscle performance
def: "The functionality of a facial muscle." []
is_a: OBA:0000001 ! biological attribute

[Term]
id: OBA:2060186
name: peripheral nervous system function
def: "The functionality of a peripheral nervous system." []
is_a: OBA:0000001 ! biological attribute

[Term]
id: OBA:2060187
name: knee joint functionality
def: "The functionality of a knee joint." []
is_a: OBA:0000001 ! biological attribute

[Term]
id: OBA:2060188
name: ankle joint functionality
def: "The functionality of a ankle joint." []
is_a: OBA:0000001 ! biological attribute

[Term]
id: OBA:2060189
name: tendon of biceps brachii functionality
def: "The functionality of a tendon of biceps brachii." []
is_a: OBA:0000001 ! biological attribute

[Term]
id: OBA:2060190
name: brachioradialis functionality
def: "The functionality of a brachioradialis." []
is_a: OBA:0000001 ! biological attribute

[Term]
id: OBI:0000006
name: role of being consumer safety officer
def: "the role of a human being that is realized by enforcing regulations to ensure consumer safety" []
is_a: OBI:0000273 ! role of regulator of consumables and medical devices

[Term]
id: OBI:0000010
name: fluorescent reporter intensity
def: "A measurement datum that represents the output of a scanner measuring the intensity value for each fluorescent reporter." []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0000011
name: obsolete planned process
def: "A process that realizes a plan which is the concretization of a plan specification." []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: COB:0000035

[Term]
id: OBI:0000014
name: regulator role
def: "a regulatory role involved with making and/or enforcing relevant legislation and governmental orders" []
synonym: "regulator" EXACT []
is_a: OBI:0000017 ! regulatory role

[Term]
id: OBI:0000015
name: biological feature identification objective
def: "Biological_feature_identification_objective is an objective role carried out by the proposition defining the aim of a study designed to examine or characterize a particular biological feature." []
is_a: IAO:0000005 ! objective specification

[Term]
id: OBI:0000016
name: regulation-assigned role
def: "Regulation-assigned role is a regulatory role defined by legislation or governmental orders" []
is_a: OBI:0000017 ! regulatory role

[Term]
id: OBI:0000017
name: regulatory role
def: "a role which inheres in material entities and is realized in the processes of making, enforcing or being defined by legislation or orders issued by a governmental body." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000018
name: material supplier role
def: "a role realized through the process of supplying materials such as animal subjects, reagents or other materials used in an investigation." []
synonym: "material provider role" EXACT []
synonym: "supplier" EXACT []
is_a: OBI:0000947 ! service provider role

[Term]
id: OBI:0000020
name: contract research organization role
def: "a worker role of carrying out the study according to the protocol document or study plan delivered by the PI, under the control of the study director.  This role cannot make decisions about the study execution" []
synonym: "contract research organization" EXACT []
is_a: OBI:0000116 ! worker role

[Term]
id: OBI:0000021
name: list-mode data file
def: "A list-mode data file is a binary digital entity where events are stored sequentially, parameter by parameter." []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0000023
name: classified data set
def: "A data set that is produced as the output of a class prediction data transformation and consists of a data set with assigned class labels." []
synonym: "data set with assigned class labels" EXACT []
is_a: IAO:0000100 ! homogenous data collection

[Term]
id: OBI:0000025
name: reference substance role
def: "a role inhering in a material entity that is realized when  characteristics or responses elicited by the substance are used for comparison or reference." []
synonym: "reference substance" EXACT []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000026
name: cytological stain role
def: "A dye role that is realized when the stain is used to colour cells and or cellular components for the purposes of visualization" []
synonym: "cytological stain" EXACT []
is_a: OBI:0000250 ! dye role

[Term]
id: OBI:0000029
name: centrifuge pellet role
def: "pellet role is a role which inheres in a material entity and is realized by a material separation process using gravitational force generated by a centrifuge in which the material bearing the pellet role is the heavier or heaviest component of the output material.." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000032
name: clinical research coordinator role
def: "a worker role comprised of handling the administrative duties of a trial or study." []
synonym: "clinical research coordinator" EXACT []
is_a: OBI:0000116 ! worker role

[Term]
id: OBI:0000034
name: supernatant role
def: "supernatant role is a role which inheres in a material entity and is realized by a material separation process using gravitational force in which the material bearing the supernatant role is the liquid component of the output material." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000038
name: chromatography column
def: "Chromatography column in chemistry is a tube and contents (typically glass) used to purify individual chemical compounds from mixtures of compounds. It is often used for preparative applications on scales from micrograms up to kilograms." []
is_a: OBI:0000932 ! material separation device

[Term]
id: OBI:0000040
name: drug role
def: "a role borne by a molecular entity and is realized in a process of absorption by an organism  alters, or effects  (or is assumed to effect) a function(s) which inhere in an organism" []
synonym: "drug" EXACT []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000041
name: pump valve switch
def: "A pump valve switch is a cardinal part of a liquid chromatography instrument that controls the flow." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0000043
name: xenotransplantation
def: "is the transplantation of living cells, tissues or \\norgans from one species to another such as from pigs to humans" []
is_a: OBI:0000105 ! transplantation

[Term]
id: OBI:0000044
name: physical document
def: "A physical document is an object serving as a record of information by means of symbolic marks." []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0000045
name: waiting
def: "A planned process where an agent does not take any new actions towards a particular objective for a period of time until a set of conditions is met." []
is_a: OBI:0600009 ! exposure of material to environment

[Term]
id: OBI:0000047
name: obsolete processed material
def: "Is a material entity that is created or changed during material processing." []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: COB:0000026

[Term]
id: OBI:0000048
name: chromatography device
def: "A device that facilitates the separation of mixtures. The function of a chromatography device involves passing a mixture dissolved in a \"mobile phase\" through a stationary phase, which separates the analyte to be measured from other molecules in the mixture and allows it to be isolated." []
synonym: "chromatography instrument" EXACT []
is_a: OBI:0000832 ! measurement device
is_a: OBI:0000932 ! material separation device
is_a: OBI:0002089 ! container with environmental control

[Term]
id: OBI:0000049
name: mass spectrometer
def: "A mass spectrometer is an instrument which is used to measure the mass to charge ratio of ions. All mass spectrometers consist of three basic parts: an ion source, a mass analyzer, and a detector system. The stages within the mass spectrometer are: 1. Production of ions from the sample 2. Separation of ions with different masses 3. Detection of the number of ions of each mass produced 4.Collection of data to generate the mass spectrum" []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000050
name: obsolete_platform
def: "A platform is an object_aggregate that is the set of instruments and software needed to perform a process. definition_source: OBI." []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000051
name: liquid chromatography mass spectrometry platform
def: "A liquid chromatography mass spectrometry platform is a platform that is the collection of instrument, software and reagents needed to perform a liquid chromatography mass spectrometry protocol. definition_source: OBI." []
is_a: OBI:0000832 ! measurement device
is_a: OBI:0000932 ! material separation device

[Term]
id: OBI:0000052
name: microarray platform
def: "A microarray platform is a platform that contains the instruments, software and reagents needed to perform a microarray protocol. definition_source: OBI." []
is_a: OBI:0001034 ! environmental control device

[Term]
id: OBI:0000054
name: ratio of collected to emitted light
def: "A measurement datum measuring the amount of light collected s compared to the total amount of emitted light in the detector component of a flow cytometer instrument. The datum has a qualitative role" []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0000055
name: software optimization objective
def: "Software_optimization is a software_testing_objective role describing a study designed to identify the best software or parameters of the software." []
is_a: OBI:0000242 ! software testing objective

[Term]
id: OBI:0000056
name: notified body role
def: "Notified body is regulator of consumables and medical devices charged by the Competent Authority with verifying compliance of medical devices (not drugs) with the applicable Essential Requirements stated in the Medical Device Directive" []
synonym: "notified body" EXACT []
is_a: OBI:0000273 ! role of regulator of consumables and medical devices

[Term]
id: OBI:0000057
name: allotransplantation
def: "is the transplantation of organs between members of the same species." []
is_a: OBI:0000105 ! transplantation

[Term]
id: OBI:0000059
name: gamma counter
def: "A processed material which measures gamma radiation" []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000060
name: trial monitor role
def: "a responsible party involved in planning, overseeing the conduct of a study or study component, and interpreting data from a study" []
synonym: "trial monitor" EXACT []
is_a: OBI:0000102 ! responsible party role

[Term]
id: OBI:0000064
name: positive reference substance role
def: "a reference role in which the characteristics or responses elicited by the substance playing the reference substance role are used to establish a \"100%\" response" []
synonym: "positive reference substance" EXACT []
is_a: OBI:0000025 ! reference substance role

[Term]
id: OBI:0000065
name: polyethylene glycol p-(1,1,3,3-tetramethylbutyl)-phenyl ether
def: "triton X100 is a chemical entity which belongs to the group of The pluronics which are triblock copolymers of ethylene oxide and propylene oxide. Triton x-100 is_used_as detergent due to its non-ionic surfactant properties" []
is_a: COB:0000013 ! molecule

[Term]
id: OBI:0000066
name: investigation
def: "a planned process that consists of parts: planning, study design execution, documentation and which produce conclusion(s)." []
synonym: "study" EXACT []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000067
name: evaluant role
def: "a role that inheres in a material entity that is realized in an assay in which data is generated about the bearer of the evaluant role" []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000068
name: reporting party role
def: "a study personnel role played by a party who reports the outcome of a study component" []
synonym: "reporting party" EXACT []
synonym: "submitter" EXACT []
is_a: OBI:0000202 ! investigation agent role

[Term]
id: OBI:0000070
name: assay
def: "A planned process that has the objective to produce information about a material entity (the evaluant) by examining it." []
synonym: "any method" EXACT []
synonym: "measuring" EXACT []
synonym: "scientific observation" EXACT []
synonym: "study assay" EXACT []
is_a: COB:0000035 ! completely executed planned process
disjoint_from: OBI:0000339 ! planning
disjoint_from: OBI:0200000 ! data transformation
disjoint_from: OBI:0600013 ! information acquisition

[Term]
id: OBI:0000071
name: quantitative confidence value
def: "A data item which is used to indicate the degree of uncertainty about a measurement." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0000073
name: sample preparation for assay
def: "A sample_preparation_for_assay is a protocol_application including material_enrollments and biomaterial_transformations. definition_source: OBI." []
synonym: "study" EXACT []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000075
name: diagnosis textual entity
def: "diagnosis is an assessment of a disease or injury, its likely prognosis and treatment." []
is_a: IAO:0000300 ! textual entity

[Term]
id: OBI:0000076
name: unplanned occurrence effecting an investigation
def: "a process which is external in origin to the investigation that has an impact on the outcome." []
is_a: BFO:0000015 ! process

[Term]
id: OBI:0000078
name: eMedical record
def: "An eMedical record is a digital document derived from a computer system used primarily for patient care in a clinical setting.  Not required to be compliant with requirements of 21 CFR Part 11." []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0000079
name: culture medium
def: "a processed material that provides the needed nourishment for microorganisms or cells grown in vitro." []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0000083
name: electronic case report tabulation
def: "An electronic case report tabulation is a digital document containing tabular data about multiple trial participants which is part of a clinical regulatory submission.  An eCRT has the property that it can be audited and compliant with requirements of 21 CFR Part 11  and has format suited to review by regulators." []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0000084
name: polystyrene tube
def: "A polystyrene tube is a test tube made of polystyrene" []
is_a: OBI:0000836 ! test tube

[Term]
id: OBI:0000086
name: reagent role
def: "A role inhering in a biological or chemical entity that is intended to be applied in a scientific technique to participate (or have molecular components that participate) in a chemical reaction that facilitates the generation of data about some entity distinct from the bearer, or the generation of some specified material output distinct from the bearer." []
comment: (copied from ReO)\nReagents are distinguished from instruments or devices that also participate in scientific techniques by the fact that reagents are chemical or biological in nature and necessarily participate in or have parts that participate in some chemical interaction or reaction during their intended participation in some technique.  By contrast, instruments do not participate in a chemical reaction/interaction during the technique.\n\nReagents are distinguished from study subjects/evaluants in that study subjects and evaluants are that about which conclusions are drawn and knowledge is sought in an investigation - while reagents, by definition, are not.  It should be noted, however, that reagent and study subject/evaluant roles can be borne by instances of the same type of material entity - but a given instance will realize only one of these roles in the execution of a given assay or technique. For example, taq polymerase can bear a reagent role or an evaluant role.  In a DNA sequencing assay aimed at generating sequence data about some plasmid, the reagent role of the taq polymerase is realized. In an assay to evaluate the quality of the taq polymerase itself, the evaluant/study subject role of the taq is realized, but not the reagent role since the taq is the subject about which data is generated.\n\nIn regard to the statement that reagents are 'distinct' from the specified outputs of a technique, note that a reagent may be incorporated into a material output of a technique, as long as the IDENTITY of this output is distinct from that of the bearer of the reagent role.  For example, dNTPs input into a PCR are reagents that become part of the material output of this technique, but this output has a new identity (ie that of a 'nucleic acid molecule') that is distinct from the identity of the dNTPs that comprise it.  Similarly, a biotin molecule input into a cell labeling technique are reagents that become part of the specified output, but the identity of the output is that of some modified cell specimen which shares identity with the input unmodified cell specimen, and not with the biotin label. Thus, we see that an important criteria of 'reagent-ness' is that it is a facilitator, and not the primary focus of an investigation or material processing technique (ie not the specified subject/evaluant about which knowledge is sought, or the specified output material of the technique).
synonym: "reagent" EXACT []
is_a: OBI:0003610 ! reactant role

[Term]
id: OBI:0000089
name: role of regulator of chemical manufacturer
def: "a regulator involved with making and enforcing legislation and governmental orders relevant to chemical manufacture" []
synonym: "regulator of chemical manufacture" EXACT []
is_a: OBI:0000014 ! regulator role

[Term]
id: OBI:0000091
name: detector reagent role
def: "a role which inheres in a molecular entity and is realized by the process of recording or registering a stimulus." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000092
name: role of certified IRB professional
def: "a role of which inheres in a Homo sapiens and realized during administration and oversight of the daily activities of Institutional Review Boards (IRBs) in the USA" []
synonym: "certified IRB professional" EXACT []
is_a: OBI:0000016 ! regulation-assigned role

[Term]
id: OBI:0000093
name: patient role
def: "a role which inheres in a person and is realized by the process of being under the care of a physician or health care provider" []
synonym: "patient" EXACT []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000094
name: obsolete material processing
def: "A planned process which results in physical changes in a specified input material" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: COB:0000110

[Term]
id: OBI:0000096
name: protocol testing objective
def: "Protocol_testing_objective is a methodology_testing_objective role describing a study designed to examine the effects of using different protocols." []
is_a: OBI:0000208 ! methodology testing objective

[Term]
id: OBI:0000097
name: participant under investigation role
def: "A role that is realized through the execution of a study design in which the bearer of the role participates and in which data about that bearer is collected." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000100
name: obsolete_role of being first subject treated
def: "First subject treated role is a study subject role borne by the subject realized in the application of the process specified in intervention study design with no previous study subject realizing the role prior in the study" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000101
name: measured expression level
def: "A measurement datum that is the outcome of the quantification of an assay for the activity of a gene, or the number of RNA transcripts." []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0000102
name: responsible party role
def: "a study personnel role played by a party who is accountable for the execution of a study component and can make decisions about the conduct of the study" []
synonym: "responsible party" EXACT []
is_a: OBI:0000202 ! investigation agent role

[Term]
id: OBI:0000103
name: principal investigator role
def: "a responsible party role played by a person responsible for the overall conduct of a study" []
synonym: "principal investigator" EXACT []
is_a: OBI:0000102 ! responsible party role

[Term]
id: OBI:0000105
name: transplantation
def: "a protocol application to replace an organ or tissue of an organism" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000109
name: obsolete biological vector role
def: "a biological vector role is a material to be added role that is realized by the process of transmitting material to the organism that is the target of the transmission." []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000110
name: pH indicator dye role
def: "the role of a dye that is realized when the dye is used in an experiment to measure the pH in a material entity" []
synonym: "pH indicator dye" EXACT []
is_a: OBI:0000250 ! dye role

[Term]
id: OBI:0000112
name: specimen role
def: "A role borne by a material entity that is obtained during a specimen collection process and that can be realized by performing measurements or observations on the specimen." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000113
name: sequence feature identification objective
def: "Sequence_feature_identification_objective is a biological_feature_identification_objective role describing a study designed to examine or characterize molecular features exhibited at the level of a macromolecular sequence, e.g. nucleic acid, protein, polysaccharide." []
is_a: OBI:0000015 ! biological feature identification objective

[Term]
id: OBI:0000115
name: intervention design
def: "An intervention design is a study design in which a controlled process applied to the subjects (the intervention) serves as the independent variable manipulated by the experimentalist. The treatment (perturbation or intervention) defined can be defined as a combination of values taken by independent variable manipulated by the experimentalists are applied to the recruited subjects assigned (possibly by applying specific methods) to treatment groups. The specificity of intervention design is the fact that independent variables are being manipulated and a response of the biological system is evaluated via response variables as monitored by possibly a series of assays." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0000116
name: worker role
def: "a personnel role played by a party who executes a component of the study plan; this can occur before, during, after or outside the study timeline" []
synonym: "worker" EXACT []
is_a: OBI:0000202 ! investigation agent role

[Term]
id: OBI:0000117
name: Bernoulli trial
def: "An assay where the output data is a datum with one of two values denoting success and failure." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000118
name: gene list
def: "A data set of the names or identifiers of genes that are the outcome of an analysis or have been put together for the purpose of an analysis." []
is_a: IAO:0000100 ! homogenous data collection

[Term]
id: OBI:0000119
name: number of particles in subset
def: "A measurement datum measuring the number of subjects in a defined subset in a flow cytometer instrument. The datum has a qualitative role" []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0000125
name: number of lost events electronic
def: "A measurement datum measuring the number of analysis events lost due to errors in data acquisition electronic coincidence in a flow cytometer instrument. The datum has a qualitative role." []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0000129
name: calibration substance role
def: "A reference substance role that is realized when characteristics or responses elicited by the bearer are used to ensure an instrument is within protocol specification of accuracy or performance" []
is_a: OBI:0000025 ! reference substance role

[Term]
id: OBI:0000131
name: molecular feature identification objective
def: "Molecular_feature_identification_objective is a biological_feature_identification_objective role describing a study designed to examine or characterize molecular features of a biological system, e.g. expression profiling, copy number of molecular components, epigenetic modifications." []
is_a: OBI:0000015 ! biological feature identification objective

[Term]
id: OBI:0000134
name: hardware testing objective
def: "Hardware_testing_objective is a methodology_testing_objective role describing a study designed to examine the effects of using different hardware, e.g. scanner." []
is_a: OBI:0000208 ! methodology testing objective

[Term]
id: OBI:0000136
name: incubator
def: "A device in which environmental conditions (light, photoperiod, temperature, humidity, etc.) can be controlled" []
is_a: OBI:0001034 ! environmental control device

[Term]
id: OBI:0000140
name: obsolete_label role
def: "Label role is a role which inheres in a material entity and which is realized in a detection of label assay" []
synonym: "label" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: OBI:0002743

[Term]
id: OBI:0000143
name: baseline participant role
def: "a reference participant role which is realized by making the reference to qualities at the start of the study or intervention" []
synonym: "baseline participant" EXACT []
is_a: OBI:0000220 ! reference subject role

[Term]
id: OBI:0000144
name: role of independent data monitoring committee
def: "a trial monitor role charged recommending whether to continue, modify, or end the trial" []
synonym: "independent data monitoring committee" EXACT []
is_a: OBI:0000060 ! trial monitor role

[Term]
id: OBI:0000145
name: pathologist role
def: "a worker role of being responsible for making the histopathology diagnoses associated with data from a study; this activity occurs outside the study timeline" []
synonym: "Pathologist" EXACT []
is_a: OBI:0000116 ! worker role

[Term]
id: OBI:0000146
name: supernatant collection system harvesting frame
def: "A device that is designed for collecting 90% of the supernatant in a microplate well and separating the living cell with no stress, eliminating centrifugation and other similar techniques. It can be used in a variety of release assays with different radioactive isotopes, such as Cr51 or I125." []
is_a: OBI:0000967 ! container

[Term]
id: OBI:0000151
name: filter paper
def: "A device manufacture with the intent to provide a porous unsized paper used for filtering." []
is_a: OBI:0000932 ! material separation device

[Term]
id: OBI:0000153
name: cell co-culturing
def: "A material combination in which cell cultures of two or more different types are are combined and allowed to culture as one." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000154
name: role of Institutional Review Board
def: "the role of a organization that is realized by members reviewing study designs for their agreement with regulations" []
synonym: "Internal Review Board" EXACT []
is_a: OBI:0000014 ! regulator role

[Term]
id: OBI:0000158
name: eSource document
def: "an eSource document is a digital document consisting of a logical collection of Source data and other eSource documents that can be presented in an ordered way and capture the time of completion, change, and any signatures" []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0000161
name: crossover population role
def: "a role realized when a participant serves as reference to itself" []
synonym: "crossover population" EXACT []
is_a: OBI:0000220 ! reference subject role

[Term]
id: OBI:0000162
name: complete nutrient role
def: "A nutrient role that inheres in a material entity and is realized in the use of that material entity by an organism to provide all needed nourishment." []
synonym: "complete nutrient" EXACT []
is_a: OBI:0000204 ! nutrient role

[Term]
id: OBI:0000163
name: radiolabel role
def: "a molecular label role which inheres in a material entity which is realized by the process of radioactivity detection" []
synonym: "radiolabel" EXACT []
is_a: OBI:0002743 ! molecular label role

[Term]
id: OBI:0000164
name: clonal cDNA library
def: "Mixed population of cDNAs (complementaryDNA) made from mRNA from a defined source, usually a specific cell type. This term should be associated only to nucleic acid interactors not to their proteins product. For instance in 2h screening use living cells (MI:0349) as sample process.\n\nALT DEF (PRS):: a cDNA library is a collection of host cells, typically E.Coli cells but not exclusively. modified by transfer of plasmid DNA molecule used as vector containing a fragment or totality of cDNA molecule (the insert) .  cDNA library may have an array of role and applications." []
is_a: OBI:0000731 ! recombinant vector

[Term]
id: OBI:0000167
name: electronic case report form
def: "An electronic case report form is a digital document used to record all of the protocol required information to be reported for each trial subject. An eCRF has the property that it can be audited and compliant with requirements of 21 CFR Part 11." []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0000169
name: placebo role
def: "a negative reference substance is a reference role in which the substance playing the reference substance role is physically similar in appearance to the test substance" []
synonym: "placebo" EXACT []
is_a: OBI:0000214 ! negative reference substance role

[Term]
id: OBI:0000171
name: autotransplantation
def: "is the transplantation of tissue from one part of \\nthe body to another in the same individual. )" []
is_a: OBI:0000105 ! transplantation

[Term]
id: OBI:0000172
name: parameter threshold
def: "A measurement datum measuring the minimal signal that must be detected to generate an electrical event, as compared to the maximal detected signal in a flow cytometer instrument. The datum has a qualitative role" []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0000174
name: study group role
def: "a study population role where the bearer is a population of material entities and the role is realized in the implementation of a study design wherein the entities bearing the study population role are observed or subjected to intervention according to the study design and are biological replicates, i.e. they receive the same treatment under the protocol" []
synonym: "study group population" EXACT []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000175
name: p-value
def: "A quantitative confidence value that represents the probability of obtaining a result at least as extreme as that actually obtained, assuming that the actual value was the result of chance alone." []
is_a: OBI:0000071 ! quantitative confidence value

[Term]
id: OBI:0000181
name: population
def: "a population is a collection of individuals from the same taxonomic class living, counted or sampled at a particular site or in a particular area" []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0000182
name: NMR 3D molecular structure determination assay
def: "A 3D molecular structure determination assay that uses magnetic properties of atomic nuclei to determine the 3D structure and dynamics of molecules in the input sample." []
is_a: OBI:0003117 ! 3D molecular structure determination assay

[Term]
id: OBI:0000185
name: imaging assay
def: "An assay that produces a picture of an entity." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000186
name: protocol optimization objective
def: "Protocol_optimization is a protocol_testing_objective role describing a study designed to identify the best protocol.  This may be carried out by comparing different protocols or by modifying the parameters used within a single protocol." []
is_a: OBI:0000096 ! protocol testing objective

[Term]
id: OBI:0000188
name: role of pathology review board
def: "a worker role comprised of providing a confirmed and consensus diagnosis for histopathology results obtained during the investigation" []
synonym: "pathology review board" EXACT []
is_a: OBI:0000116 ! worker role

[Term]
id: OBI:0000192
name: microtiter plate
def: "A microtiter_plate is a flat plate with multiple wells used as small test tubes." []
synonym: "microplate" EXACT []
is_a: OBI:0000967 ! container

[Term]
id: OBI:0000196
name: role of impartial witness
def: "a role which inheres in a Homo sapiens and is realized during a clinical trial - the impartial witness is independent of the trial and cannot be unfairly influenced by people involved with the trial" []
synonym: "impartial witness" EXACT []
is_a: OBI:0000016 ! regulation-assigned role

[Term]
id: OBI:00001975
name: chromatin immunoprecipitation
def: "An immunoprecipitation in which chromatin (i.e. packaged DNA which can include protein and RNA complexes) is cut into short regions, reversibly cross linked, and antibodies or tags are used to select for pieces of chromatin with desired characteristics." []
synonym: "ChIP" EXACT []
is_a: OBI:0000690 ! immunoprecipitation

[Term]
id: OBI:0000198
name: biological replicate role
def: "a reference participant role realized by equivalent treatment of participants" []
synonym: "biological replicate" EXACT []
is_a: OBI:0000220 ! reference subject role

[Term]
id: OBI:0000201
name: radioactivity detection
def: "An assay that measures the amount of radiation in the radioactive spectrum (alpha, beta or gamma rays) emitted from an input material." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000202
name: investigation agent role
def: "A role borne by an entity and that is realized in a process that is part of an investigation in which an objective is achieved. These processes include, among others: planning, overseeing, funding, reviewing." []
comment: Philly2013: Historically, this role would have been borne only by humans or organizations. However, we now also want to enable investigations run by robot scientists such as ADAM (King et al, Science, 2009)
synonym: "investigator" EXACT []
synonym: "study person role" EXACT []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000204
name: nutrient role
def: "a role that inheres in a material entity and is realized in the use of that material entity by an organism when it is used in that organism's metabolism and provides nourishment." []
synonym: "nutrient" EXACT []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000205
name: obsolete_dropout role
def: "Dropout is a study subject role borne by an entity realized by a process of leaving the study earlier than the protocol specified and where the bearer of the dropout role had been borne study subject role prior to bearing dropout role." []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000207
name: obsolete health care provider role
def: "a worker role of providing medical care either within or outside the study timeline" []
synonym: "health care provider" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: OMRSE:00000012

[Term]
id: OBI:0000208
name: methodology testing objective
def: "Methodology_testing_objective is an objective role carried out by a proposition defining the aim of the study is to examine the effect of using different methodologies." []
is_a: IAO:0000005 ! objective specification

[Term]
id: OBI:0000210
name: analytical cytology data file
def: "A digital entity intended to capture data in analytical cytology domain." []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0000211
name: proxy respondent role
def: "Proxy respondent is a worker role of describing patient's symptoms or condition to medical personnel" []
synonym: "proxy respondent" EXACT []
is_a: OBI:0000116 ! worker role

[Term]
id: OBI:0000213
name: fluorescence compensation matrix
def: "A fluorescence compensation matrix is a square matrix which is used as the left multiplier of the vector of fluorescence values while performing digital fluorescence compensation. Also, fluorescence compensation matrix is the inverse of the fluorescence spillover matrix." []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0000214
name: negative reference substance role
def: "a reference role in which the characteristics or responses elicited by the substance playing the reference substance role are used to establish a \"no effect\" response" []
synonym: "negative reference substance" EXACT []
is_a: OBI:0000025 ! reference substance role

[Term]
id: OBI:0000215
name: role of legally acceptable representative
def: "a role which inheres in a human or organization who are able subject to applicable law to consent, on behalf of a prospective subject, to the subject`s participation in as clinical trial." []
synonym: "legally acceptable representative" EXACT []
is_a: OBI:0000016 ! regulation-assigned role

[Term]
id: OBI:0000218
name: investigation results report
def: "An investigation report is a report on the results of an investigation." []
is_a: IAO:0000088 ! report

[Term]
id: OBI:0000219
name: cellular feature identification objective
def: "Cellular_feature_identification_objective is a biological_feature_identification_objective role describing a study designed to examine or characterize a biological feature monitored at the cellular level, e.g. stage of cell cycle, stage of differentiation." []
is_a: OBI:0000015 ! biological feature identification objective

[Term]
id: OBI:0000220
name: reference subject role
def: "a reference subject  role which inheres in an organism or entity of organismal origin so that the characteristics or responses of the participant playing the reference participant role are used for comparison or reference" []
synonym: "reference participant" EXACT []
is_a: OBI:0000097 ! participant under investigation role

[Term]
id: OBI:0000221
name: vital dye role
def: "A dye role that is realized when used to detect live cells in an experiment" []
synonym: "vital dye" EXACT []
is_a: OBI:0000250 ! dye role

[Term]
id: OBI:0000223
name: obsolete_blinded medication role
def: "Is a role which inheres in a material entity which is manufactured to be similar in appearance to a test material entity in e.g. a clinical trial to prevent participants from detecting which is the active and inactive substance" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000224
name: sub-investigator role
def: "a worker role authorized to make study-related decisions and carry out tasks related to the study; this role occurs during the study timeline" []
synonym: "sub-investigator" EXACT []
is_a: OBI:0000116 ! worker role

[Term]
id: OBI:0000227
name: data encoding
def: "a documenting process to encode an information entity into a digital document" []
is_a: IAO:0000572 ! documenting

[Term]
id: OBI:0000231
name: enzymatic cleavage
def: "a material processing that digests the fraction of input material that is susceptible to that enzyme" []
is_a: COB:0000110 ! material processing

[Term]
id: OBI:0000232
name: hardware optimization objective
def: "Hardware_optimization is a hardware_testing_objective describing a study designed to identify the best hardware." []
is_a: OBI:0000134 ! hardware testing objective

[Term]
id: OBI:0000233
name: obsolete_defined_material
def: "Place holder class, Utility class to gather the defined classes" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000234
name: trial statistician role
def: "a worker role that analyzes data obtained during a trial or study; this role occurs after the trial or study is completed or terminated." []
synonym: "trial statistician" EXACT []
is_a: OBI:0000116 ! worker role

[Term]
id: OBI:0000235
name: standard error
def: "A quantitative confidence value which is the standard deviations of the sample in a frequency distribution, obtained by dividing the standard deviation by the total number of cases in the frequency distribution." []
is_a: OBI:0000071 ! quantitative confidence value

[Term]
id: OBI:0000237
name: antigen role
def: "A role of a material entity that is being recognized in whole or in part by receptors of the immune system such as antibodies or T cell receptors." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000242
name: software testing objective
def: "Software_testing_objective is a hardware_optimization role describing a study designed to examine the effects of using different software or software parameters, e.g. data processing software." []
is_a: OBI:0000208 ! methodology testing objective

[Term]
id: OBI:0000243
name: sponsor role
def: "a responsible party role involved with any of the following activities:  initiating, managing and funding a study" []
synonym: "sponsor" EXACT []
is_a: OBI:0000102 ! responsible party role

[Term]
id: OBI:0000245
name: organization
def: "An entity that can bear roles, has members, and has a set of organization rules. Members of organizations are either organizations themselves or individual people. Members can bear specific organization member roles that are determined in the organization rules. The organization rules also determine how decisions are made on behalf of the organization by the organization members." []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0000248
name: feed role
def: "a role that inheres in a material entity and is realized in the use of that material entity by lab animal to provide all needed nourishment." []
synonym: "feed" EXACT []
is_a: OBI:0000162 ! complete nutrient role

[Term]
id: OBI:0000249
name: technical replicate role
def: "technical replicate role is realized when two portions from one evaluant are used in replicate runs of an assay" []
synonym: "technical replicate" EXACT []
is_a: OBI:0000220 ! reference subject role

[Term]
id: OBI:0000250
name: dye role
def: "A molecular label role which inheres in a material entity and which is realized in the process of detecting a molecular dye that imparts color to some material of interest." []
synonym: "dye" EXACT []
is_a: OBI:0002743 ! molecular label role

[Term]
id: OBI:0000251
name: cluster
def: "A data set which is a subset of data that are a similar to each other in some way." []
is_a: IAO:0000100 ! homogenous data collection

[Term]
id: OBI:0000252
name: cohort role
def: "a cohort role is a biological replicate role played by a group of study participants who share a common characteristic of interest to the study." []
is_a: OBI:0000198 ! biological replicate role

[Term]
id: OBI:0000253
name: artificially induced nucleic acid hybridization
def: "Is a material transformation in which strands of nucleic acids that are (somewhat) complementary form a double-stranded molecule. Has input at least two single stranded molecules of nucleic acid molecules." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000257
name: DNA extraction
def: "A DNA extraction is a nucleic acid extraction where the desired output material is DNA." []
is_a: OBI:0666667 ! nucleic acid extraction

[Term]
id: OBI:0000260
name: plan
def: "A plan is a realizable entity that is the inheres in a bearer who is committed to realizing it as a completely executed planned process." []
is_a: BFO:0000017 ! realizable entity

[Term]
id: OBI:0000264
name: obsolete_sample population
def: "A sample population is an object aggregate that is selected from the population, e.g. the fish in the net that were sampled from the lake, the people that responded to the call for volunteers." []
synonym: "recruited population" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000268
name: organism feature identification objective
def: "Organism_feature_identification_objective is a biological_feature_identification_objective role describing a study designed to examine or characterize a biological feature monitored at the level of the organism, e.g. height, weight, stage of development, stage of life cycle." []
is_a: OBI:0000015 ! biological feature identification objective

[Term]
id: OBI:0000269
name: number of lost events computer
def: "A measurement datum recording the number of measurement events lost due to overloading of the analysis chip in a flow cytometer instrument. The datum has a qualitative role" []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0000272
name: protocol
def: "A plan specification which has sufficient level of detail and quantitative information to communicate it between investigation agents, so that different investigation agents will reliably be able to independently reproduce the process." []
synonym: "study protocol" EXACT []
is_a: IAO:0000104 ! plan specification

[Term]
id: OBI:0000273
name: role of regulator of consumables and medical devices
def: "a regulator involved with making and enforcing legislation and governmental orders relevant to the development, testing, manufacture and use of food, drugs and medical devices" []
synonym: "drug regulatoy authority" EXACT []
is_a: OBI:0000014 ! regulator role

[Term]
id: OBI:0000274
name: adding a material entity into a target
def: "is a process with the objective to place a material entity bearing the 'material to be added role' into a material bearing the 'target of material addition role'." []
is_a: OBI:0000652 ! material combination

[Term]
id: OBI:0000275
name: analyte role
def: "A measurand role borne by a molecular entity or an atom and realized in an analyte assay which achieves the objective to measure the magnitude/concentration/amount of the analyte in the entity bearing evaluant role." []
is_a: OBI:0002444 ! measurand role

[Term]
id: OBI:0000278
name: disease stage
def: "a part of an occurrence of a disease process which is associated with position in the normal progression of the disease" []
is_a: GO:0008150 ! biological_process

[Term]
id: OBI:0000281
name: intraperitoneal injection
def: "is the injection of a material entity (bearing the administered substance role) into the peritoneum (bearing the target role) of an organism using a syringe" []
is_a: OBI:0000426 ! injection
is_a: OBI:0000429 ! intraperitoneal administration

[Term]
id: OBI:0000286
name: precipitate
def: "a precipitate is a material entity which is output of a precipitation process" []
synonym: "precipited material" EXACT []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0000288
name: protein-protein interaction detection assay
def: "An assay that determines interactions between proteins, such as protein-protein binding." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000291
name: transcription factor binding site assay
def: "An assay tthat determines DNA regions specifically recognized by proteins that function as transcription factors" []
synonym: "TF binding" EXACT []
is_a: OBI:0001146 ! binding assay

[Term]
id: OBI:0000296
name: obsolete_enrollment
def: "enrollment is a process of identifying a set of objects for further use in an investigation based on a set of criteria or rules" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000310
name: adverse event trigger
def: "revisit?" []
is_a: IAO:0000001 ! conditional specification

[Term]
id: OBI:0000318
name: eluate
def: "a eluate is a material entity which results from an elution, e.g. from a chromatography column. it has as part a material entity with role mobile phase" []
synonym: "eluted material" EXACT []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0000319
name: material to be added role
def: "A role of a material entity that is realized in an \"adding a material entity into a target\" process where the bearer of the role is added into another material entity (the target)." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000323
name: obsolete_peritoneum
def: "is the serous membrane that forms the lining of the abdominal cavity" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000338
name: drawing a conclusion based on data
def: "A planned process in which data gathered in an investigation is evaluated in the context of existing knowledge with the objective to generate more general conclusions or to conclude that the data does not allow one to draw general conclusion" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000339
name: planning
def: "a process of creating or modifying a plan specification" []
is_a: BFO:0000015 ! process

[Term]
id: OBI:0000340
name: obsolete_documenting
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: IAO:0000572

[Term]
id: OBI:0000341
name: histological sample preparation
def: "histological sample preparation is the preparation of an input tissue via slicing and labeling to make tissue microstructure of interest visible in a future histology assay" []
is_a: OBI:0000659 ! specimen collection process

[Term]
id: OBI:0000343
name: inductive reasoning
def: "a interpreting data that is used to ascribe properties or relations to types based on an observation instance (i.e., on a number of observations or experiences); or to formulate laws based on limited observations of recurring phenomenal patterns." []
is_a: OBI:0000338 ! drawing a conclusion based on data

[Term]
id: OBI:0000345
name: mass analyzer
def: "A Mass analyzer is a device that separates ions according to their mass-to-charge ratio. All mass spectrometers are based on dynamics of charged particles in electric and magnetic fields in vacuum where the two laws of Lorentz force law and Newton's second law of motion apply." []
is_a: OBI:0000832 ! measurement device
is_a: OBI:0000932 ! material separation device

[Term]
id: OBI:0000355
name: hypothesis-driven investigation
def: "is an investigation with the goal to test one or more hypothesis" []
is_a: OBI:0000066 ! investigation

[Term]
id: OBI:0000356
name: hypothesis generating investigation
def: "is an investigation in which data is generated and analyzed with the purpose of generating new hypothesis" []
is_a: OBI:0000066 ! investigation

[Term]
id: OBI:0000361
name: ion source
def: "An ion source is a device that is part of a mass spectrometer that ionizes the material under analysis. The ions are then transported by magnetic or electric fields to the mass analyzer.  Techniques for ionization have been key to determining what types of samples can be analyzed by mass spectrometry. Electron ionization and chemical ionization are used for gases and vapors. In chemical ionization sources, the material is ionized by chemical ion-molecule reactions during collisions in the source. Two techniques often used with liquid and solid biological samples include electrospray ionization (due to John Fenn PMID 2675315.) and matrix-assisted laser desorption/ionization (MALDI, due to M. Karas and F. Hillenkamp (Measuring Mass: From Positive Rays to Proteins by Michael A. Grayson (Editor) (ISBN 0-941901-31-9)))." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0000364
name: ion detector
def: "An ion detector is a device that measures and records the charge induced or current produced when an ion passes by or hits a surface.  Example: In a scanning instrument the signal produced in the detector during the course of the scan versus where the instrument is in the scan (at what m/Q) will produce a mass spectrum, a record of ions as a function of m/Q." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000366
name: metabolite profiling assay
def: "An assay that detects and identifies chemical entities resulting from biochemical and cellular metabolism" []
synonym: "metabolite assay" EXACT []
synonym: "metabolomic assay" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000367
name: light emission function
def: "A light emission function is an excitation function to excite a material to a specific excitation state that it emits light." []
is_a: OBI:0000374 ! excitation function

[Term]
id: OBI:0000368
name: record function
def: "A record function is a function that registers or collects information in a particular format on a particular recording medium. For example on paper or a digital representation" []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000369
name: magnify function
def: "A magnify function is a function to increase the size of a transmitted object image through the precise arrangement of energy diffraction elements along an imaging path." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000370
name: contain function
def: "A contain function is a function to constrain a material entities location in space" []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000371
name: heat function
def: "A heat function is a function that increases the internal kinetic energy of a material" []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000372
name: material separation function
def: "A material separation function is a function that increases the resolution between two or more material entities. The  to distinction between the entities is usually based on some associated physical quality." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000373
name: ionize process
def: "a physical process of converting an atom or molecule into an ion by adding or removing charged particles such as electrons or other ions. This excludes chemical processes of dissociation." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000374
name: excitation function
def: "A excitation function is a function  to inject energy by bombarding a material with energetic particles (e.g., photons) thereby imbuing internal material components such as electrons with additional energy.  These internal, 'excited' particles may lead to the rupturing of covalent chemical bonds or may quickly relax back to there unexcited state with an exponential time course thereby locally emitting energy in the form of photons." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000375
name: freeze function
def: "A freeze function is a function to decrease the internal kinetic energy of a material below the freezing point of that type of material." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000376
name: synthesizing function
def: "A synthesizing function is a function to assemble new output materials from distinct input materials.  The output materials typically consist of chemically distinct monomeric objects or object aggregate polymers." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000377
name: perturb function
def: "A perturb function is a function that disrupts the normal function of a system induced through either internal or external means.  External means of perturbation include: (1) displacement fields in the physical sense - e.g., temperature change, osmotic shock, pressure change; (2) application of small molecules such as drugs or toxins to perturb the function of specific pathways or application of surfactants to perturb the normal function of plasma membrane.  Internal means of perturbation include: (1) manipulation of gene function via gene knockout or transcript knockdown via RNAi; (2) directed genetic mutation leading to minimal aa alterations that interfere with peptide function." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000378
name: filter function
def: "A filter function is a function to prevent the flow of certain entities based on a quality or qualities of the entity while allowing entities which have different qualities to pass through" []
is_a: OBI:0000372 ! material separation function

[Term]
id: OBI:0000379
name: mechanical function
def: "A mechanical function is a function that is realised via mechanical work (through an certain amount of energy transferred by some force)." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000380
name: gas filter function
def: "A gas filter function is a filter function which prevents the flow of solid objects, defined by specific qualities, in a gas-solid mixture" []
is_a: OBI:0000378 ! filter function

[Term]
id: OBI:0000381
name: liquid filter function
def: "A liquid filter function is a filter function which prevents the flow of solid objects, defined by specific qualities, in a liquid-solid mixture" []
is_a: OBI:0000378 ! filter function

[Term]
id: OBI:0000383
name: transfer function
def: "A transfer function is a function to displace a material from one location to another." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000384
name: electricity supply function
def: "An electricity supply function is an energy supply function to transfer electricity from one source to another, typically a consumer of the electricity or as a stimulus during a neuroscience experiment." []
synonym: "power supply" EXACT []
is_a: OBI:0000391 ! energy supply function

[Term]
id: OBI:0000385
name: ionization function
def: "An ionization function is a function to physically convert an atom or molecule into an ion by adding or removing charged particles such as electrons or other ions." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000387
name: cool function
def: "A cool function is a function to decrease the internal kinetic energy of a material below the initial kinetic energy of that type of material." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000388
name: connection function
def: "A connection function is a function to couple two or more flow channels so that material or signals can be transported from one set of channels to another." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000389
name: isoelectric focusing device
def: "An isoelectric focusing device is a device in which isoelectric focusing can be performed. An isoelectric focussing device had the function to contain and control the contained environment and transfer electrical energy from a power supply to a separation medium and the charged material to be separated." []
synonym: "isoelectric focusing unit" EXACT []
is_a: OBI:0002089 ! container with environmental control

[Term]
id: OBI:0000390
name: thermostatic circulator
def: "A thermostatic circulator is a device which cools or heats a circulating liquid. It has the function to contain control the contained environment and transfer energy from or to the circulating liquid" []
is_a: OBI:0002089 ! container with environmental control

[Term]
id: OBI:0000391
name: energy supply function
def: "An energy supply function is a function to supply or transfer energy from an energy source to a consumer of the energy" []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000392
name: information processor function
def: "An information processor function is a function that converts information from one form to another, by a lossless process or an extraction process." []
synonym: "data processor function" EXACT []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000393
name: signal conversion function
def: "A signal conversion function is an information processor function which transforms a signal into another type of signal. For example an analog-to-digital_converter, Ac/Ac converter, a synapse converts electrical action potentials into an intermediate chemical signal. The post synapse converts it back into an electric one passed on to the axon." []
synonym: "transduction function" EXACT []
is_a: OBI:0000392 ! information processor function

[Term]
id: OBI:0000394
name: blot module
def: "A blot module is a device which has the function to conatin and facilitate the material transfer process blotting to be realised" []
is_a: COB:0001300 ! device

[Term]
id: OBI:0000395
name: signal amplification function
def: "A signal amplification function is a signal conversion function to inject energy into an input signal so as to produce an output signal with increased differential magnitude while also seeking to minimize increases in the signal to noise ratio. For example, to produce a 0.1 KW output signal from a 1 mW RMS input signal." []
is_a: OBI:0000393 ! signal conversion function

[Term]
id: OBI:0000397
name: image acquisition function
def: "An image acquisition function is a function to acquire an image of a material" []
is_a: OBI:0000453 ! measure function

[Term]
id: OBI:0000398
name: image creation device
def: "An image creation device is a device which captures a digitized image of an object" []
synonym: "image acquisition device" EXACT []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000399
name: solid support function
def: "A solid support function is a function of a device on which an entity is kept in a defined position and prevented in its movement" []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000400
name: display function
def: "A display function is a function to present information by translating that information through some lookup process into visual form." []
is_a: OBI:0000392 ! information processor function

[Term]
id: OBI:0000401
name: environment control function
def: "An environmental control function is a function that regulates a contained environment within specified parameter ranges. For example the control of light exposure, humidity and temperature." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000403
name: sort function
def: "A sort function is a function to distinguish material components based on some associated physical quality or entity and to partition the separate components into distinct fractions according to a defined order." []
is_a: OBI:0000372 ! material separation function

[Term]
id: OBI:0000404
name: gel dryer
def: "A gel dryer is a device which has the function to contain and to control the contained environment to facilitate the drying of gels" []
is_a: OBI:0002089 ! container with environmental control

[Term]
id: OBI:0000405
name: primer role
def: "a complementary nucleotide probe role which inheres in nucleic acid molecular entity and is realized by the use of the entity bearing the role to initiate chain elongation." []
is_a: OBI:0000857 ! complementary nucleotide probe role

[Term]
id: OBI:0000406
name: PCR product
def: "is double stranded DNA that is the specified output of a polymerase chain reaction" []
is_a: CHEBI:4705 ! double-stranded DNA
is_a: OBI:0000809 ! amplified DNA

[Term]
id: OBI:0000407
name: viral RNA extraction
def: "The extraction of RNA from an input material that specifically isolates viral RNA" []
is_a: OBI:0666666 ! RNA extraction

[Term]
id: OBI:0000409
name: nucleic acid template role
def: "a reference substance role which inheres in nucleic acid material entity and is realized in the process of using the nucleic acid bearing the template role as a reference during synthesis of a reverse copy." []
is_a: OBI:0000025 ! reference substance role

[Term]
id: OBI:0000410
name: recombinant plasmid
def: "a plasmid in which extraneous DNA has been inserted." []
is_a: OBI:0000430 ! plasmid
is_a: OBI:0000731 ! recombinant vector

[Term]
id: OBI:0000411
name: cloning vector role
def: "A material to be added role played by a small, self-replicating DNA or RNA molecule - usually a plasmid or chromosome - and realized in a process whereby foreign DNA or RNA is inserted into the vector during the process of cloning." []
is_a: OBI:0000319 ! material to be added role

[Term]
id: OBI:0000413
name: cell cycle synchronization
def: "a process with the objective to obtain a cell culture in which all cells are in the same stage of the cell cycle" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000415
name: polymerase chain reaction
def: "PCR is the process in which a DNA polymerase is used to amplify a piece of DNA by in vitro enzymatic replication. As PCR progresses, the DNA thus generated is itself used as a template for replication. This sets in motion a chain reaction in which the DNA template is exponentially amplified." []
synonym: "PCR" EXACT []
is_a: OBI:0600058 ! enzymatic amplification

[Term]
id: OBI:0000416
name: cloning insert role
def: "cloning insert role is a role which inheres in DNA or RNA and is realized by the process of being inserted into a cloning vector in a cloning process." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000418
name: measuring glucose concentration in blood serum assay
def: "An assay that determines the concentration of glucose molecules in a blood serum sample" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100020 ! glucose assay

[Term]
id: OBI:0000419
name: reverse transcriptase
def: "enzyme and has_function some GO:0003964 (RNA-directed DNA polymerase\nactivity)" []
is_a: OBI:0000427 ! enzyme

[Term]
id: OBI:0000420
name: obsolete_trypsinized material
def: "A material entity that has undergone a process of digestion with trypsin" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000422
name: syringe
def: "A processed material which is used to introduce or draw fluids from a material entity. A syringe is made of a piston and body. the movement of the piston in the body determines the amount/volume of fluid to inject or draw" []
is_a: COB:0001300 ! device

[Term]
id: OBI:0000423
name: extract
def: "an extract is a material entity which results from an extraction process" []
synonym: "extracted material" EXACT []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0000424
name: transcription profiling assay
def: "An assay that determines gene expression and transcription activity using ribonucleic acids collected from a material entity." []
synonym: "gene expression profiling" EXACT []
synonym: "transcription profiling" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000425
name: averaging objective
def: "An averaging objective is a data transformation objective where the aim is to perform mean calculations on the input of the data transformation." []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0000426
name: injection
def: "injection is process which aims at introducing a compound or a mixture into a material entity (either biological entity or instrument) by relying on devices such as syringe or injector connection, attached or forced into a vascular system (veins of an organism or tubes of a machine) or in a tissue." []
is_a: OBI:0000274 ! adding a material entity into a target

[Term]
id: OBI:0000427
name: enzyme
def: "(protein or rna) or has_part (protein or rna) and\nhas_function some GO:0003824 (catalytic activity)" []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0000429
name: intraperitoneal administration
def: "The administration of a substance into the peritoneum of an organism" []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0000430
name: plasmid
def: "plasmid = DNA and has_quality circular and has_function\n(is_realized_as some gene expression) GO:0010467" []
is_a: CHEBI:4705 ! double-stranded DNA

[Term]
id: OBI:0000431
name: injection into organ section
def: "A process in which an input substance is injected into a organ section." []
is_a: OBI:0000426 ! injection

[Term]
id: OBI:0000432
name: polyacrylamide gel
def: "a material entity resulting from the polymerization of acrylamide with TEMED in some buffer solution" []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0000433
name: DNA sequence feature detection assay
def: "An assay with the objective to determine a sequence feature of DNA" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000434
name: adding material objective
def: "is the specification of an objective to add a material into a target material. The adding is asymmetric in the sense that the target material largely retains its identity" []
is_a: OBI:0000686 ! material combination objective

[Term]
id: OBI:0000435
name: genotyping assay
def: "An assay which generates data about a genotype from a specimen of genomic DNA. A variety of techniques and instruments can be used to produce information about sequence variation at particular genomic positions." []
synonym: "genotype profiling" EXACT []
synonym: "SNP analysis" EXACT []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0000436
name: needle
def: "A needle is a sharp, hollow device used to penetrate tissue or soft material. When attached to a syringe. it allows delivery of a specific volume of liquid or gaseous mixture." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0000437
name: analyte measurement objective
def: "an assay objective to determine the presence or concentration of an analyte in the evaluant" []
is_a: OBI:0000441 ! assay objective

[Term]
id: OBI:0000438
name: DNA sequence variation detection assay
def: "An assay that measures changes (expansion, amplification, deletion, mutation) in the sequence of a DNA molecule." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000439
name: agarose gel
def: "a material entity resulting from the polymerization of agarose after heating agarose suspended in some buffer solution" []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0000441
name: assay objective
def: "an objective specification to determine a specified type of information about an evaluated entity (the material entity bearing evaluant role)" []
is_a: IAO:0000005 ! objective specification

[Term]
id: OBI:0000442
name: obsolete_heart
def: "The heart is a muscular organ found in all vertebrates that is responsible for pumping blood throughout the blood vessels by repeated, rhythmic contractions" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000443
name: analyte assay
def: "An assay with the objective to capture information about the presence, concentration, or amount of an analyte in an evaluant." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000444
name: target of material addition role
def: "A role of a material entity that is realized in an \"adding a material entity into a target\" process where the bearer of the role (the target) receives the addition of another material entity." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000445
name: mass measurement assay
def: "An assay that determines the mass of an evaluant" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000446
name: obsolete_identification
def: "a process by which the identity (what a thing is) of a material entity is established within a certain confidence interval" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000447
name: intracellular electrophysiology recording assay
def: "An electrophysiology assay where the recording location of the electrode is intracellular." []
is_a: OBI:0002176 ! electrophysiology assay

[Term]
id: OBI:0000448
name: packed column
def: "A packed column is a chromatography column where the particles of the solid stationary phase or the support coated with a liquid stationary phase may fill the whole inside volume of the tube." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000449
name: obsolete_defined_output
def: "This is only a placeholder for defined classes, as are its siblings _defined_material and _defined protocol application. Its children should be defined classes constructed as output of a process." []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000450
name: regulatory agency
def: "A regulatory agency is a organization that has responsibility over or for  the legislation (acts and regulations) for a given sector of the government." []
is_a: OBI:0000245 ! organization

[Term]
id: OBI:0000451
name: normalized data set
def: "A data set that is produced as the output of a normalization data transformation." []
is_a: IAO:0000100 ! homogenous data collection

[Term]
id: OBI:0000453
name: measure function
def: "Measure function is a function that is borne by a processed material  and realized in a process in which information about some entity is expressed relative to some reference." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000454
name: extracellular electrophysiology recording assay
def: "An electrophysiology assay where the recording location of the electrode is extracellular." []
is_a: OBI:0002176 ! electrophysiology assay

[Term]
id: OBI:0000455
name: consume data function
def: "Process data function is a function that is borne by in a material entity by virtue of its structure. When realized the material entity consumes data." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000456
name: material transformation objective
def: "an objective specifiction that creates an specific output object from input materials." []
synonym: "artifact  creation objective" EXACT []
is_a: IAO:0000005 ! objective specification

[Term]
id: OBI:0000457
name: manufacturing
def: "A planned process with the objective to produce a processed material which will have a function for future use." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000458
name: manufacturing objective
def: "is the objective to manufacture a material of a certain function (device)" []
is_a: OBI:0000456 ! material transformation objective

[Term]
id: OBI:0000463
name: column chromatography detector
def: "There is a wide range of detectors available for both GC and LC each having their own particular areas of application. In general the more catholic the response, the less sensitive the detector and the most sensitive detectors are those that have a specific response. The performance of all detectors should be properly specified so that the user can determine which is most suitable for a specific application. Such specifications are also essential to compare the performance of different detectors supplied by alternative instrument manufactures. Detector specifications should be presented in a standard form and in standard units, so that detectors can be compared that function on widely different principles." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000464
name: Bruker autosampler
def: "A Bruker autosampler is an autosampler made by Bruker." []
is_a: OBI:0000555 ! autosampler

[Term]
id: OBI:0000465
name: organic acid column
def: "An organic acid column is a chromatography column which enables (reversed-phase) separation of hydrophilic aliphatic and aromatic organic acids with UV detection. Organic acid columns allow retention of polar and apolar organic acids and are hydrolysis resistant." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000466
name: thermal conductivity detector
def: "The most commonly used detector in preparative GC is the thermal conductivity detector (hot wire detector). Even this detector, however, is often too sensitive and has too high a flow impedance. Under such circumstances, the procedure mentioned above must be employed. The eluent from the preparative column is split and a small portion diverted through the detector (sometimes with further dilution with carrier gas to reduce sensitivity)." []
synonym: "TCD, hot wire detector" EXACT []
is_a: OBI:0000637 ! gas chromatography detector

[Term]
id: OBI:0000467
name: Bruker US 2 NMR magnet
def: "An actively-shielded superconducting magnet from Bruker that combines Bruker BioSpin's advanced, proprietary UltraShield active shielding and UltraStabilized sub-cooling technologies. This shielded and stabilized (US2) magnet system delivers high sensitivity and spectral dispersion." []
is_a: OBI:0000597 ! Bruker NMR magnet

[Term]
id: OBI:0000468
name: protein column
def: "A protein column is a chromatography column used for the separation of complex protein mixtures. Protein columns enable sample desalting, followed by chromatographic separation or fractionation of complex protein samples, e.g. immunodepleted serum or plasma proteins." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000469
name: solvent mixer
def: "A liquid chromatography device that mixes different solvents, e.g. under high pressure and in differrent volumes ranging from 5 ml to 5 L capacity. Powerful magnetic mixers provide vigorous agitation required for high pressure reaction chemistry." []
is_a: OBI:0000485 ! chromatography instrument

[Term]
id: OBI:0000470
name: mass spectrometry assay
def: "An assay that identifies the amount and type of material entities present in a sample by fragmenting the sample and measuring the mass-to-charge ratio of the resulting particles." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000471
name: study design execution
def: "a planned process that carries out a study design" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000473
name: Bruker NMR Case sample changer
def: "The NMR Case is an economical NMR sample changer for laboratories with modest automation needs. It expands the maximum number of samples your spectrometer can process during unattended operation to 24. The NMR Case consists of multiple components. The NMR Case exchange module installed atop your cryostat. The two front legs are adjustable, making the NMR Case compatible with many different cryostats." []
is_a: OBI:0000464 ! Bruker autosampler

[Term]
id: OBI:0000474
name: nano pump system
def: "A pump system optimized for nano flow chromatography." []
is_a: OBI:0000589 ! chromatography pump system

[Term]
id: OBI:0000475
name: Bruker AutoClean system
def: "NMR tubes are often used once and discarded, creating needless waste. With the Bruker BioSpin Autoclean system you can now recycle 5mm, 3mm, or 5mm/3mm step-down (Wilmad 520-1B) NMR tubes. AutoClean NMR Tube Washing System is a simple way to recoup the substantial investment your organization makes in quality NMR tubes, and cut back on needless waste material." []
is_a: OBI:0000498 ! NMR tube washing system

[Term]
id: OBI:0000476
name: manual injection system
def: "The traditional hardware system that allows a human to inject a sample into an inlet by hand, using a syringe." []
is_a: OBI:0000504 ! sample injection system

[Term]
id: OBI:0000477
name: Varian GEMINI spectrometer
def: "An older Varian Broadband NMR spectrometer." []
is_a: OBI:0000611 ! Varian NMR instrument

[Term]
id: OBI:0000478
name: column connector
def: "A device that connects two or more columns together in a functional way with leak-tight connection, low dead volume, low thermal mass and high inertness." []
is_a: OBI:0000048 ! chromatography device

[Term]
id: OBI:0000479
name: solid NMR probe
def: "An NMR probe that is designed to hold a solid sample." []
is_a: OBI:0000516 ! NMR probe

[Term]
id: OBI:0000480
name: Bruker high resolution probe
def: "BRUKER BIOSPIN's experienced Research & Development group not only delivers top-performance probes for the more common experiments, but also a wealth of special probes for almost any application. For high resolution (HR) NMR we offer probes with a variety of important characteristics and features." []
synonym: "HR Probe" EXACT []
is_a: OBI:0000561 ! Bruker NMR probe

[Term]
id: OBI:0000481
name: chromatography detector
def: "A chromatography detector is a device that locates in the dimensions of space and time, the positions of the components of a mixture that has been subjected to a chromatographic process and thus permits the senses to appreciate the nature of the separation.  Defining characteristics are Dynamic Range, Response Index or Linearity, Linear Dynamic range, Detector Response,  Detector Noise Level, Detector Sensitivity or Minimum Detectable Concentration, Total System Dispersion, Sensor Dimensions, Detector Time Constant, Pressure Sensitivity, Flow Sensitivity, Operating Temperature Range." []
is_a: OBI:0000485 ! chromatography instrument

[Term]
id: OBI:0000482
name: normal phase column
def: "A normal phase column is a chromatography column in which the stationary phase is more polar than the mobile phase. Its counterpart is the reversed phase column." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000483
name: APOLLO console
def: "The APOLLO is a compact, modular, multiple-DSP, Windows XP Professional-based console that can be equipped with up to 8 DDS-based RF transmitter channels configurable from 2 kHz to 3.5 GHz. Each transmitter channel produces a nominal 1V output and has the most agile frequency, phase and amplitude control of any system on the market. An array of additional options are available including multiple RF transmitters, linear high-power RF amplifiers, digital receiver arrays, low noise figure preamplifiers, a gradient control system, shim unit, MAS spin-speed controller, variable temperature unit, digital lock system and probe/coil interface. With its numerous options, the Apollo can be configured for any NMR, NQR or MRI application." []
is_a: OBI:0000599 ! tecmag NMR console

[Term]
id: OBI:0000484
name: NMR sample holder
def: "An NMR sample holder is the part of an NMR instrument, which carries the NMR probe,sample tube and the nmr sample." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0000485
name: chromatography instrument
def: "Any instrument that is used to carry out a chromatography experiment." []
is_a: OBI:0000932 ! material separation device

[Term]
id: OBI:0000486
name: continuous wave NMR instrument
def: "Continuous wave NMR spectrometers are similar to optical spectrometers, but the sample is held in a strong magnetic field, where the frequency of the source is slowly scanned (in some instruments, the source frequency is held constant, and the field is scanned)." []
is_a: OBI:0000566 ! NMR instrument

[Term]
id: OBI:0000487
name: fourier transformation NMR instrument
def: "In fourier transformation NMR, all frequencies in a spectrum are irradiated simultaneously with a radio frequency pulse. Following the pulse, the nuclei return to thermal equilibrium. A time domain emission signal is recorded by the instrument as the nuclei relax. A frequency domain spectrum is obtained by Fourier transformation." []
is_a: OBI:0000566 ! NMR instrument

[Term]
id: OBI:0000489
name: nitrogen phosphorous detector
def: "The nitrogen phosphorus detector (NPD) (sometimes called the thermionic detector) is a very sensitive, specific detector the design of which, is based on the FID. Physically the sensor appears to be very similar to the FID but, in fact, operates on an entirely different principle. The nitrogen phosphorous detector (sometimes called the thermionic detector) is a very sensitive but specific detector that responds almost exclusively to nitrogen and phosphorous compounds. It is based on the flame ionization detector but differs in that it contains a rubidium or cesium silicate (glass) bead situated in a heater coil, a little distance from the hydrogen flame. If the detector is to respond to both nitrogen and phosphorous then the hydrogen flow should be minimal so that the gas does not ignite at the jet. If the detector is to respond to phosphorous only, a large flow of hydrogen is used which is burnt at the jet. The heated bead emits electrons by thermionic emission. These electrons are collected under a potential of a few volts by an appropriately placed anode, and provides a background current. When a solute containing nitrogen or phosphorous is eluted from the column, the partially combusted nitrogen and phosphorous materials are adsorbed on the surface of the bead. The adsorbed material reduces the work function of the surface and, as consequence, the emission of electrons is increased which raises the current collected at the electrode. The sensitivity of the detector to phosphorous is about 10-12 gram per ml and for nitrogen about 10-11 gram per ml at a signal to nose ratio of 2. The alkali bead as a finite life and needs regular replacement." []
is_a: OBI:0000637 ! gas chromatography detector

[Term]
id: OBI:0000490
name: cation exchange column
def: "A cation exchange column is a chromatography column that is used in cation exchange chromatography." []
is_a: OBI:0000560 ! ion exchange column

[Term]
id: OBI:0000491
name: direct detection NMR probe
def: "An NMR probe designed to allow the direct detection of acquisition nuclei." []
is_a: OBI:0000516 ! NMR probe

[Term]
id: OBI:0000492
name: Bruker B-ACS system
def: "The Bruker Automatic Sample Changer (B-ACS 60/120), used in conjunction with Bruker DISNMR, UXNMR or XWIN-NMR software, provides dialog-guided facilities which allow the user to easily and effectively perform automatic (continuous) experiments. Features include a 60 or 120 sample capacity, random accessing of samples, positive sample identification with the optional bar code reader, and temperature control of individual samples with the optional sample heater unit." []
is_a: OBI:0000464 ! Bruker autosampler

[Term]
id: OBI:0000493
name: rapid resolution column
def: "A rapid resolution column is a chromatography column as marketed by Agilent, which is used with a rapid resolution cartridge to ensure a fast chromatography process with good separation resolution." []
is_a: OBI:0000932 ! material separation device

[Term]
id: OBI:0000494
name: liquid chromatography autosampler
def: "Designed to perform capillary LC with injection of sample volumes ranging from nL to L." []
is_a: OBI:0000485 ! chromatography instrument

[Term]
id: OBI:0000495
name: vacuum degasser
def: "A degassing system used for degassing solvents in liquid chromatography. Dissolved gasses, usually nitrogen and oxygen from the air, tend to be evolved in the mobile phase as the pressure is reduced when the mobile phase leaves the liquid chromatography column and enters the detector. Gasses in the mobile phase in the detector can produce completely unacceptable noise and, thus, must be removed. The dissolved gasses were originally removed under vacuum but, unfortunately, are soon replaced if the solvent is left in contact with air at atmospheric pressure. For this reason degassing is now usually carried out by bubbling helium through the mobile phase reservoirs. Secondly, vacuum is used in the thermionic detector. This consists of a device, very similar in design to the thermionic valve which is attached to a vacuum and a small quantity of the eluent from a gas chromatography column allowed to bleed through it. Helium is used as the carrier gas. The presence of solute vapor causes the thermionic current to fall. This type of detector tends to become contaminated rather readily." []
is_a: OBI:0000589 ! chromatography pump system

[Term]
id: OBI:0000496
name: capillary column
def: "A capillary column is a thin tube with a small inner diameter, usually around 0.5 mm." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000497
name: sample inlet
def: "The column inlet (or injector) provides the means to introduce a sample into a continuous flow of carrier gas. The inlet is a piece of hardware attached to the column head." []
is_a: OBI:0000048 ! chromatography device

[Term]
id: OBI:0000498
name: NMR tube washing system
def: "An automatic cleaning system for NMR tubes that removes previous probe and sample residues in order to allow for tube recycling." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0000499
name: NMR console
def: "A component of an NMR instrument that controls the activities of the other components." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0000500
name: dual loop autosampler
def: "A dual loop autosampler is an autosampler that is designed for handling both analytical (10 mL/min flow rate) to preparative scale sample purification (100 mL/min flow rate)." []
is_a: OBI:0000494 ! liquid chromatography autosampler

[Term]
id: OBI:0000501
name: variable wavelength detector
def: "A chromatography detector, that can detect signals within a certain range at user-defined wavelengths." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000503
name: Bruker LC-NMR platform
def: "The LC-NMR/MS setup was first introduced by Bruker BioSpin in 1999. An LC-NMR system including a Bruker Peak Sampling Unit (BPSU-36) was coupled with a Bruker Daltonics esquire series ion trap mass spectrometer via a Bruker NMR-MS interface (BNMI). Since October 2004 the Bruker Daltonics microTOF-LC time-of-flight mass spectrometer can also be integrated in an LC-NMR setup." []
is_a: OBI:0000596 ! Bruker NMR instrument

[Term]
id: OBI:0000504
name: sample injection system
def: "An automated chromatography system that injects the sample into the chromatography columns in order to increase speed and minimize human involvement in the purification process for  better reproducibility." []
is_a: OBI:0000048 ! chromatography device

[Term]
id: OBI:0000505
name: multiple wavelength detector
def: "A chromatography detector, that can detect many discrete wavelengths in parallel and produces a multiple wavelength chromatographic profile." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000506
name: photoionization detector
def: "The selective determination of aromatic hydrocarbons or organo-heteroatom species is the job of the photoionization detector (PID). This device uses ultraviolet light as a means of ionizing an analyte exiting from a GC column. The ions produced by this process are collected by electrodes. The current generated is therefore a measure of the analyte concentration. f the amount of ionization is reproducible for a given compound, pressure, and light source then the current collected at the PID's reaction cell electrodes is reproducibly proportional to the amount of that compound entering the cell. The reason why the compounds that are routinely analyzed are either aromatic hydrocarbons or heteroatom containing compounds (like organosulfur or organophosphorus species) is because these species have ionization potentials (IP) that are within reach of commercially available UV lamps. The available lamp energies range from 8.3 to 11.7 ev, that is, lambda max ranging from 150 nm to 106 nm. Although most PIDs have only one lamp, lamps in the PID are exchanged depending on the compound selectivity required in the analysis." []
synonym: "PID" EXACT []
is_a: OBI:0000637 ! gas chromatography detector

[Term]
id: OBI:0000507
name: gas generator
def: "An instrument that generates gases for use with the gas chromatograph. Previously gas was obtained from gas tanks or gas cylinders. However, over the past decade the use of gas generators have become more popular as it avoids having gases at high pressure in the laboratory which is perceived by some as potentially dangerous. In addition, the use of a hydrogen generator avoids the use of a cylinder of hydrogen at high pressure which is also perceived by some as a serious fire hazard despite the fact that they have been used in laboratories, quite safely for nearly a century." []
is_a: OBI:0000542 ! gas chromatography equipment

[Term]
id: OBI:0000508
name: column jacket
def: "A column jacket is a piece of column chromatography equipment that covers a column in order to ensure thermoisolation and create a controllable thermostatic microenvironment." []
is_a: OBI:0000048 ! chromatography device

[Term]
id: OBI:0000509
name: electron capture detector
def: "The electron capture detector is a GC detector that uses a radioactive Beta emitter (electrons) to ionize some of the carrier gas and produce a current between a biased pair of electrodes. When organic molecules that contain electronegative functional groups, such as halogens, phosphorous, and nitro groups pass by the detector, they capture some of the electrons and reduce the current measured between the electrodes." []
synonym: "ECD" EXACT []
is_a: OBI:0000637 ! gas chromatography detector

[Term]
id: OBI:0000510
name: reversed phase column
def: "A reversed phase column is a chromatography column in which the mobile phase is more polar than the stationary phase. Its counterpart is the normal phase column." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000511
name: injector lubricant
def: "A lubricant used in liquid chromatography that eases sample injector penetration." []
is_a: OBI:0000601 ! chromatography consumable

[Term]
id: OBI:0000512
name: isolation of cell population
def: "a process in which a population of cells with certain characteristics is isolated from a larger population" []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0000513
name: DISCOVERY console
def: "The Discovery console is a Windows XP Professional-based, integrated console designed especially for Solid-State NMR. The console includes everything needed to interface to any magnet and solids probe - from computer to cables to duplexing network." []
is_a: OBI:0000599 ! tecmag NMR console

[Term]
id: OBI:0000514
name: Bruker AMX series NMR instrument
def: "A series of older Bruker NMR magnets, now out of production. The Bruker AMX500 has proven an extremely reliable workhorse, with excellent lineshape yielding superior water suppression even without gradients. The Oxford 11.7 Tesla 5.2 cm bore magnet rests on a TMC vibration damping table. Homogeneity is controlled by a BSN-18 and BSN-2 with 19 shim controls. In addition to the 5 mm triple resonance probe, the AMX is equipped with a 10mm broadband observe probe." []
is_a: OBI:0000596 ! Bruker NMR instrument

[Term]
id: OBI:0000515
name: chromatofocusing column
def: "A chromatofocusing column is a chromatography column in which a resin is equilibrated at one pH and eluted at a second pH. The use of a weak ion-exchange resin causes a pH gradient to be formed at the solvent front owing to the buffering action of the resin. This pH gradient in turn leads to an ordering of proteins by isoelectric point. Molecules of charge sign opposite the resin bind; those of charge sign like the resin do not bind." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000516
name: NMR probe
def: "Part of an NMR instrument that detects the signals emitted from a sample. No single probe can perform the full range of experiments, and probes that are designed to perform more than one type of measurement usually suffer from performance compromises. The probe represents a rather fragile single point of failure that can render an NMR system completely unusable if the probe is dropped or otherwise damaged. Probes are usually characterised by Sample diameter and Frequency.n  alt The instrument that transmits and receives radiofrequency to and from the NMR sample." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000517
name: NMR magnet
def: "A magnet which induces a certain frequency (MHz) and which has a certain bore diameter.n  alt The NMR signal is a natural physical property of the certain atomic nuclei but it can only be detected with an external magnetic field. A magnet is a fundamental part of an NMR instrument which induces an electromagnetic force field (RF pulse) and by this excites and aligns the spins of the electrons of the NMR acquisition nucleus. It is usually a big (superconducting) electromagnet which is cooled by liquid helium and can be adjusted to a frequency between 200 and 950 MHz. The magnetic field strength is measured in Tesla or Gauss." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0000518
name: trap column
def: "A trap column is a chromatography column which is used prior to a, e.g. mass spectrometry, separation to clean up or concentrate controlled amounts of samples prior to elution to a detector." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000519
name: flow probe
def: "An NMR probe that allows the automatized flow-through of a sample. The sample is aspirated via a syringe pump into the Flow probe, the NMR spectrum is acquired and when the experiment is complete, the sample is returned to back to an external source (well plate) or flushed to waste. Sometimes pulsed field gradients (PFG) can be established in flow probes." []
is_a: OBI:0000516 ! NMR probe

[Term]
id: OBI:0000520
name: clinical chemistry assay
def: "An analyte assay which uses analytical methods to produce measurements and data on the concentration of chemical parameters (analytes) present in a specimen collected from an organism in order to determine a phenotype of that organism." []
synonym: "chemical pathology" EXACT []
synonym: "detection of analyte in blood sample" EXACT []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0000521
name: flame ionization detector
def: "A flame ionization detector is a GC detector that consist of a hydrogen/air flame and a collector plate which are normally heated independently of the chromatographic oven. Heating is necessary in order to prevent condensation of water generated by the flame and also to prevent any hold-up of solutes as they pass from the column to the flame. There is an electrode above the flame to collect the ions formed at a hydrogen/air flame. The number of ions hitting the collector is measured and a signal is generated. Flame ionization detectors are most widely used and generally applicable for gas chromatography and hence is used for routine and general purpose analysis. It is easy to use but destructive of the sample." []
synonym: "FID" EXACT []
is_a: OBI:0000637 ! gas chromatography detector

[Term]
id: OBI:0000522
name: vial
def: "A container made from solid material and primarily used for holding liquid." []
is_a: OBI:0000967 ! container

[Term]
id: OBI:0000523
name: magic angle spinning rotor
def: "A rotor device that holds the NMR sample and enables the adjustment of the orientation of the rotation axis for a sample in a NMR instrument in the magic angle." []
synonym: "MAS rotor" EXACT []
is_a: COB:0001300 ! device

[Term]
id: OBI:0000524
name: Varian VXR spectrometer
def: "A Varian NMR spectrometer." []
is_a: OBI:0000611 ! Varian NMR instrument

[Term]
id: OBI:0000525
name: splitless GC injector
def: "Injected sample enters column immediately (while split valve to split vent is closed). Here a sample is introduced into a heated small chamber via a syringe through a septum - the heat facilitates volatilization of the sample and sample matrix. The carrier gas then either sweeps the entirety (splitless mode) or a portion (split mode) of the sample into the column. In split mode, a part of the sample/carrier gas mixture in the injection chamber is exhausted through the split vent." []
is_a: OBI:0000504 ! sample injection system

[Term]
id: OBI:0000526
name: preparative autosampler
def: "For preparative LC with injection of sample volumes ranging from L to mL ranges." []
is_a: OBI:0000494 ! liquid chromatography autosampler

[Term]
id: OBI:0000527
name: flow high resolution probe
def: "Hyphenated analytical techniques combining mass spectrometry and chromatography are well-established laboratory tools. The combination of chromatography and NMR has also made its way into the analytical laboratory. Further developments even combine all three techniques into an LC-NMR/NMR-MS system. The use of solid phase extraction provides an efficient interface between chromatography and NMR with demands for special type of flow probes." []
synonym: "flow HR-probe" EXACT []
is_a: OBI:0000480 ! Bruker high resolution probe

[Term]
id: OBI:0000528
name: liquid chromatography valve
def: "A sample valve that must be able to sustain pressures up to 10,000 p.s.i., although it is most likely to operate on a continuous basis, at pressures of 3,000 p.s.i. or less. The higher the operating pressure the tighter the valve seating surfaces must be forced together to eliminate any leak. It follows that any abrasive material, however fine, that passes into the valve can cause the valve seating to become scored each time it is rotated which will ultimately lead to leaks. This will cause the sample size to vary between samples and eventually affect the accuracy of the analysis. It follows that any solid material must be carefully removed from any sample before filling the valve. The sample volume of an internal loop valve is situated in the connecting slot of the valve rotor and can be used only for relatively small sample volumes. Internal sample loop valves provide samples with volumes ranging from 0.1 ml to about 0.5 ml. Valve operation is shown in figure 6. The left-hand side diagram shows the load position. The sample occupies the rotor slot and has been filled by passing the sample from an appropriate syringe through the rotor slot to waste. While loading the sample, the mobile phase supply is passed through the valve directly to the column. To place the sample onto the column, the valve is then rotated and the valve slot containing the sample is now placed between the solvent supply and the column. As a result, the sample is passed into the column by the flow of solvent." []
is_a: OBI:0000048 ! chromatography device

[Term]
id: OBI:0000529
name: JEOL NMR probe
def: "An NMR probe that is manufactured by JEOL." []
is_a: OBI:0000516 ! NMR probe

[Term]
id: OBI:0000530
name: Bruker UltraShield Plus NMR magnet
def: "An NMR magnet of which Brukers claims it is the latest and most advanced self-shielding NMR magnet technology ever developed. These magnets are the ultimate advancement in high performance, actively-shielded NMR solutions. They offer unprecedented shielding performance whilst ensuring no compromise in system homogeneity, stability or cryogenic specifications." []
is_a: OBI:0000597 ! Bruker NMR magnet

[Term]
id: OBI:0000531
name: Bruker CryoProbe
def: "The Bruker BioSpin CryoProbe is a high-performance cryogenically cooled probe developed for high-resolution applications. It has improved signal/noise (S/N) ratios obtained by reducing the operating temperature of the coil and the pre-amplifier. As a result, the efficiency of the coil is improved and the noise of the coil and the pre-amplifier are reduced.The dramatic increase in the S/N ratio by a factor of 3-4, as compared to conventional probes, leads to a possible reduction in experiment time of up to 16 or a reduction in required sample concentration by a factor of up to 4. The CryoProbes possess key characteristics for NMR analysis:n   Significant S/N gains (with moderately salty samples also)n   Short pulse widthsn   Short ring down timesn   Linear behavior in power responsen   Gradient capabilityn   CryoProbes are available as Triple Resonance, Dual, Selective X Detection, MicroImaging, and Quad Nucleus Probes configurations at 400 MHz and highern   All high resolution probes have a lock circuitn   All high resolution probes have Z-gradient." []
is_a: OBI:0000561 ! Bruker NMR probe

[Term]
id: OBI:0000532
name: column cartridge
def: "A device that binds the chromatography column and additional connector elements and / or valves or syringes into one physical unity for further processing." []
is_a: OBI:0000048 ! chromatography device

[Term]
id: OBI:0000533
name: affinity column
def: "An affinity column is a chromatography column that is used in affinity chromatography. Differences in the affinity of molecules to be separated to a stationary phase are used for discriminate retention." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000534
name: tecmag NMR instrument
def: "An NMR instrument that is manufactured by tecmag." []
is_a: OBI:0000566 ! NMR instrument

[Term]
id: OBI:0000535
name: gel filtration column
def: "A Gel filtration column is a chromatography column for size-exclusion chromatography, in which the stationary phase is a gel. The main application of gel filtration chromatography is the fractionation of proteins and other water-soluble polymers." []
is_a: OBI:0000618 ! size exclusion column

[Term]
id: OBI:0000536
name: fraction collector
def: "A fraction detector is a device that allows regular or specified samples to be taken from a column eluate and stored in a retrievable form. The storage vessels are usually small sample tubes or vials that are oriented in a rotating disk or in a moving belt, there movement usually being controlled by a microprocessor. On receiving a signal from the microprocessor, the next vial is placed under the column outlet and the eluate collected until receiving another signal from the computer. Once the properties of the chromatogram that describes the separation has been ascertained, then the collection program can be defined. The fractions can be collected on a basis of time either at regular intervals or a specific times to collect specific peaks. Alternatively the fractions can be collected by monitoring the detector output and when a peak starts to elute the fraction collector is activated and the peak collected in a specific vial. When the peak returns to base line the column eluate is then directed to waste until the next peak starts eluting. Fraction collectors are in common use with most liquid chromatographs. They are used to collect samples for further purification, subsequent examination by spectroscopic techniques or for biological or organoleptic testing." []
is_a: OBI:0000485 ! chromatography instrument

[Term]
id: OBI:0000537
name: copy number variation profiling assay
def: "An assay that determines lost or amplified genomic regions of DNA by comparing genomic DNA originating from tissues from the same or different individuals using specific techniques such as CGH, array CGH, SNP genotyping" []
synonym: "CNV analysis" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000538
name: in-line filter
def: "A solvent filter that sits between the pump and the injection valve that prevents dust particles, general debris and, to some extent, bacteria from entering the chromatography system. Contaminants can interfere with the low-pressure gradient former or the pump and particles entering valves may interfere with the proper function. The result could cause an increased baseline noise, non-repeatable gradient forming, unreliable flow rate or other interferences. Solvent in-line filters are low-pressure filters and will allow a high flow rate due to a large surface area and large porosity." []
is_a: OBI:0000592 ! chromatography detector filter

[Term]
id: OBI:0000539
name: imaging NMR probe
def: "An NMR probe that is designed for generating pictures from sample states via NMR imaging." []
is_a: OBI:0000516 ! NMR probe

[Term]
id: OBI:0000540
name: isolation of adherent cells
def: "a material separation process in which cells that stick to the container in which they are grown as a cell culture are separated from those in the liquid component of the culture. The output of this process are adherent cells." []
is_a: OBI:0000512 ! isolation of cell population

[Term]
id: OBI:0000541
name: Bruker AC series NMR instrument
def: "A series of older Bruker NMR magnets, now out of production." []
is_a: OBI:0000596 ! Bruker NMR instrument

[Term]
id: OBI:0000542
name: gas chromatography equipment
def: "Any device used in a gas chromatography experiment." []
is_a: OBI:0000048 ! chromatography device

[Term]
id: OBI:0000543
name: syringe filter
def: "A small membrane filter of defined pore size, that filters samples from a syringe." []
is_a: OBI:0000592 ! chromatography detector filter

[Term]
id: OBI:0000544
name: Bruker SampleRail system
def: "This Instrument system automatically prepares an NMR sample, inserts it into an NMR magnet, performs NMR experiments on the sample, and transports it back to the preparation system.   The SampleRail fulfills the transporting tasks from the preparation system into the NMR magnet and back." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0000545
name: column compartment
def: "For chromatography analyses, the ability to maintain a stable column environment regardless of ambient temperature fluctuations is critical for maintaining retention time precision. In order to ensure such stable conditions at different chromatography steps a column compartment can be installed that ensures e.g. stable temperature of the column in a given step." []
is_a: OBI:0000048 ! chromatography device

[Term]
id: OBI:0000546
name: capillary pump system
def: "A pump system optimized for capillary chromatography." []
is_a: OBI:0000589 ! chromatography pump system

[Term]
id: OBI:0000547
name: evaporative light scattering detector
def: "The evaporative light scattering detector, as its name implies, utilizes a spray that continuously atomizes the column eluent into small droplets. These droplets are allowed to evaporate, leaving the solutes as fine particulate matter suspended in the atomizing gas." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000548
name: isolation of PBMCs
def: "a process in which cells with a single nucleus are isolated from a blood sample" []
is_a: OBI:0000512 ! isolation of cell population

[Term]
id: OBI:0000549
name: column cartridger
def: "A chromatography device where the column cartridge is inserted into and stabilised." []
is_a: OBI:0000485 ! chromatography instrument

[Term]
id: OBI:0000550
name: nitrogen generator
def: "A gas generator that generates nitrogen gas." []
is_a: OBI:0000507 ! gas generator

[Term]
id: OBI:0000551
name: needle assembly
def: "The needle assembly attached to the autosampler, comprises the injector needle that feeds a sample or carrier gas into the inlet" []
is_a: OBI:0000048 ! chromatography device

[Term]
id: OBI:0000552
name: reverse transcribed polymerase chain reaction
def: "reverse transcribe pcr is a process which allow amplification of cDNA during a pcr reaction while the cDNA results from a retrotranscription of messenger RNA isolated from a material entity." []
synonym: "reverse transcription polymerase chain reaction" EXACT []
synonym: "RT-PCR" EXACT []
is_a: OBI:0600058 ! enzymatic amplification

[Term]
id: OBI:0000553
name: Bruker Capillary LC-NMR platform
def: "Capillary LC-NMR is a hyphenated technique coupling capillary liquid chromatography and NMR, which increases sensitivity dramatically through the use of miniaturization of the chromatographic techniques and NMR detection volume. LC-NMR hyphenated systems separate a mixture into its pure components and couple the output to NMR for automatic sample analysis. The ever increasing need to measure lower sample amounts and lower level impurities demands the highest NMR sensitivity. Traditional LC-NMR systems with relatively large peak volumes are not optimized for such low levels of detection. Bruker BioSpin, together with Waters and Protasis has developed a Capillary LC-NMR system. The latest capillary LC attributes and highest capillary flow probe sensitivity combine with state of the art NMR systems technology. Greater mass sensitivity and faster spectral analysis with smaller sample volumes is possible. This system is ideal for analysis of metabolites and impurities associated with the drug development process." []
is_a: OBI:0000596 ! Bruker NMR instrument

[Term]
id: OBI:0000554
name: gas chromatography oven
def: "A gas chromatography oven is an oven with a heated connection between the GC and the MS instrument in a GCMS-analysis, that keeps compounds in the gas phase as they leave the GC oven." []
is_a: OBI:0000542 ! gas chromatography equipment

[Term]
id: OBI:0000555
name: autosampler
def: "An optional part of an NMR instrument used to hold samples prior to NMR analysis and that sequentially loads these samples into the analytical part of the NMR instrument. n   alt The autosampler is an automatic sample changer device." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0000556
name: isocratic pump system
def: "A pump system optimized for isocratic chromatography." []
is_a: OBI:0000589 ! chromatography pump system

[Term]
id: OBI:0000557
name: flash pump system
def: "Any pump system used in flash column chromatography to push the solvent through the column. Better flow rates can be achieved by using a pump or by using compressed gas (e.g. air, nitrogen, or argon) to push the solvent through the column (flash column chromatography)." []
is_a: OBI:0000589 ! chromatography pump system

[Term]
id: OBI:0000558
name: Varian UNITY INOVA spectrometer
def: "The UNITY INOVA is also the easiest spectrometer to use and is also the choice of those interested in using advanced NMR techniques in their own research, but without becoming, or hiring, an NMR expert. A complete set of turnkey operating environments is available for the UNITY INOVA covering the structure and dynamics of biological macromolecules, small molecules, solids, and imaging. These packages put the combined NMR expertise of the entire Varian NMR community at your fingertips." []
is_a: OBI:0000611 ! Varian NMR instrument

[Term]
id: OBI:0000559
name: liquid NMR probe
def: "An NMR probe that is designed to hold a liquid sample." []
is_a: OBI:0000516 ! NMR probe

[Term]
id: OBI:0000560
name: ion exchange column
def: "An ion exchange column is a chromatography column that is used in ion exchange chromatography and anion or cation exchange resins to enable separation." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000561
name: Bruker NMR probe
def: "An NMR probe that is manufactured by Bruker." []
is_a: OBI:0000516 ! NMR probe

[Term]
id: OBI:0000562
name: anion trap column
def: "An anion trap column is a trap column and ion-exchange column which contains cationic anion-exchange resins." []
is_a: OBI:0000518 ! trap column

[Term]
id: OBI:0000563
name: fluorescene detector
def: "A single wavelength detector, where the excitation light wavelength is normally a mercury lamp generated high intensity UV light at 253.7 nm. Many substances that fluoresce will be excited by light of this wavelength and hence be detected." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000564
name: tecmag EAGLE probe
def: "The Eagle is a 4 mm 1H/X solid-state MAS probe with a top spinning speed of 18 kHz. Its simple design is robust, reliable and easy to spin. Configurations are available for 200 to 600 MHz wide bore magnets on Tecmag, Bruker, Chemagnetics, JEOL and Varian spectrometers." []
is_a: OBI:0000479 ! solid NMR probe

[Term]
id: OBI:0000565
name: electrical conductivity detector
def: "The electrical conductivity detector measures the conductivity of the mobile phase. There is usually background conductivity which must be backed-off by suitable electronic adjustments. If the mobile phase contains buffers, the detector gives a base signal that completely overwhelms that from any solute usually making detection impossible. Thus, the electrical conductivity detector a bulk property detector. and senses all ions whether they are from a solute or from the mobile phase. In order to prevent polarization of the sensing electrodes, AC voltages must be used and so it is the impedance not the resistance of the electrode system that is actually measured. From a physical chemistry stand point the conductivity of a solution is more important than its resistance. However, it is the resistance (impedance) of the electrode system that determines the current across it. The resistance of any conductor varies directly as its length and inversely as its cross sectional area." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000566
name: NMR instrument
def: "An Instrument which is used to carry out a NMR analysis of some sample." []
synonym: "magnetic resonance imaging scanner" EXACT []
synonym: "MRI scanner" EXACT []
synonym: "NMR instrument" EXACT []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000567
name: Bruker UltraShield NMR magnet
def: "An NMR magnet manufactured by Bruker that ensures field homogeneity without amplified effects from vibrations or thermal changes. This magnet technology uses active shielding and optimizes coil design." []
is_a: OBI:0000597 ! Bruker NMR magnet

[Term]
id: OBI:0000568
name: piston-seal
def: "The seal made by a piston in a diaphragm pump. The unique property of the reciprocating diaphragm pump is that the actuating piston does not come into direct contact with the mobile phase and thus, the demands on the piston-cylinder seal are not so great. The diaphragm has a relatively high surface area and thus, the movement of the diaphragm is relatively small and consequently the pump can be operated at a fairly high frequency. High frequency pumping results in a very significant reduction in pulse amplitude and, in addition, high frequency pulses are more readily damped by the column system. Nevertheless, it must be emphasized that diaphragm pumps are not pulseless." []
is_a: OBI:0000601 ! chromatography consumable

[Term]
id: OBI:0000569
name: mass selective detector
def: "A mass selective detector is a GC detector that uses mass spectrometry. It is based upon the ionization of solute molecules in the ion source and the separation of the ions generated on the basis of their mass/charge ratio by an analyzer unit. This may be a magnetic sector analyzer, a quadruple mass filter, or an ion trap. Ions are detected by a dynode electron multiplier." []
synonym: "mass spectrometry detector" EXACT []
is_a: OBI:0000637 ! gas chromatography detector

[Term]
id: OBI:0000570
name: spin column
def: "A spin column is a chromatography column which is suitable for putting it into a centrifuge. A spin column enforces separation through increased G-forces while spinning the column in a centrifuge. It is often used in DNA gel extraction kits." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000571
name: manufacturer role
def: "Manufacturer role is a role which inheres in a person or organization and which is realized by a manufacturing process." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000572
name: transfer line
def: "A combination of devices that are used in connection with a sampling head for transferring components of an applied sample to the analyzing part of a chromatography system." []
is_a: OBI:0000048 ! chromatography device

[Term]
id: OBI:0000573
name: gradient pump system
def: "A pump system optimized for gradient chromatography." []
is_a: OBI:0000589 ! chromatography pump system

[Term]
id: OBI:0000574
name: high temperature column
def: "A high temperature column is a chromatography column which is suitable for and withstands very high temperatures in chromatography ovens." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000575
name: Bruker Ultrastabilized NMR magnet
def: "An NMR magnet manufactured by Bruker for Ultra-High Field NMR, available from 750 MHz to 900 MHz, which provides reliable operation at reduced temperature and ambient pressure via being rigidly mounted and stabilized." []
is_a: OBI:0000597 ! Bruker NMR magnet

[Term]
id: OBI:0000576
name: scattered molecular aggregate
def: "a material entity that consists of all the molecules of a specific type that are located in some bounded region and which is part of a more massive material entity that has parts that are other such aggregates" []
synonym: "Collective" EXACT []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0000577
name: obsolete_molecular concentration
def: "A concentration is a relational quality that inheres in a material entity towards molecular scattered aggregate that is part of it by virtue of some ratio of masses of the two or the counts of the grains of the two or volume occupied by the larger material entity." []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000578
name: NMR sample tube
def: "The sample-tube holds the NMR sample and sits in the nmr probe. It is usually a glass tube of 5-20mm diameter." []
is_a: OBI:0000836 ! test tube

[Term]
id: OBI:0000579
name: Varian UNITY spectrometer
def: "The predecessor series of the Varian UNITY INOVA spectrometer." []
is_a: OBI:0000611 ! Varian NMR instrument

[Term]
id: OBI:0000580
name: AVANCE II spectrometer
def: "A spectrometer suitable for metabolomics and in vivo NMR studies but structural analysis of small molecules and low molecular weight proteins can also be performed. To accomplish these studies there are six probe-heads available. A successor, the AVANCE III came out recently." []
is_a: OBI:0000596 ! Bruker NMR instrument

[Term]
id: OBI:0000581
name: y-column connector
def: "A column connector that connects one column on one side with two columns at the other side, hence building a Y shaped structure." []
is_a: OBI:0000478 ! column connector

[Term]
id: OBI:0000582
name: Bruker LC-NMR/MS platform
def: "Includes the connection to a high-resolution TOF-LC-MS system." []
is_a: OBI:0000596 ! Bruker NMR instrument

[Term]
id: OBI:0000583
name: refractive index detector
def: "For analyzing non-UV absorbing substances, such as carbohydrates, lipids and polymers. This is also the detector of choice for gel permeation chromatography. The refractive index detector is one of the least sensitive LC detectors. It is very sensitive to changes in ambient temperature, pressure changes, flow-rate changes and can not be used for gradient elution. Despite these many disadvantages, this detector is extremely useful for detecting those compounds that are nonionic, do not adsorb in the UV, and do not fluoresce. There are many optical systems used in refractive index detectors but one of the most common is the differential refractive index detector." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000584
name: anion exchange column
def: "An anion exchange column is a chromatography column that is used in anion exchange chromatography and which enables the separation of anion mixtures." []
is_a: OBI:0000560 ! ion exchange column

[Term]
id: OBI:0000586
name: plunger column
def: "A plunger column is a chromatography column with adjustable heigth control. By means of an adjustable endpiece (plunger) the user can adjust the column length without disturbing the packed bed. Plunger columns can equalize volume changes and thus avoids dead volumes within the column." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000588
name: flame photometric detector
def: "The determination of sulfur or phosphorus containing compounds is the job of the flame photometric detector (FPD). This device uses the chemiluminescent reactions of these compounds in a hydrogen/air flame as a source of analytical information that is relatively specific for substances containing these two kinds of atoms. The emitting species for sulfur compounds is excited S2. The lambda max for emission of excited S2 is approximately 394 nm. The emitter for phosphorus compounds in the flame is excited HPO (lambda max = doublet 510-526 nm). In order to selectively detect one or the other family of compounds as it elutes from the GC column, an interference filter is used between the flame and the photomultiplier tube (PMT) to isolate the appropriate emission band. The drawback here being that the filter must be exchanged between chromatographic runs if the other family of compounds is to be detected." []
synonym: "FPD" EXACT []
is_a: OBI:0000637 ! gas chromatography detector

[Term]
id: OBI:0000589
name: chromatography pump system
def: "Better flow rates can be achieved by using a pump or by using compressed gas (e.g. air, nitrogen, or argon) to push the solvent through the column (flash column chromatography)." []
is_a: OBI:0000485 ! chromatography instrument

[Term]
id: OBI:0000590
name: Bruker 1mm MicroProbe
def: "Over the past few years there has been a significantly growing demand for miniaturization in all areas ofmodern research and development. Evoked by many exciting applications, there is a need for analytical methods which require less amounts of sample. Bruker BioSpin meets this challenge with a revolutionary NMR probe design: The 1mm MicroProbe. It operates with disposable 1mm capillary sample tubes and the sample volume of 5 microliters enables the use of lowest amounts of sample to run all high resolution NMR experiments with outstanding sensitivity and up to 16 times faster measurements. Due to the TXI-type probe design, the z-gradient coil and the automatic matching and tuning accessory, the 1mm MicroProbe can be used for a wide variety of NMR experiments. The key advantages of this probe include:n   up to 4 times higher mass sensitivity than 5mm conventional probes (with respect to the same sample amount)n   excellent solvent suppression propertiesn   virtually no salt effectn   discrete samples in tubes that can be sealed and storedn   automation accessory for sample preparation and handling available." []
is_a: OBI:0000561 ! Bruker NMR probe

[Term]
id: OBI:0000591
name: Bruker BEST NMR system
def: "The introduction of biological screening and combinatorial chemistry for chemical synthesis has also introduced new requirements for NMR automation, e.g., the use of well plates for sample input, increased demands on throughput, and the need for quick and simple interpretation of the acquired NMR data." []
synonym: "Bruker Efficient Sample Transfer NMR" EXACT []
is_a: OBI:0000464 ! Bruker autosampler

[Term]
id: OBI:0000592
name: chromatography detector filter
def: "An optical filter that is used to obtain monochromatic light of a defined wavelength from detector lamps." []
is_a: OBI:0000601 ! chromatography consumable

[Term]
id: OBI:0000593
name: cation trap column
def: "A cation trap column is a trap column and ion-exchange column which contains anionic cation-exchange resins." []
is_a: OBI:0000518 ! trap column

[Term]
id: OBI:0000594
name: column adapter
def: "An Adapter that enabled the connection of a column to additional devices." []
is_a: OBI:0000048 ! chromatography device

[Term]
id: OBI:0000595
name: pulsed amperometric detector
def: "A chromatography detector as used by high-performance anion exchange chromatography that provides sensitive and specific detection of carbohydrates. Pulsed Electrochemical Detection (PED) allows simple, sensitive, and direct detection of numerous polar aliphatic compounds, especially carbohydrates. This technique exploits the electrocatalytic activity of noble metal electrode surfaces to oxidize various polar functional groups. In PED, multi-step potential-time waveforms at Au and Pt electrodes realize amperometric/coulometric detection while maintaining uniform and reproducible electrode activity. The response mechanisms in PED are dominated by the surface properties of the electrode, and, as a consequence, members of each chemical class of compounds produce virtually identical voltammetric responses. Thus, the full potential is realized when combined with high performance liquid chromatography (HPLC)." []
synonym: "PAD" EXACT []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000596
name: Bruker NMR instrument
def: "An NMR instrument that is manufactured by Bruker." []
is_a: OBI:0000566 ! NMR instrument

[Term]
id: OBI:0000597
name: Bruker NMR magnet
def: "An NMR magnet that is manufactured by Bruker." []
is_a: OBI:0000517 ! NMR magnet

[Term]
id: OBI:0000598
name: ozone-induced chemiluminescence detector
def: "Although there are many direct ozone chemiluminescent reactions with various gaseous molecules, the incorporation of a conversion step to convert various non-chemiluminescent analytes to a species capable of reacting with ozone to produce chemiluminescence broadens the horizon of this technique tremendously. The conversion of nearly all nitrogen- and sulfur-containing compounds to their respective chemiluminescent species for universal nitrogen and sulfur detection has made nitrogen/sulfur chemiluminescence detection the most widely used analytical methods based upon ozone-induced chemiluminescence. In addition to non-chromatographic applications, nitrogen/sulfur chemiluminescence detection has been adapted to various chromatographic techniques from gas chromatography to liquid and supercritical fluid chromatography as specialized element-specific detectors. The characteristics of these detectors are evaluated and compared to other element-selective detection techniques. The unique features of the chemiluminescence detectors have made them powerful tools in many diverse fields of analytical chemistry." []
is_a: OBI:0000637 ! gas chromatography detector

[Term]
id: OBI:0000599
name: tecmag NMR console
def: "An NMR console manufactured by tecmac." []
is_a: OBI:0000499 ! NMR console

[Term]
id: OBI:0000600
name: JEOL NMR instrument
def: "An NMR instrument that is manufactured by JEOL." []
is_a: OBI:0000566 ! NMR instrument

[Term]
id: OBI:0000601
name: chromatography consumable
def: "A chromatography consumable is a consumable that is used in a chromatography experiment." []
is_a: OBI:0000048 ! chromatography device

[Term]
id: OBI:0000602
name: column frit
def: "A part of the column content that separates column packing compartments. In radial columns the packing is supported between two cylindrical frits and the gap between represents the bed height or column length. The outer frit is the column inlet and consequently the sample initially has a large area of stationary phase with which to interact. Frits are porous metal products to prevent unwanted particles from entering the chromatography system. These particles may come from the sample, the solvent or debris generated by the chromatography system itself. Such particles entering the system may lead to clogging of capillaries, interference with the chromatography by changing chromatographic parameters or disturbance of the detector function. Characteristics of a frit, besides the diameter and the thickness, is the porosity (pore distribution, density)." []
is_a: OBI:0000048 ! chromatography device

[Term]
id: OBI:0000603
name: liquid chromatography column
def: "A liquid chromatography column is a chromatography column that is used in liquid chromatography, i.e. a column that is provided with a liquid sample mix." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000604
name: detector lamp
def: "A lamp used in a chromatography detector that excites sample molecules at certain frequencies / emission wavelengths, e.g. Mercury Vapor Lamp (253.7 nm), Zinc Vapor Lamp (2123.9 nm and 307.6 nm), Cadmium Vapor Lamp (228.8, 326.1,340.3, and 346.6 nm). To obtain monochromatic light an appropriate light filter would be needed." []
is_a: OBI:0000601 ! chromatography consumable

[Term]
id: OBI:0000605
name: chart recorder
def: "The chart recorder is a device that transduces signal-intensities into a graphical peak output: As the separated components of the gas sample emerge into the detector, the change in voltage in the detecting bridge circuit causes a representative peak to be drawn on a chart recorder. The position of the peak along the time axis of the chart measures the component's retention time, which identifies the component. This is directly related to carrier gas flow rate, temperature and column packing and dimensions. The area under each peak is proportional to the concentration of the component of the sample. The area of the peaks inscribed on the chart recorder can be determined by multiplying the height of the peak in mm, by the width of the peak in mm at 1/2 the peak height. The calibration curves for use with the chart recorder are therefore peak area plotted against concentration." []
is_a: OBI:0000048 ! chromatography device

[Term]
id: OBI:0000606
name: open tubular column
def: "An open tubular column is a chromatography column in which the particles of the solid stationary phase or the support coated with a liquid stationary phase are concentrated on or along the inside tube wall leaving an open, unrestricted path for the mobile phase in the middle part of the tube." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000607
name: high resolution magic angle spin probe
def: "Samples that are neither solid nor liquid, being of biological, chemical, or pharmaceutical interest, reveal highly resolved spectra when magic angle spinning is applied. The correct solution is a gradient, such that the field varies along the spinner axis. This so-called Magic Angle Gradient is employed in Brukers high resolution Magic Angle Spinning (hr-MAS) probes, and is implemented in such a way that it is compatible with the stator and does not interfere with the sample eject or insert. Bruker BioSpin has developed a series of dedicated probes for standard bore magnets to accommodate the rapidly expanding field of hr-MAS. These probes are available in double (e.g. 1H and 13C) and triple resonance (e.g. 1H, 13C, 15N) modes and come equipped with a deuterium lock channel. The probes have automatic sample ejection and insertion capability, with the availability of an optional sample changer, enabling fully automated sample runs. Probes can be equipped with an optional B0 gradient, directed along the magic angle, so that gradient spectroscopy can be done used." []
synonym: "high resolution MAS, hr-MAS" EXACT []
is_a: OBI:0000480 ! Bruker high resolution probe

[Term]
id: OBI:0000608
name: hydrogen generator
def: "A gas generator that generates hydrogen gas." []
is_a: OBI:0000507 ! gas generator

[Term]
id: OBI:0000609
name: glass column
def: "A glass column is a chromatography column made out of glass that is usually used for larger scale and preparative liquid chromatography separations." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000610
name: auto injector
def: "A gas chromatography device that can auto-inject a small number of samples an inlet." []
is_a: OBI:0000504 ! sample injection system

[Term]
id: OBI:0000611
name: Varian NMR instrument
def: "An NMR instrument that is manufactured by Varian." []
is_a: OBI:0000566 ! NMR instrument

[Term]
id: OBI:0000612
name: Bruker MATCH tube holder system
def: "The Bruker Multiple Adjustable Tube Clamp Holder MATCH system is a holder for 100 mm long NMR sample tubes with diameters ranging from micro tubes up to 5 mm NMR tubes. The MATCH insert fits into a standard 10 mm Bruker spinner and is suitable for all non-spinning applications.n   The MATCH system provides an easy and cost efficient means of optimizing the signal-to-noise ratio of each sample. By matching the NMR tube diameter to the size of the sample, most of the sample can be placed in the active column of the NMR coil. This leads to an enhanced signal detection compared to diluting the same sample quantity in a larger tube." []
synonym: "Bruker Multiple Adjustable Tube Clamp Holder" EXACT []
is_a: OBI:0000484 ! NMR sample holder

[Term]
id: OBI:0000613
name: Bruker SPE-NMR platform
def: "A Solid Phase Extraction (SPE) system provides an interface between liquid chromatography (LC) and NMR. For the process of LC-SPE  NMR a chromatographic separation is done and the peaks of interest are trapped on an individual SPE cartridge after the column. The peak selection is done either by UV detection or by evaluation of the on-line registered MS or MSn spectra." []
is_a: OBI:0000596 ! Bruker NMR instrument

[Term]
id: OBI:0000614
name: guard column
def: "Guard columns are installed between the injection valve and the analytical or preparative column and here will remove contaminants and prolong the lifetime of the columns." []
is_a: OBI:0000048 ! chromatography device

[Term]
id: OBI:0000615
name: protein expression profiling assay
def: "An assay that determines protein expression and translation activity using protein extracts collected from a material entity." []
synonym: "proteomic analysis" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000616
name: high resolution probe with automatic tuning and matching
def: "The Automatic Tuning and Matching (ATM) option for AVANCE spectrometers is available for double resonance probes in fixed-frequency and broadband tunable configurations with either direct or indirect detection. Thus, for multinuclear operation, as often required for applications in inorganic chemistry, ATM facilitates the accurate setting of 90 degree pulse widths on both observe and decoupling channels for each chosen nucleus and each individual sample - even with full automation. Triple resonance probes in fixed-frequency configurations, as typically used for inverse detection with high-field systems." []
synonym: "High Resolution Probes with Automatic Tuning and Matching, HR_probe_with_ATM" EXACT []
is_a: OBI:0000480 ! Bruker high resolution probe

[Term]
id: OBI:0000617
name: fluorine-induced chemiluminescence detector
def: "A gas chromatographic detection system based on the low pressure, gas phase chemiluminescence of the reaction mixture of molecular fluorine with organo-sulfur, -selenium, and -tellurium compounds separated from (gas phase) headspace samples. This detector was originally developed in the research group of John Birks at the University of Colorado, USA and was manufactured and sold by Sievers Instruments (Boulder Colorado, USA). This system can be divided up into three parts: the chromatograph, transfer line, and reaction cell; PMT and photon counting electronics; and the molecular fluorine generator." []
is_a: OBI:0000637 ! gas chromatography detector

[Term]
id: OBI:0000618
name: size exclusion column
def: "A size exclusion column is a chromatography column as used in size exclusion chromatography and which enables the separation of mixtures according to differrences in molecular size." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000619
name: chromatography splitter
def: "An adjustable restriction that is placed in the waste outlet to allow the necessary pressure to develop at the column inlet to force a flow (q ml/min) through the column. If the flow of mobile phase is Q ml/min then the waste flow will be (Q-q) ml/min. by adjusting the waste flow, the proportion of the sample entering the capillary column can be varied over a wide range of values and the necessary minimum permissible volume for the particular column in use can be selected for analysis. Unfortunately, the fraction taken in this way may not be representative of the original sample. This is due to the individual solutes in the mixture having different diffusivities and, thus, they distribute themselves across the sampling tube in an irregular manner. In general, the components with higher diffusivities (e.g., those solutes of lower molecular weight) will diffuse away from the bulk sample more quickly than those having lower diffusivities." []
is_a: OBI:0000048 ! chromatography device

[Term]
id: OBI:0000620
name: Bruker micro imaging probe
def: "For medical, biological and material sciences research, avance imaging systems provide optimal object handling and performance with a variety of samples types. Two classes of imaging probes are available: in vivo probes for handling and sustaining live objects such as animals and plants, and conventional imaging probes for materials samples." []
is_a: OBI:0000561 ! Bruker NMR probe

[Term]
id: OBI:0000621
name: custom made column
def: "A custom made column ia a chromatography column which is specifically tailored according to the needs of the separation as requested by a scientist or working group." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000622
name: gel permeation column
def: "A gel permeation column is a chromatography column which is used in gel permeation chromatography and which employs as the stationary phase a swollen gel made by polymerizing and cross-linking styrene in the presence of a diluent which is a nonsolvent for the styrene polymer. The polymer to be analyzed is introduced at the top of the column and then is elutriated with a solvent. The polymer molecules diffuse through the gel at rates depending on their molecular size." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000623
name: NMR spectroscopy assay
def: "An assay that exploits the magnetic properties of certain nuclei (those with a spin) to resonate when placed in particular magnetic field conditions. Instruments recording NMR spectrum and sets of analysis can be used to deduce identity of chemical as well as composition of complex chemical mixtures." []
synonym: "Nuclear magnetic resonance spectroscopy" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000624
name: Bruker SampleJet system
def: "Bruker BioSpin introduces the SampleJet, a robot for NMR tube automation. The SampleJet has been consciously designed to meet the growing customer demand for simplicity, versatility and higher throughput in NMR sample tube automation.n  The SampleJet utilizes the modern-day industry standard for sample arrangements-the 96 well plate array. Therefore, the samples may be handled by standard lab automation devices before or after the NMR measurement." []
is_a: OBI:0000464 ! Bruker autosampler

[Term]
id: OBI:0000625
name: JEOL ECX NMR spectrometer
def: "The ECX series of NMR spectrometers is designed for any laboratory needing an easy-to-use, reliable, routine NMR system. The ECX NMR series is available from 300 to 500 MHz. The console is designed around a modular, digital NMR electronics chassis controlled by an intelligent acquisition computer. For unprecedented flexibility, the JEOL NMR system offers a Windows XP, Mac OSX or LINUX. Both the workstation and spectrometer may be connected to a standard network, allowing seamless remote operation anywhere in the world." []
is_a: OBI:0000600 ! JEOL NMR instrument

[Term]
id: OBI:0000626
name: DNA sequencing assay
def: "A sequencing assay which determines information on the sequence of a DNA molecule." []
synonym: "nucleotide sequencing" EXACT []
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0000627
name: quaternary pump system
def: "A pump system that pump and mix up to four different solvents in parallel." []
is_a: OBI:0000589 ! chromatography pump system

[Term]
id: OBI:0000628
name: carbon nanotube column
def: "Carbon nanotubes (CNTs) are known to have high thermal and mechanical stability and have the potential to be high-performance separation media that utilize the nanoscale interactions. CNT can be applied in long capillary tubes for the development of gas chromatography columns. A film of CNTs can be deposited by chemical vapor deposition (CVD) to form the stationary phase in the open tubular format. Altering the CVD conditions can vary the thickness and the morphology of the CNT film, which opens the possibility of selectivity tuning. The ability to fabricate long tubes coated with CNTs can be readily employed in other gas- and liquid-phase separations as well." []
is_a: OBI:0000038 ! chromatography column

[Term]
id: OBI:0000629
name: Bruker solid magic angle spinning probe
def: "Magic angle spinning, nowadays a routine technique for solids NMR, still offers the capability of innovation. The high mechanical performance of MAS probes in conjunction with efficient rf pulse techniques open new exciting fields in solids NMR of biological samples and in the field of quadrupolar nuclei." []
synonym: "solid MAS probe" EXACT []
is_a: OBI:0000561 ! Bruker NMR probe

[Term]
id: OBI:0000630
name: hematology assay
def: "An assay that studies phenotypes of an organism involving its blood and blood producing organs using a variety of techniques and instruments" []
synonym: "blood analysis" EXACT []
synonym: "haematology" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000631
name: Varian MERCURY spectrometer
def: "MERCURYplus spectrometers provide superior control, stability, and performance for high-productivity environments. Surface-mount electronics enable a small footprint without compromising data quality. Modular design allows flexible configuration. Direct digital synthesis, linear amplifiers, and other innovative RF and digital technologies enable push-button operation." []
is_a: OBI:0000611 ! Varian NMR instrument

[Term]
id: OBI:0000632
name: Bruker Metabolic Profiler
def: "An NMR platform for conducting metabonomics studies, traditional metabolism studies, and analysis of complex mixtures, featuring an Avance NMR spectrometer and a microTOF from Bruker Daltonics. By combining the structural resolving power of NMR with mass accuracy of the microTOF Bruker offers a complete system for metabolic research. The Metabolic Profiler provides a simple, easy to use and inexpensive base-system to acquire the spectroscopic data, needed to do basic metabolic profiling including metabonomic statistical analysis." []
is_a: OBI:0000596 ! Bruker NMR instrument

[Term]
id: OBI:0000633
name: column heater
def: "The glass liner can be fitted with a separate heater and the volatilization temperature can, thus, be controlled. This flash heater system is available in most chromatographs. By using a syringe with a long needle, the tip can be made to penetrate past the liner and discharge its contents directly into the column packing. This procedure is called 'on-column injection' and, as it reduces peak dispersion on injection and thus, provides higher column efficiencies, is often the preferred procedure." []
is_a: OBI:0000485 ! chromatography instrument

[Term]
id: OBI:0000634
name: DNA methylation profiling assay
def: "An assay that measures the state of methylation of DNA molecules using genomic DNA collected from a material entity using a range of techniques and instrument such as DNA sequencers and often relying on treatment with bisulfites to ensure cytosine conversion." []
synonym: "DNA methylation profiling" EXACT []
is_a: OBI:0002020 ! epigenetic modification assay

[Term]
id: OBI:0000635
name: JEOL CapNMR probe
def: "The JEOL ECA and ECX NMR spectrometers now support the MRM/Protasis CapNMR Probe for well plate-based and microvial-based NMR analysis. The CapNMR probe is available at proton frequencies ranging from 300 MHz to 800 MHz in both indirect configurations (e.g. 1H{13C} and 1H {31P}) and also in triple resonance configurations (e.g. 1H{13C, 15N}, 1H{31P, 15N}). Both employ a high-strength z-directed field gradient. The flowprobes come with the choice of two flowcell volumes: a 5 μl flowcell with an NMR active volume of 2.5 μl, and a 10 μl flowcell with an NMR active volume of 5 μl. The fluidic connections are 75 μm i.d. and 1/32 o.d. FEP Teflon with hastelloy unions for exceptional solvent compatibility." []
is_a: OBI:0000529 ! JEOL NMR probe

[Term]
id: OBI:0000636
name: acquisition computer
def: "A Computer used for NMR, can be divided into central processing unit (CPU), consisting of instruction, interpretation and arithmetic unit plus fast access memory, and peripheral devices such as bulk data storage and input and output devices (including, via the interface, the spectrometer). Under software control, the computer controls the RF pulses and gradients necessary to acquire data, and process the data to produce spectra or images. Note that devices such as the spectrometer may themselves incorporate small computers." []
is_a: OBI:0400107 ! computer

[Term]
id: OBI:0000637
name: gas chromatography detector
def: "A gas chromatography detector is a chromatography detector that locates in the dimensions of space and time, the positions of the components of a mixture that has been subjected to a gas chromatographic process and thus permits the senses to appreciate the nature of the separation. There is no LC detector that has an equivalent performance to the flame ionization detector (FID) used in GC. In general, LC detectors have sensitivities of two to three orders of magnitude less than their GC counterparts and linear dynamic ranges one to two orders of magnitude lower. Only highly specific LC detectors have sensitivities that can approach those of GC detectors." []
synonym: "FID" EXACT []
is_a: OBI:0000481 ! chromatography detector

[Term]
id: OBI:0000638
name: gas purifier
def: "Gas purifiers are instruments used for the removal of gas impurities like hydrocarbons, oxygen, and moisture from carrier gas and fuel gases for GC or GC-MS systems." []
is_a: OBI:0000542 ! gas chromatography equipment

[Term]
id: OBI:0000639
name: material separation objective
def: "is an objective to transform a material entity into spatially separated components." []
is_a: OBI:0000456 ! material transformation objective

[Term]
id: OBI:0000640
name: indirect detection probe
def: "An NMR probe designed to allow the indirect detection of acquisition nuclei." []
is_a: OBI:0000516 ! NMR probe

[Term]
id: OBI:0000641
name: JEOL ECA NMR spectrometer
def: "The ECA series of NMR spectrometers is a high performance, research grade NMR system configurable to a wide range off applications. The ECA NMR is available from 300 to 930 MHz field strengths and is 1GHz ready. The system is designed around a modular, digital NMR electronics chassis controlled from a UNIX or Windows workstation and acquisition system. Both the workstation and spectrometer may be connected to a standard network, allowing seamless remote operation anywhere in the world." []
is_a: OBI:0000600 ! JEOL NMR instrument

[Term]
id: OBI:0000642
name: atomic emission detector
def: "Instead of measuring simple gas phase (carbon containing) ions created in a flame as with the flame ionization detector, or the change in background current because of electronegative element capture of thermal electrons as with the electron capture detector, the AED has a much wider applicability because it is based on the detection of atomic emissions. The strength of the AED lies in the detector's ability to simultaneously determine the atomic emissions of many of the elements in analytes that elute from a GC capillary column (called eluants or solutes in some books). As eluants come off the capillary column they are fed into a microwave powered plasma (or discharge) cavity where the compounds are destroyed and their atoms are excited by the energy of the plasma. The light that is emitted by the excited particles is separated into individual lines via a photodiode array. The associated computer then sorts out the individual emission lines and can produce chromatograms made up of peaks from eluants that contain only a specific element." []
synonym: "AED" EXACT []
is_a: OBI:0000637 ! gas chromatography detector

[Term]
id: OBI:0000648
name: clustered data set
def: "A data set that is produced as the output of a class discovery data transformation and consists of a data set with assigned discovered class labels." []
synonym: "data set with assigned discovered class labels" EXACT []
is_a: IAO:0000100 ! homogenous data collection

[Term]
id: OBI:0000649
name: data set of features
def: "A data set that is produced as the output of a descriptive statistical calculation data transformation and consists of producing a data set that represents one or more features of interest about the input data set." []
is_a: IAO:0000100 ! homogenous data collection

[Term]
id: OBI:0000650
name: differential expression analysis data transformation
def: "A differential expression analysis data transformation is a data transformation that has an objective of differential expression analysis.  Frequently this data transformation involves summarizing or otherwise aggregating signals from various samples categorized into groups, and calculating measures of group differences from these aggregated signals." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0000651
name: urine specimen
def: "a portion of urine collected from an organism" []
is_a: OBI:2000009 ! bodily fluid specimen

[Term]
id: OBI:0000652
name: material combination
def: "is a material processing with the objective to combine two or more material entities as input into a single material entity as output." []
is_a: COB:0000110 ! material processing

[Term]
id: OBI:0000653
name: fuzzy clustering objective
def: "A fuzzy clustering objective is a data transformation objective where the aim is to assign input objects (typically vectors of attributes) a probability that a point belongs to a class, where the number of class and their specifications are not known a priori." []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0000654
name: device setting
def: "a quality inheres_in some device and is concretization of some (device_setting_specification and is_about a quality of the device" []
is_a: COB:0000502 ! characteristic

[Term]
id: OBI:0000655
name: blood specimen
def: "a material entity derived from a portion of blood collected from an organism" []
is_a: OBI:2000009 ! bodily fluid specimen

[Term]
id: OBI:0000656
name: data set of predicted values according to fitted curve
def: "A data set which is the output of a curve fitting data transformation in which the aim is to find a curve which matches a series of data points and possibly other constraints." []
is_a: IAO:0000100 ! homogenous data collection

[Term]
id: OBI:0000658
name: data representational model
def: "An information content entity representing the relationships between data items." []
synonym: "data structure" EXACT []
synonym: "data structure specification" EXACT []
is_a: IAO:0000033 ! directive information entity

[Term]
id: OBI:0000659
name: specimen collection process
def: "A planned process with the objective to obtain a material entity for potential use as an input upon which measurements or observations are performed." []
synonym: "specimen collection" EXACT []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000660
name: background corrected data set
def: "A data set that is produced as the output of a background correction data transformation." []
is_a: IAO:0000100 ! homogenous data collection

[Term]
id: OBI:0000661
name: enzyme-linked immunosorbent assay
def: "An analyte assay where binding of an enzyme linked antibody to a material entity that is immobilized on solid support is detected utilizing a chemiluminescent reaction. Depending on the setup, the enzyme-linked antibody could be binding directly to the analyte, or it serves as a secondary antibody detecting binding of the primary antibody to the analyte." []
synonym: "ELISA" EXACT []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0000662
name: error corrected data set
def: "A data set that is produced as the output of an error correction data transformation and consists of producing a data set which has had erroneous contributions from the input to the data transformation removed (corrected for)." []
is_a: IAO:0000100 ! homogenous data collection

[Term]
id: OBI:0000663
name: class prediction data transformation
def: "A class prediction data transformation (sometimes called supervised classification) is a data transformation that has objective class prediction." []
synonym: "supervised classification data transformation" EXACT []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0000664
name: BrdU incorporation assay
def: "A cell proliferation assay in which cells are cultured in the presence of BrdU which is incorporated into newly synthesized DNA of replicating cells (during the S phase of the cell cycle), substituting for thymidine during DNA replication, which can be quantified by BrdU specific antibodies." []
is_a: OBI:0000891 ! cell proliferation assay

[Term]
id: OBI:0000665
name: obsolete intracellular cytokine staining assay
def: "The measurement of cytokines within the cytoplasm of a cell by permeabilizing the cell membrane to allow entry of specific antibodies, and counting the stained cells using a flow cytometer." []
synonym: "ICCS" EXACT []
synonym: "ICS" EXACT []
synonym: "intracellular cytokine staining (ICS)" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: OBI:0000916

[Term]
id: OBI:0000666
name: background correction data transformation
def: "A background correction data transformation (sometimes called supervised classification) is a data transformation that has the objective background correction." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0000667
name: obsolete MHC multimer staining assay
def: "An MHC multimer assay is an assay that detects T cells capable of binding the MHC:ligand complexes present in the multimer. The multimer is fluorescently labelled. The T cells bound to multimers are counted in a flow cytometer" []
synonym: "MHC tetramer assay" EXACT []
synonym: "MHC tetramer/multimer staining" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: OBI:1110179

[Term]
id: OBI:0000668
name: error correction data transformation
def: "An error correction data transformation is a data transformation that has the objective of error correction, where the aim is to remove (correct for) erroneous contributions from the input to the data transformation." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0000669
name: tritiated thymidine incorporation assay
def: "A cell proliferation assay in which cells are cultured in the presence of tritiated thymidine which is incorporated into newly synthesized DNA of replicating cells (during the S phase of the cell cycle). The radioactivity of tritiated thymidine in a cell is a proxy for cells that were actively replicating." []
is_a: OBI:0000891 ! cell proliferation assay

[Term]
id: OBI:0000671
name: sample from organism
def: "a material obtained from an organism in order to be a representative of the whole" []
is_a: OBI:0000747 ! material sample
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0000673
name: statistical hypothesis test
def: "A statistical hypothesis test data transformation is a data transformation that has objective statistical hypothesis test." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0000674
name: center value
def: "A data item that is produced as the output of a center calculation data transformation and represents the center value of the input data." []
synonym: "median" EXACT []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0000675
name: statistical hypothesis test objective
def: "is a data transformation objective where the aim is to estimate statistical significance with the aim of proving or disproving a hypothesis by means of some data transformation." []
synonym: "hypothesis test objective" EXACT []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0000676
name: reduced dimension data set
def: "A data set that is produced as the output of a data vector reduction data transformation and consists of producing a data set which has fewer vectors than the input data set." []
is_a: IAO:0000100 ! homogenous data collection

[Term]
id: OBI:0000678
name: portioning objective
def: "A material separation objective aiming to separate material into multiple portions, each of which contains a similar composition of the input material." []
is_a: OBI:0000639 ! material separation objective
disjoint_from: OBI:0000681 ! separation into different composition objective

[Term]
id: OBI:0000679
name: average value
def: "A  data item that is produced as the output of an averaging data transformation and represents the average value of the input data." []
synonym: "arithmetic mean" EXACT []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0000680
name: whole organism preparation
def: "A material entity which is the output of a process in which one or more whole organisms are prepared in a way to make it easier to study them, and in which the great majority of organismal parts are maintained" []
is_a: OBI:0100051 ! specimen

[Term]
id: OBI:0000681
name: separation into different composition objective
def: "A material separation objective aiming to separate a material entity that has parts of different types, and end with at least one output that is a material with parts of fewer types (modulo impurities)." []
is_a: OBI:0000639 ! material separation objective

[Term]
id: OBI:0000682
name: obsolete_study result
def: "Study result is an information content entity  that is a specified data output of a study." []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000684
name: specimen collection objective
def: "A objective specification that is fulfilled by obtaining a material entity for potential use as an input upon which measurements or observations are performed." []
is_a: IAO:0000005 ! objective specification

[Term]
id: OBI:0000685
name: creating a mixture of molecules in solution
def: "is a process with the objective to prepare a liquid solution of one or more chemicals at desired concentrations." []
is_a: OBI:0000652 ! material combination

[Term]
id: OBI:0000686
name: material combination objective
def: "is an objective to obtain an output material that contains several input materials." []
is_a: OBI:0000456 ! material transformation objective

[Term]
id: OBI:0000687
name: nucleotide overhang cloning
def: "Nucleotide overhang cloning is the process of inserting nucleic acid into a vector using nucleotide overhangs used to prevent self ligation" []
is_a: OBI:0600064 ! recombinant vector cloning

[Term]
id: OBI:0000688
name: rodent care protocol
def: "A rodent care protocol is an animal protocol in which the animals being taken care of are rodents." []
is_a: OBI:0000715 ! animal care protocol

[Term]
id: OBI:0000689
name: 454 Genome Sequence 20
def: "is a DNA sequencer first manufactured by 454 Life Science Corporation in 2005, and enables pyrosequencing to be performed. It comprises both optics and fluidics subsystems, which are controlled by a computer subsystem. The fluidics subsystem ensures accurate reagent dispensing. It consists of a reagents cassette (which holds the reagent containers), a sipper manifold, pumps, valves, and debubblers. The fluidics subsystem flows the sequencing reagents across the wells of the PicoTiterPlate device, and moves the spent reagents from the PicoTiterPlate device to the waste receptacle. The optics subsystem consists of a CCD camera and a camera controller. The camera captures the light emitted in the wells of the PicoTiterPlate device during each step of the sequencing cycle, and sends the digital images to the computer subsystem for processing. The computer controls the other Sequencer subsystems, and processes the digital images sent by the camera to extract the DNA sequence information." []
synonym: "GS 20" EXACT []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0000690
name: immunoprecipitation
def: "is a process which realizes a material separation objective by relying on antibodies to specifically binding to material entity" []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0000691
name: ABI 377 automated sequencer
def: "is a DNA sequencer which is manufactured by Applied Biosystems corporation (formerly Perkin-Elmer). It allows automated chain termination DNA sequencing. It has part polyacrylamide gel electrophoresis system and a laser -based detection system to detect fluorescence intensity emitted by the dyes attached to the dideoxyterminator nucleotides or to the primers." []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0000692
name: recombination enzyme based cloning
def: "a recombination enzyme based cloning is a recombinant vector cloning process that uses complementary nucleotide sequences in both the insert genetic material and the cloning vector with a recombination enzyme to directly create a recombinant vector" []
is_a: OBI:0600064 ! recombinant vector cloning

[Term]
id: OBI:0000693
name: MeDIP-seq assay
def: "A DNA methylation profiling assay that identifies methylated sites in genomic DNA and determines the methylation pattern that affect gene transcription using immunoprecipitation of methylated genomic DNA, creation of a library of corresponding DNA fragments (either single or paired-end fragments) and subsequent sequencing using parallelized sequencing methods." []
synonym: "Methylated DNA immunoprecipitation sequencing assay" EXACT []
is_a: OBI:0000634 ! DNA methylation profiling assay
is_a: OBI:0001954 ! ChIP assay
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0000694
name: animal feeding
def: "animal feeding is a process in which animals are provided with food" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000695
name: chain termination sequencing assay
def: "A DNA sequencing assay which rely on the use of dideoxynucleotides used in 4 distinct sequencing reaction on the same DNA sample. The dideoxynucleotides, once incorporated in the complementary DNA strand being synthesized by the DNA polymerase prevent any further chain elongation. The newly generated sequences are resolved on a polyacrylamide gel using electrophoresis and labels (either fluorochrome or radioactivity) are used to determine the nucleotide present at a given position" []
synonym: "dye terminator sequencing" EXACT []
synonym: "Sanger sequencing" EXACT []
is_a: OBI:0000734 ! DNA sequencing by synthesis assay

[Term]
id: OBI:0000696
name: AB SOLiD System
def: "is a DNA sequencer which is manufactured by Applied Biosystems and which enable DNA sequencing by ligation" []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0000697
name: Helicos sequencing assay
def: "A DNA sequencing by synthesis assay that identifiies the sequnece of billions of DNA molecules immobilized to a surface using DNA polymerase and fluorescently labeled nucleotides added one at a time. The sequencing process does not require an amplification step and is typically able to produce reads of 25 base pair length." []
synonym: "true single molecule sequencing" EXACT []
is_a: OBI:0000734 ! DNA sequencing by synthesis assay

[Term]
id: OBI:0000698
name: obsolete_DNA ligase
def: "A DNA ligase is an enzyme that covalently joins two compatible pieces of DNA through the cleavage of an ATP molecule" []
synonym: "ligase" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000699
name: survival assessment assay
def: "An assay that measures the occurrence of death events in one or more organisms over time" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000700
name: support vector machine
def: "A support vector machine is a data transformation with a class prediction objective based on the construction of a separating hyperplane that maximizes the margin between two data sets of vectors in n-dimensional space." []
synonym: "SVM" EXACT []
is_a: OBI:0000663 ! class prediction data transformation

[Term]
id: OBI:0000701
name: self-organizing map
def: "A self-organizing map (SOM) is an artificial neural network with objective class discovery that uses a neighborhood function to preserve the topological properties of a dataset to produce low-dimensional (typically 2) discretized representation of the training data set. A set of artificial neurons learn to map points in an input space to coordinates in an output space. The input space can have different dimensions and topology from the output space, and the SOM will attempt to preserve these." []
synonym: "SOM" EXACT []
is_a: OBI:0200175 ! class discovery data transformation

[Term]
id: OBI:0000702
name: 454 Genome Sequencer FLX
def: "is a DNA sequencer which was first manufactured by 454 Life Science Corporation in 2008 and enables pyrosequencing to be performed. It comprises both optics and fluidics subsystems, which are controlled by a computer subsystem. The fluidics subsystem ensures accurate reagent dispensing. It consists of a reagents cassette (which holds the reagent containers), a sipper manifold, pumps, valves, and debubblers. The fluidics subsystem flows the sequencing reagents across the wells of the PicoTiterPlate device, and moves the spent reagents from the PicoTiterPlate device to the waste receptacle. The optics subsystem consists of a CCD camera and a camera controller. The camera captures the light emitted in the wells of the PicoTiterPlate device during each step of the sequencing cycle, and sends the digital images to the computer subsystem for processing. The computer controls the other Sequencer subsystems, and processes the digital images sent by the camera to extract the DNA sequence information.  It has the ability to sequence 400-600 million base pairs per run with 400-500 base pair read lengths." []
synonym: "454 GS FLX" EXACT []
synonym: "GS-FLX" EXACT []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0000703
name: Illumina Genome Analyzer II
def: "is a DNA sequence which is manufactured by Illumina (Solexa) corporation. it support sequencing of single or paired end clone libraries relying on sequencing by synthesis technology" []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0000704
name: decision tree induction objective
def: "A decision tree induction objective is a data transformation objective in which a tree-like graph of edges and nodes is created and from which the selection of each branch requires that some type of logical decision is made." []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0000705
name: Edman degradation
def: "A sequencing assay in which the amino acid sequence of input peptides or proteins is determined by iteratively cleaving of the amino-terminal (N-terminal) residue without disrupting the peptide bonds and identifying it by e.g. chromatography or electropheresis." []
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0000706
name: SOLiD sequencing assay
def: "A DNA sequencing by ligation assay that identifies sequence information using primers to hybridize to the P1 adapter sequence within the library template, fluorescently labeled di-base probes to compete for ligation to the sequencing primer, multiple cycles of ligation, detection and cleavage to determine the eventual read length, following a series of ligation cycles, the extension product is removed and the template is reset with a primer complementary to the n-1 position for a second round of ligation cycles." []
is_a: OBI:0000723 ! DNA sequencing by ligation assay

[Term]
id: OBI:0000707
name: decision tree building data transformation
def: "A decision tree building data transformation is a data transformation that has objective decision tree induction." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0000708
name: laboratory animal care
def: "a process that realizes an animal care protocol that specifies how animals are kept and maintained" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000709
name: yeast artificial chromosome vector
def: "a double-stranded DNA that was engineered to contain a yeast origin of replication, encodes for a selectable gene product, contains a cloning site, and has yeast telomerase sequences" []
synonym: "YAC" EXACT []
is_a: CHEBI:4705 ! double-stranded DNA
is_a: OBI:0000737 ! cloning vector

[Term]
id: OBI:0000710
name: Li-Cor 4300 DNA Analysis System
def: "is a DNA sequencer which is manufactured by Li-Cor corporation and enable automated chain termination based DNA sequencing" []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0000711
name: library preparation
def: "is a process which results in the creation of a library from fragments of DNA using cloning vectors or oligonucleotides with the role of adaptors." []
synonym: "library construction" EXACT []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000712
name: pathogen challenge
def: "The administration of a live pathogenic organism to a host." []
is_a: OBI:0003456 ! in vivo challenge

[Term]
id: OBI:0000713
name: GenePattern software
def: "a software that provides access to more than 100 tools for gene expression analysis, proteomics, SNP analysis and common data processing tasks." []
is_a: IAO:0000010 ! software

[Term]
id: OBI:0000714
name: graph of vertices
def: "A construct that consists of many nodes connected with edges. The edges represent a relationship between the objects represented by the nodes.  A graph can be equivalently represented as a matrix." []
is_a: IAO:0000038 ! graph

[Term]
id: OBI:0000715
name: animal care protocol
def: "An animal care protocol is a protocol which specifies the environment in which animals are being kept in captivity for research purposes" []
is_a: OBI:0000272 ! protocol

[Term]
id: OBI:0000716
name: ChIP-seq assay
def: "An assay in which chromatin is immunoprecipitated and subsequently analyzed using a DNA sequencing step to identify which parts of DNA are part of the isolated chromatin" []
synonym: "chromatin immunoprecipitation sequencing assay" EXACT []
is_a: OBI:0001954 ! ChIP assay

[Term]
id: OBI:0000717
name: HeliScope Single Molecule Sequencer
def: "is a DNA sequencer manufacturer by Helicos Corporation to carry out Single Molecule sequencing using reversible termination chemistry" []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0000718
name: pathogen role
def: "pathogen role is a role which inheres in an organism and realized in the process of disease course in the organism bearing host role caused by the organism bearing pathogen role" []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000719
name: vaccine production
def: "A planned process with the objective to create a vaccine." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000720
name: immunologic adjuvant role
def: "The role a material entity plays when it is co-administered with an immunogen in order to enhance the immune response to the immunogen." []
is_a: OBI:1110092 ! adjuvant role

[Term]
id: OBI:0000721
name: glucose tolerance test
def: "An assay that measures glucose clearance from blood over time by repeated glucose measurement in blood serum or plasma after the administration of a glucose bolus in-vivo. This assay can be used to evaluate the severity of insulin resistance or the efficiency of glucose clearance." []
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:0000722
name: paired-end library
def: "is a collection of short paired tags from the two ends of DNA fragments are extracted and covalently linked as ditag constructs" []
synonym: "mate-paired library" EXACT []
synonym: "paired-end tag (PET) library" EXACT []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0000723
name: DNA sequencing by ligation assay
def: "A DNA sequencing assay that performs chain extension during the sequencing reaction step using DNA ligase" []
is_a: OBI:0000626 ! DNA sequencing assay

[Term]
id: OBI:0000724
name: Solexa sequencing assay
def: "A DNA sequencing by synthesis assay that identifies sequence information using DNA polymerase and reversible terminator, requiring immobilization of genomic DNA fragments onto a surface and a specific clonal amplification step known as bridge PCR. Reliance on a reversible terminator allows cycles of DNA chain extension by DNA polymerase and imaging without the need of electrophoretic separation of newly synthesized DNA fragment as with Sanger sequencing." []
synonym: "reversible terminator sequencing" EXACT []
is_a: OBI:0000734 ! DNA sequencing by synthesis assay

[Term]
id: OBI:0000725
name: host role
def: "host role is a role played by an organism and realized by providing nourishment, shelter or a means of reproduction to another organism within the organism playing the host role" []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000726
name: peak matching
def: "Peak matching is a data transformation performed on a dataset of a graph of ordered data points (e.g. a spectrum) with the objective of pattern matching local maxima above a noise threshold" []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0000727
name: k-nearest neighbors
def: "A k-nearest neighbors is a data transformation which achieves a class discovery or partitioning objective, in which an input data object with vector y is assigned to a class label based upon the k closest training data set points to y; where k is the largest value that class label is assigned." []
synonym: "k-NN" EXACT []
is_a: OBI:0200171 ! partitioning data transformation
is_a: OBI:0200175 ! class discovery data transformation

[Term]
id: OBI:0000728
name: rodent care
def: "rodent care  is the process by which rodents are being provided with a controlled living environment while kept in captivity for the purpose of research." []
is_a: OBI:0000708 ! laboratory animal care

[Term]
id: OBI:0000729
name: cloning plasmid
def: "A cloning plasmid is a plasmid that was engineered to contain a bacterial origin of replication, encodes for a selectable gene product and contains a cloning site." []
is_a: OBI:0000430 ! plasmid
is_a: OBI:0000737 ! cloning vector

[Term]
id: OBI:0000730
name: pyrosequencing assay
def: "A DNA sequencing by synthesis assay which sequences a single strand of DNA by synthesizing the complementary strand along it, one base pair at a time, and detecting which base was actually added at each step. The template DNA is immobilized, and solutions of A, C, G, and T nucleotides are added and removed after the reaction, sequentially. Light is produced only when the nucleotide solution complements the first unpaired base of the template. The sequence of solutions which produce chemiluminescent signals allows the determination of the sequence of the template. ssDNA template is hybridized to a sequencing primer and incubated with the enzymes DNA polymerase, ATP sulfurylase, luciferase and apyrase, and with the substrates adenosine 5-prime phosphosulfate (APS) and luciferin." []
is_a: OBI:0000734 ! DNA sequencing by synthesis assay

[Term]
id: OBI:0000731
name: recombinant vector
def: "A recombinant vector is created by a recombinant vector cloning process, and contains nucleic acids that can be amplified. It retains functions of the original cloning vector." []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0000732
name: restriction enzyme
def: "an enzyme that has a specific target cleavage sites within nucleic acids" []
is_a: PR:000000001 ! protein

[Term]
id: OBI:0000734
name: DNA sequencing by synthesis assay
def: "A DNA sequencing assay that relies on DNA polymerase activity to perform chain extension during the sequencing reaction step." []
is_a: OBI:0000626 ! DNA sequencing assay

[Term]
id: OBI:0000735
name: NTP-2000
def: "a material consisting of 14.5% protein, 8.5% fat and 9.5% fiber produced to feed rodents" []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0000736
name: single fragment library
def: "is a collection of short tags from DNA fragments, are extracted and covalently linked as single tag constructs" []
synonym: "fragment library" EXACT []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0000737
name: cloning vector
def: "A cloning vector is an engineered material that is used as an input material for a recombinant vector cloning process to carry inserted nucleic acids. It contains an origin of replication for a specific destination host organism, encodes for a selectable gene product and contains a cloning site." []
is_a: OBI:1110108 ! material to be added

[Term]
id: OBI:0000738
name: restriction enzyme based cloning
def: "restriction enzyme based cloning is a recombinant vector cloning process that has as an input genetic material that was cleaved with restriction enzymes, and a cloning vector that was cleaved with complementary restriction enzymes. It uses ligase to chemically join the input genetic material and the cloning vector to create a recombinant vector." []
is_a: OBI:0600064 ! recombinant vector cloning

[Term]
id: OBI:0000739
name: Student's t-test
def: "Studen't t-test is a data transformation with the objective of a statistical hypothesis test in which the test statistic has a Student's t distribution if the null hypothesis is true. It is applied when the population is assumed to be normally distributed but the sample sizes are small enough that the statistic on which inference is based is not normally distributed because it relies on an uncertain estimate of standard deviation rather than on a precisely known value." []
is_a: OBI:0000673 ! statistical hypothesis test

[Term]
id: OBI:0000740
name: material sample role
def: "A material sample role is a specimen role borne by a material entity that is the output of a material sampling process." []
is_a: OBI:0000112 ! specimen role

[Term]
id: OBI:0000741
name: topologically preserved clustered data set
def: "A clustered data set in which the topology, i.e. the spatial properties between data points, is preserved from the original input data from which it was derived." []
is_a: OBI:0000648 ! clustered data set

[Term]
id: OBI:0000742
name: nucleic acid restriction enzyme digest
def: "A nucleic acid digest is a material that is the output of a process in which nucleic acids are combined with a restriction enzyme resulting in digested fragments with defined ends based on the enzymes cleavage site" []
is_a: CHEBI:33696 ! nucleic acid

[Term]
id: OBI:0000743
name: immune response assay
def: "An assay that determines information about an immune response" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000744
name: material sampling process
def: "A specimen gathering process with the objective to obtain a specimen that is representative of the input material entity" []
synonym: "sample collection" EXACT []
synonym: "sampling" EXACT []
is_a: OBI:0000659 ! specimen collection process

[Term]
id: OBI:0000747
name: material sample
def: "A material entity that has the material sample role" []
synonym: "sample" EXACT []
synonym: "sample population" EXACT []
is_a: OBI:0100051 ! specimen

[Term]
id: OBI:0000748
name: bisulfite sequencing assay
def: "A DNA methylation profiling assay which determines the methylation status of genomic DNA using DNA sequencing techniques preceded by a bisulfite based chemical modification of genomic DNA at CpG island location." []
is_a: OBI:0000626 ! DNA sequencing assay
is_a: OBI:0000634 ! DNA methylation profiling assay

[Term]
id: OBI:0000749
name: CART
def: "A CART (classification and regression trees) is a data transformation method for producing a classification or regression model with a tree-based structure." []
synonym: "classification and regression trees" EXACT []
is_a: OBI:0000707 ! decision tree building data transformation

[Term]
id: OBI:0000750
name: study design independent variable
def: "a directive information entity that is part of a study design. Independent variables are entities whose values are selected to determine its relationship to an observed phenomenon (the dependent variable). In such an experiment, an attempt is made to find evidence that the values of the independent variable determine the values of the dependent variable (that which is being measured). The independent variable can be changed as required, and its values do not represent a problem requiring explanation in an analysis, but are taken simply as given. The dependent variable on the other hand, usually cannot be directly controlled" []
synonym: "experimental factor" EXACT []
synonym: "independent variable" EXACT []
synonym: "study factor" EXACT []
is_a: IAO:0000033 ! directive information entity

[Term]
id: OBI:0000751
name: study design dependent variable
def: "dependent variable specification is part of a study design. The dependent variable is the event studied and expected to change when the independent variable varies." []
synonym: "dependent variable" EXACT []
is_a: IAO:0000033 ! directive information entity

[Term]
id: OBI:0000784
name: anticoagulant-containing test tube
def: "A 'blue top' test tube that contains anticoagulant for storing blood specimens'" []
is_a: OBI:0000836 ! test tube

[Term]
id: OBI:0000785
name: study design controlled variable
def: "Controlled variable specification  is a part of a study design. They are the entities that could vary, but are kept constant to prevent their influence on the effect of the independent variable on the dependent." []
synonym: "controlled variable" EXACT []
is_a: IAO:0000033 ! directive information entity

[Term]
id: OBI:0000787
name: human antithrombin-III in blood assay
def: "An assay that measures the amount of antithrombin III in blood." []
synonym: "AT-III assay" EXACT []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0000788
name: fluorescently labeled MHC multimer
def: "A complex of two or more linked MHC molecules including a fluorescent label that can be loaded with a ligand, and is used in flow cytometry assay to bind to T cell receptors of T cells specific for the ligand" []
is_a: COB:0000026 ! processed material entity
is_a: OBI:0001936 ! molecular-labeled material

[Term]
id: OBI:0000789
name: survival rate
def: "A measurement data that represents the percentage of people or animals in a study or treatment group who are alive for a given period of time after diagnosis or initiation of monitoring." []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0000790
name: recombinant BAC cloning
def: "Recombinant BAC cloning is a  process with the objective to insert genetic material into an F plasmid based bacterial artificial chromosome for future replication of the inserted material" []
is_a: OBI:0600064 ! recombinant vector cloning

[Term]
id: OBI:0000791
name: multiple testing correction objective
def: "A multiple testing correction objectives is a data transformation objective where the aim is to correct for a set of statistical inferences considered simultaneously" []
synonym: "multiple comparison correction objective" EXACT []
is_a: OBI:0200186 ! error correction objective

[Term]
id: OBI:0000792
name: statistical model validation
def: "A data transformation which assesses how the results of a statistical analysis will generalize to an independent data set." []
is_a: OBI:0200171 ! partitioning data transformation

[Term]
id: OBI:0000793
name: double blind study execution
def: "A double blind study execution is defined as any study execution in which neither the subjects nor the investigators are informed of which study arm the subjects are part of during the portion of the trial when the subjects are being treated" []
is_a: OBI:0000822 ! single blind study execution

[Term]
id: OBI:0000794
name: obsolete transcription factor binding site
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: SO:0000235

[Term]
id: OBI:0000795
name: glucometer
def: "A measurement device with the function to measure and record the level/amount of glucose in a blood sample" []
synonym: "glucose meter" EXACT []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000796
name: purification objective
def: "The objective to separate a material entity into different compositions of which one or more have are purified fractions that contain higher concentration of a desired component, while others contain impurities and are not of interest" []
synonym: "isolation objective" EXACT []
is_a: OBI:0000681 ! separation into different composition objective

[Term]
id: OBI:0000797
name: obsolete_primary structure of protein
def: "The primary structure of a protein that is completely defined by the set of its amino acid residue parts and the linear order induced by the peptide bonds that hold them together" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000798
name: capsule shell
def: "a small rounded gelatinous container" []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0000799
name: recombinant phage cloning
def: "Recombinant phage cloning is the process of using a phage plus some insert nucleic acid for the purposes of amplification of the insert material achieved by phage assembly in vitro." []
is_a: OBI:0600064 ! recombinant vector cloning

[Term]
id: OBI:0000800
name: cross linking
def: "A process in which bonds are created that link one polymer to another" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000801
name: spike train datum
def: "A measurement datum which represents information about an ordered series of action potentials in an organism's CNS measured over time." []
synonym: "spike train measurement" EXACT []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0000802
name: prothrombin time assay
def: "An assay that measures the prothrombin ratio, which is the prothrombin time for a patient, divided by the result for control plasma. Most commonly the test is preformed using blood plasma. Blood is drawn into a test tube containing liquid citrate, which acts as an anticoagulant. An excess of calcium is added to enable the blood to clot again.Tissue factor (also known as factor III or thromboplastin) is added, and the time the sample takes to clot is measured optically as the prothrombin time, which is compared to a control sample." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000803
name: denaturing
def: "Is a process in which the tertiary or secondary structure of a polymer is disrupted" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000804
name: informing investigator of subject study arm
def: "A planned process with the objective to make the investigator aware of which study arm a patient is participating in." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000805
name: antithrombin-III berichrome assay
def: "An antithrombin-III (AT-III) assay in which exogenous bovine thrombin and heparin are added to test plasma to form a thrombin-heparin-AT complex. The residual thrombin not bound then hydrolyzes the p-nitroalanine substrate to produce a yellow color, which is read at 405 nm. The intensity of color produced is inversely proportional to the AT present. A calibration is done with standard human plasma reagent and results for a given specimen are reported as a percentage relative to the standard" []
synonym: "AT-III assay" EXACT []
is_a: OBI:0000787 ! human antithrombin-III in blood assay

[Term]
id: OBI:0000806
name: material maintenance objective
def: "An objective specification maintains some or all of the qualities of a material over time." []
is_a: IAO:0000005 ! objective specification

[Term]
id: OBI:0000807
name: presentation of stimulus
def: "A planned process with the objective to expose an organism to a stimulus." []
synonym: "stimulation of organism" EXACT []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000808
name: spectrolyse heparin antifactor-Xa assay
def: "An assay that quantitatively measures heparin in human plasma using Factor Xa and Antithrombin III in excess, where the rate of Factor Xa inhibition is directly proportional to the heparin concentration. The residual Factor Xa activity, measured with a Factor Xa-specific chromogenic substrate, is inversely proportional to the heparin concentration." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000809
name: amplified DNA
def: "DNA that has been produced in an enzymatic amplification process" []
is_a: CHEBI:16991 ! deoxyribonucleic acid

[Term]
id: OBI:0000810
name: informed consent process
def: "A planned process with the objective to inform a person or their legal representative of legally and ethically relevant facts about a process that the person in question is asked to participate in, and which results in a documented decision as to whether the person in question will participate." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000811
name: obsolete primary structure of DNA macromolecule
def: "a quality of a DNA molecule that inheres in its bearer due to the order of its DNA nucleotide residues" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000812
name: measuring neural activity in the caudate nucleus assay
def: "An assay that measures neural activity in the caudate nucleus" []
is_a: OBI:0000454 ! extracellular electrophysiology recording assay

[Term]
id: OBI:0000813
name: to be treated with active ingredient role
def: "A study subject role which begins to exist when a subject is assigned to be one of those who will receive active ingredient, and is realized in a study execution in which they receive the active ingredient" []
is_a: OBI:0000097 ! participant under investigation role

[Term]
id: OBI:0000814
name: guar gum
def: "Guar gum, also called guaran, is a galactomannan. It is primarily the ground endosperm of guar beans. The guar seeds are dehusked, milled and screened to obtain the guar gum.[1] It is typically produced as a free flowing, pale, off-white colored, coarse to fine ground powder." []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0000815
name: Berichrom(r) Antithrombin III (A) Kit
def: "For the chromogenic determination of antithrombin III. Autoanalyzer method for undiluted samples. For the quantitative chromogenic determination of the functional activity of antithrombin III in plasma on autoanalyzers for the diagnosis of diminished AT III synthesis, increased consumption, and for monitoring substitution therapy. Berichrom(r) Antithrombin III (A) is used for the rapid determination of the physiologically active antithrombin III and permits the diagnosis of congenital and acquired antithrombin III deficiency, a condition frequently associated with an increased risk of thrombosis. Acquired antithrombin III deficiencies frequently occur due to consumption following major operations or due to disseminated intravascular coagulation (DIC) in cases of septicaemia, nephroses, liver parenchymal damage (hepatitis, drug intoxication, alcoholism) and estrogen-containing contraceptives. The test permits early detection of patients at increased risk for thrombosis. Kit contains: 6 x for 5.0 mL Thrombin (bovine), 3 x for 3.0 mL Substrate Reagent, 1 x 30.0 mL Buffer Solution" []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0000816
name: micro electrode
def: "An electrode of very fine caliber consisting usually of a fine wire or a glass tube of capillary diameter drawn to a fine point and filled with saline or a metal used in physiological experiments to stimulate or record action currents of extracellular or intracellular origin in the nervous system." []
synonym: "micro electrode measuring device" EXACT []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000817
name: fucoidan
def: "Fucoidan is a sulfated polysaccharide (MW: average 20,000) found mainly in various species of brown seaweed such as kombu, limu moui,bladderwrack, wakame, mozuku, and hijiki (variant forms of fucoidan have also been found in animal species, including the sea cucumber)." []
is_a: COB:0000013 ! molecule

[Term]
id: OBI:0000818
name: calibration
def: "A planned process with the objective to establish the relationship between data produced by a measurement device and physical qualities. This is done by using the measurement device under defined conditions, and either tuning it to adjust the measured output, or record the output and use it as a reference in future measurements." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000819
name: anticoagulant tube storage of blood specimen
def: "Storage of a blood specimen in a tube with anticoagulant" []
is_a: OBI:0302893 ! storage

[Term]
id: OBI:0000820
name: activated partial thromboplastin time assay
def: "An assay that evaluates blood coagulation by measuring the time required for the appearance of fibrin strands following the mixing blood or plasma with phospholipid platelet substitute (e.g., crude cephalins, soybean phosphatides). It is a test of the intrinsic pathway (factors VIII, IX, XI, and XII) and the common pathway (fibrinogen, prothrombin, factors V and X) of blood coaguation . It is used as a screening test and to monitor heparin therapy." []
synonym: "aPTT assay" EXACT []
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:0000821
name: filled capsule
def: "A pill in the form of a small rounded gelatinous container with medicine inside." []
is_a: OBI:0000827 ! pill

[Term]
id: OBI:0000822
name: single blind study execution
def: "A single blind study execution is defined as any study execution in which the subjects are not informed of which study arm they are part of during the portion of the trial when the subjects are being treated" []
is_a: OBI:0000826 ! treatment portion of study execution

[Term]
id: OBI:0000823
name: thrombin time assay
def: "An assay that measures the time between the addition of the thrombin and the clot formation in plasma." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000824
name: recombinant YAC cloning
def: "Recombinant YAC cloning is a  process with the objective to insert genetic material into a yeast artificial chromosome vector for future replication of the inserted material" []
is_a: OBI:0600064 ! recombinant vector cloning

[Term]
id: OBI:0000825
name: to be treated with placebo role
def: "A study subject role which begins to exist when a subject is assigned to be one of those who will receive a placebo, and realized in a study execution in which they receive the placebo" []
is_a: OBI:0000097 ! participant under investigation role

[Term]
id: OBI:0000826
name: treatment portion of study execution
def: "A planned process, part of a study design execution, during which the treatment of subjects is ongoing" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000827
name: pill
def: "A dose of medicine or placebo in the form of a small pellet." []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0000828
name: research organization
def: "An organization formed with a goal to have its members conduct investigations" []
is_a: OBI:0000245 ! organization

[Term]
id: OBI:0000830
name: obsolete_primary structure of sequence macromolecule
def: "A quality inhering in a molecule that is completely defined by the linear sequence of a set of residues which are connected by directional, linear bonds" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000831
name: DNA residue methylation
def: "a quality of a DNA residue that has a methyl group attached to it" []
is_a: PATO:0001241 ! physical object quality

[Term]
id: OBI:0000832
name: measurement device
def: "A device in which a measure function inheres." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0000834
name: high molecular weight DNA extract
def: "The output of an extraction process in which DNA molecules above a molecular weight cutoff are purified in order to exclude DNA from organellas." []
is_a: OBI:0001051 ! DNA extract

[Term]
id: OBI:0000835
name: manufacturer
def: "A person or organization that has a manufacturer role." []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0000836
name: test tube
def: "A test tube is a device consisting of a glass or plastic tubing, open at the top, usually with a rounded U-shaped bottom which has the function to contain material" []
synonym: "collection tube" EXACT []
synonym: "sample tube" EXACT []
is_a: OBI:0000522 ! vial

[Term]
id: OBI:0000837
name: oral ingestion of pill
def: "An adding a material entity to target with the entity is a pill and the target is the mouth" []
is_a: OBI:0000952 ! oral administration

[Term]
id: OBI:0000838
name: material maintenance
def: "A planned process with the objective to maintain some or all of the characteristics of an input material over time." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000839
name: labeled oligonucleotide
def: "a labeled oligonucleotide is a short nucleic acid which underwent a labeling process resulting in a radioactive isotope such as P32 or P33 added to its backbone for instance by end labeling with polynucleotide kinase which added radiolabeled ATP to the 5' end of oligonucleotide" []
is_a: COB:0000026 ! processed material entity
is_a: OBI:0001936 ! molecular-labeled material

[Term]
id: OBI:0000840
name: unblinding process
def: "A planned process that is the part of the study execution in which the subjects are told what study arm they are in and in which the investigators are told which subjects are in which trials." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000841
name: subject agrees they understand informed consent document
def: "A planned process in which a subject receives an informed consent document and agrees that they have understood it." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000842
name: informing subject of study arm
def: "A planned process with the objective to make the subject aware of which study arm they are participating in." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000843
name: Sysmex CA-6000 Coagulation Analyzer
def: "The Sysmex CA-6000 automated coagulation analyzer is a random access instrument that is capable of performing 20 clot-based and chromogenic assays" []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000844
name: obsolete hospital
def: "A medical organization at which sick or injured people are given clinical care" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: OMRSE:00000056

[Term]
id: OBI:0000845
name: obsolete primary structure of RNA molecule
def: "The primary structure of an RNA molecule that is completely defined by the set of its nucleic residue parts and the linear order induced by the peptide bonds that hold them together" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000847
name: test substance role
def: "A role born by a material entity and realized in a process where the substance is used as specified as the independent variable for an investigation" []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000848
name: polyA RNA extraction
def: "A RNA extraction process typically involving the use of poly dT oligomers in which the desired output material is polyA RNA." []
is_a: OBI:0666666 ! RNA extraction

[Term]
id: OBI:0000849
name: organellar RNA extraction
def: "A RNA extraction process in which the desired output material is RNA in the organelle(s)." []
is_a: OBI:0666666 ! RNA extraction

[Term]
id: OBI:0000851
name: obsolete_diethyl pyrocarbonate
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000852
name: record of missing knowledge
def: "An information content entity created to indicate that information about something is not available to the person recording it." []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0000854
name: western blot assay
def: "An analyte assay that detects specific peptides in an input material by separating it using gel electrophoresis, transfering the separated molecules to a membrane, and staining them with_ antibodies specific to the analyte molecules." []
is_a: OBI:0001978 ! immunoblot assay

[Term]
id: OBI:0000855
name: total RNA extraction
def: "A RNA extraction process in which total cellular and organelle RNA are extracted." []
is_a: OBI:0666666 ! RNA extraction

[Term]
id: OBI:0000856
name: obsolete intracellular material detection by flow cytometry assay
def: "An assay in which the presence of a material inside a cell is measured by permeabilizing the cell membrane to allow entry of specific antibodies, and counting the stained cells using a flow cytometer." []
synonym: "intracellular staining" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: OBI:0000916

[Term]
id: OBI:0000857
name: complementary nucleotide probe role
def: "A role played by a nucleic acid molecule that is used in a planned process for its ability to bind a nucleic acid molecules with complementary nucleotide sequence" []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000858
name: record of unknown sex
def: "a record indicating that the biological sex of an organism is not known." []
is_a: OBI:0000852 ! record of missing knowledge

[Term]
id: OBI:0000859
name: cytoplasmic RNA extraction
def: "A RNA extraction process in which the desired output material is RNA in the cytoplasm." []
is_a: OBI:0666666 ! RNA extraction

[Term]
id: OBI:0000860
name: northern blot assay
def: "An assay that determines the presence of gene transcripts by hybridizing labeled RNA or DNA probes against messenger RNAs isolated from tissue or cell cultures, resolved on denaturing gel, transfered by a blotting procedure to a solid support. Detection of hybridization signals is carried out by immunofluorescence or radioactivity measurements using photographic films or digital imaging devices such as Phosphor Imager." []
synonym: "northern blot" EXACT []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0000861
name: Likelihood-ratio test
def: "Likelihood-ratio is a data transformation which tests whether there is evidence of the need to move from a simple model to a more complicated one (where the simple model is nested within the complicated one); tests of the goodness-of-fit between two models." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0000862
name: nuclear RNA extract
def: "A RNA extract that is the output of an extraction process in which RNA molecules found in the nucleus, including mRNA precursors (pre-mRNA), are extracted." []
is_a: OBI:0000880 ! RNA extract

[Term]
id: OBI:0000865
name: 96-well neutralization assay
def: "A serum neutralization of viral infectivity assay which is performed in a 96-well plate." []
synonym: "microneutralization assay" EXACT []
is_a: OBI:0000872 ! serum neutralization of viral infectivity assay

[Term]
id: OBI:0000867
name: establishing cancer cell line
def: "is a planned process in which the objective is to generate a cell line from a natural population of cancer cells which are already immortal" []
comment: Helen Parkinson
is_a: OBI:0001867 ! establishing cell line

[Term]
id: OBI:0000868
name: pattern matching objective
def: "A pattern matching objective aims to detect the presence of the constituents of a given pattern. In contrast to pattern recognition, the pattern is rigidly specified. Patterns are typicall sequences or trees." []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0000869
name: polyA RNA extract
def: "A RNA extract that is the output of an extraction process in which RNA molecules with poly A tail at its 3' end are purified." []
is_a: OBI:0000880 ! RNA extract

[Term]
id: OBI:0000870
name: single-nucleotide-resolution nucleic acid structure mapping assay
def: "An assay that provides information about the secondary structure of nucleic acids using chemical or enzymatic probing to establish the extent of base-pairing or solvent accessiblity." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000871
name: viral hemagglutination assay
def: "An assay that quantifies viruses by their hemagglutination activity." []
synonym: "HA" EXACT []
synonym: "HI" EXACT []
synonym: "viral haemagglutinin assay" EXACT []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0000872
name: serum neutralization of viral infectivity assay
def: "An analyte assay that measures virus-neutralizing abilities of different sera. Different dilutions of serum are mixed with virus and used to infect cells. At the lower dilutions, antibodies will block infection, but at higher dilutions, there will be too few antibodies to have an effect.The neutralization titer is expressed as the reciprocal of the highest dilution at which virus infection is blocked." []
synonym: "influenza neutralization assay" EXACT []
is_a: OBI:0000443 ! analyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:0000873
name: pre-mortem specimen
def: "a specimen that was taken from a live organism" []
is_a: OBI:0001506 ! specimen with pre- or post-mortem status

[Term]
id: OBI:0000874
name: detection of specific nucleic acid polymers with complementary probes
def: "An analyte assay in which a specified input material (the evaluant) is examined for the presence or quantity of specified nucleic acid polymers, which are identified based on the use of complementary nucleic acid probes." []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0000875
name: viral hemagglutination inhibition assay
def: "An assay that measures the ability of an evaluant to inhibit hemagglutination by a virus. Hemagglutinin is a viral protein which binds to sialic acid receptors on cells or to erythrocytes, causing the cells to clump. Loss of clumping indicates that the evaluant blocks binding of hemagglutinin to sialic acid receptors." []
synonym: "biological activity" EXACT []
synonym: "HAI" EXACT []
synonym: "hemagglutination inhibition" EXACT []
synonym: "HIA" EXACT []
synonym: "viral haemagglutinin inhibition assay" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000876
name: cytoplasmic RNA extract
def: "A RNA extract that is the output of a RNA extraction process in which RNA molecules found in the cytoplasm are extracted." []
is_a: OBI:0000880 ! RNA extract

[Term]
id: OBI:0000877
name: cell line immortalization
def: "an establishing cell line process whereby a mortal cell line is intentionally genetically modified to be capable of indefinite propagation and re-established as a new immortal cell line" []
comment: A immortalizing genetic transformation of an existing population of cell line cells is required as part of this process, as are additional steps for  selecting and propagating the cells output form this process into a cell line.
synonym: "'establishing immortal cell line through directed genetic modification'" EXACT []
is_a: OBI:0001867 ! establishing cell line

[Term]
id: OBI:0000879
name: random primed DNA labeling
def: "a labeling in which random primers are used to uniformly label input DNA" []
is_a: OBI:0600038 ! addition of molecular label

[Term]
id: OBI:0000880
name: RNA extract
def: "an extract which is the output of an extraction process in which RNA molecules are isolated from a specimen." []
is_a: OBI:0001010 ! nucleic acid extract

[Term]
id: OBI:0000882
name: cell-cell killing assay
def: "A cytometry assay that monitors a cell population to track how many are killed by other cells." []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0000883
name: in vivo cell killing assay
def: "A cell killing assay that measures if and how many target cells are killed within an organism." []
is_a: OBI:0000882 ! cell-cell killing assay

[Term]
id: OBI:0000885
name: secondary structure of sequence macromolecule
def: "A quality inhering in a molecule that refers to general three-dimensional form of local segments of biopolymers such as proteins and nucleic acids (DNA/RNA). It does not, however, describe specific atomic positions in three-dimensional space, which are considered to be tertiary structure.\nSecondary structure was introduced by Kaj Ulrik Linderstrøm-Lang in the 1952 Lane medical lectures at Stanford." []
is_a: PATO:0001241 ! physical object quality

[Term]
id: OBI:0000888
name: nuclear RNA extraction
def: "A RNA extraction process in which the desired output material is RNA in the nucleus." []
is_a: OBI:0666666 ! RNA extraction

[Term]
id: OBI:0000889
name: survival curve
def: "A survival curve is a report graph which is a graphical representation of data where the percentage of survival is plotted as a function of time." []
is_a: IAO:0000573 ! line graph

[Term]
id: OBI:0000891
name: cell proliferation assay
def: "A cytometry assay which measures the degreee to which input cells are replicating." []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0000892
name: Southern blot assay
def: "An analyte assay that detects the presence of a specific sequence in a DNA sample, which has been digested by restriction enzymes, resolved by gel electrophoresis, and blotted to a solid support, followed by hybridization of a probe raised against a specific sequence and detected with fluorescence or radioactivity." []
synonym: "Southern blot" EXACT []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0000893
name: real time polymerase chain reaction assay
def: "An assay, based on the PCR, that amplifies and simultaneously quantifies a specific DNA molecule based on the use of complementary probes/primers. It enables both detection and quantification (as absolute number of copies or relative amount when normalized to DNA input or additional normalizing genes) of one or more specific sequences in a DNA sample." []
synonym: "kinetic polymerase chain reaction" EXACT []
synonym: "Q-PCR" EXACT []
synonym: "qPCR" EXACT []
synonym: "quantitative real time polymerase chain reaction" EXACT []
is_a: OBI:0002692 ! polymerase chain reaction assay

[Term]
id: OBI:0000894
name: protein extract
def: "a protein extract is the output of an extraction process from tissues or cell cultures resulting in a solution of cellular and/or organellar proteins in buffer solution used to prevent degradation," []
is_a: OBI:0000423 ! extract

[Term]
id: OBI:0000895
name: total RNA extract
def: "A RNA extract that is the output of an extraction process in which total celluar and organelle RNA molecules are isolated from a specimen." []
is_a: OBI:0000880 ! RNA extract

[Term]
id: OBI:0000896
name: secondary structure of RNA molecule
is_a: OBI:0000885 ! secondary structure of sequence macromolecule

[Term]
id: OBI:0000897
name: DEPC structure mapping assay
def: "A single-nucleotide-resolution nucleic acid structure mapping assay which determines nucleic acid secondary structure at a nucleotide resolution scale using DEPC as reagent and chemical probe" []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0000899
name: organellar RNA extract
def: "A RNA extract that is the output of an extraction process in which RNA molecules found in an organelle, e.g., mitochondrion, ER, or chloroplast, excluding the nucleus, are extracted." []
is_a: OBI:0000880 ! RNA extract

[Term]
id: OBI:0000902
name: post mortem specimen
def: "a specimen that was taken from a dead organism" []
is_a: OBI:0001506 ! specimen with pre- or post-mortem status

[Term]
id: OBI:0000903
name: in vitro cell killing assay
def: "A cell killing assay that measures if and how many target cells are actively killed by other cells in a cell culture." []
is_a: OBI:0000882 ! cell-cell killing assay
is_a: OBI:0003587 ! cell culture assay

[Term]
id: OBI:0000904
name: reporter cell line analyte detection bioassay
def: "An analyte assay in which a cell line whose growth is known to be affected by the presence of a specific type of material (the anlyte) is cultured in the presence of an input material (the evaluant) in order to detect presence of the analyte in the evaluant." []
is_a: OBI:0000443 ! analyte assay
is_a: OBI:0003587 ! cell culture assay

[Term]
id: OBI:0000905
name: sequence feature annotation
def: "Information about a sequence region" []
comment: place holder for sequence ontology term
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0000906
name: induced hemagglutination
def: "The clumping or clustering of red blood cells caused by certain viruses, antibodies, or other substances" []
synonym: "hemeagglutination" EXACT []
is_a: COB:0000110 ! material processing

[Term]
id: OBI:0000907
name: supplying
def: "A planned process with the objective to provide material entities to be used in an investigation." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000908
name: labeled DNA extract
def: "a labeled specimen that is the output of a labeling process and has grain labeled DNA to be able to detect DNA in future experiments." []
is_a: OBI:0001143 ! labeled nucleic acid extract

[Term]
id: OBI:0000909
name: cloacal specimen
def: "A specimen obtained by inserting a swab deeply into the vent of the cloaca of an organism and vigorously swabbing the wall. The swab should be deeply stained with fecal material and is then placed in transport medium." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0000910
name: radio immuno assay
def: "An assay in which a radioactive labeled antigen or antibody is used to determine the interaction between an antigen and its receptor. This can be used to detect the presence of an antigen of interest in an input sample or determine the specificity of an input antibody." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000911
name: real time reverse-transcription polymerase chain reaction assay
def: "An assay that uses a reverse transcription step (an RNA strand is reverse transcribed into its DNA complement using the enzyme reverse transcriptase) before a PCR assay." []
synonym: "qRT-PCR" EXACT []
synonym: "RRT-PCR" EXACT []
synonym: "RT-rt PCR" EXACT []
is_a: OBI:0002692 ! polymerase chain reaction assay

[Term]
id: OBI:0000912
name: X-ray crystallography 3D molecular structure determination assay
def: "A 3D molecular structure determination assay in which the diffraction of pattern of X-ray beams in a crystal of purified material entities is used to resolve the 3-dimensional structure of the material entity of interest." []
is_a: OBI:0003117 ! 3D molecular structure determination assay

[Term]
id: OBI:0000913
name: promoter activity detection by reporter gene assay
def: "An assay in which the activity of a promoter in a cell is monitored by using a reporter gene that was inserted in a genomic location under control of the promoter and whose expression can be easily detected based on qualities or functions of the gene." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000914
name: nasopharyngeal aspirate specimen
def: "A specimen which derives from nasopharyngeal mucosa after aspiration." []
is_a: OBI:2000007 ! nasopharynx specimen

[Term]
id: OBI:0000915
name: freezing storage
def: "A storage process in temperature that maintenance the frozen status of the stored entities." []
is_a: OBI:0302893 ! storage

[Term]
id: OBI:0000916
name: flow cytometry assay
def: "A cytometry assay in which an input cell population is put in solution, is passed by a laser, and optical sensors are used to detect scattering of the laser light and/or fluorescence of specific markers to count and characterize the particles in solution." []
synonym: "FACS" EXACT []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0000917
name: nasal swab specimen
def: "A specimen obtained using a cotton swab on a stick, passed up the nostril to obtain a sample of exudate and epithelial debris for microbiological or cellular examination." []
is_a: OBI:0002599 ! swab specimen
is_a: OBI:2000006 ! upper respiratory tract specimen

[Term]
id: OBI:0000918
name: Dulbecco's modified Eagle medium
def: "A culture medium containing iron, phenol red, amino acids, salts, glucose and vitamins." []
synonym: "D-MEM" EXACT []
synonym: "DMEM" EXACT []
is_a: OBI:0000079 ! culture medium

[Term]
id: OBI:0000919
name: animal euthanization
def: "A process in which is the end of life of animal is brought about in accordance with local regulations on treatment of animal subjects and using a method which causes minimal pain and distress to the animal subject" []
comment: may later be refined with more specific list of organisms
synonym: "animal sacrifice" EXACT []
is_a: OBI:0600006 ! killing

[Term]
id: OBI:0000920
name: cytometric bead array assay
def: "An analyte assay in which a series of beads coated with antibodies, antigens, or other small molecules are used to detect an analyte of interest." []
synonym: "Luminex assay" EXACT []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0000921
name: labeled RNA extract
def: "a labeled specimen that is the output of a labeling process and has grain labeled RNA to be able to detect RNA in future experiments." []
is_a: OBI:0001143 ! labeled nucleic acid extract

[Term]
id: OBI:0000922
name: frozen specimen
def: "A specimen that has been frozen in order to store it." []
is_a: OBI:0001472 ! specimen with known storage state

[Term]
id: OBI:0000923
name: surface plasmon resonance binding assay
def: "A binding assay that uses the detection of electromagnetic waves in a surface to detect material entities adsorbed to the surface, which change the local optical index of refraction." []
is_a: OBI:0001146 ! binding assay

[Term]
id: OBI:0000924
name: labeled specimen
def: "A specimen  that has been modified in order to be able to detect it in future experiments" []
is_a: OBI:0001936 ! molecular-labeled material
is_a: OBI:0100051 ! specimen

[Term]
id: OBI:0000925
name: infectious agent
def: "is a material entity bearing the disposition to infect an organism" []
is_a: COB:0000022 ! organism

[Term]
id: OBI:0000926
name: obsolete_ambidexterious handedness
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000927
name: lyophilization storage
def: "a storage process with input material entity and output freeze dried material for long time storage" []
comment: can link to freezing-dying equipment, such as freeze-dryer, rotary evaporator, if needed
is_a: OBI:0302893 ! storage

[Term]
id: OBI:0000928
name: material combination function
def: "A material separation function is a function that decreases the resolution between two or more material entities." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000929
name: obsolete_training service provider role
def: "a service provider role which is realized by a servicer provider organization performing some training" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000930
name: calorimeter
def: "A measurement device that is used to calculate the heat flow of a chemical reaction or physical change." []
synonym: "calorimetry instrument?" EXACT []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000931
name: study intervention
def: "A planned process that is the part of the execution of an intervention design study which is varied between two or more subjects in the study." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000932
name: material separation device
def: "A device with a separation function realized in a planed process" []
is_a: COB:0001300 ! device

[Term]
id: OBI:0000933
name: positron emission tomography scanner
def: "A device that produces a three-dimensional image or picture of functional processes in the body. It detects pairs of gamma rays emitted indirectly by a positron-emitting radionuclide (tracer), which is introduced into the body on a biologically active molecule." []
synonym: "PET scanner?" EXACT []
is_a: OBI:0000398 ! image creation device

[Term]
id: OBI:0000934
name: intramuscular injection
def: "is the injection of a material entity (bearing the administered substance role) into the muscle (bearing the target role) of an organism using a syringe" []
is_a: OBI:0000426 ! injection
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0000935
name: micromanipulator
def: "A device that is used to physically interact with a sample under a microscope, where a level of precision of movement is necessary that cannot be achieved by the unaided human hand." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0000936
name: obsolete_material access provider role
def: "a service provider role which is realized by a servicer provider organization performing access to some material" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000937
name: obsolete_left handedness
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000938
name: categorical measurement datum
def: "A measurement datum that is reported on a categorical scale." []
synonym: "nominal mesurement datum" EXACT []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0000939
name: training process
def: "a process that achieves a training objective" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000940
name: optical microscope
def: "A microscope that produces an image of an object by targeting it with an electro-magnetic beam in the visible frequency range" []
is_a: OBI:0400169 ! microscope

[Term]
id: OBI:0000941
name: service consumer role
def: "a role which inheres in a person who uses a service" []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000942
name: intradermal injection
def: "is the injection of a material entity (bearing the administered substance role) into the dermis (bearing the target role) of an organism using a syringe" []
is_a: OBI:0000426 ! injection
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0000943
name: chemical cleavage
def: "chemical cleavage is a protocol application relying on a chemical compound to cause the fragmentation of an input material that is susceptible to that chemical agent" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0000944
name: handedness assay
def: "An assay that measures the unequal distribution of fine motor skill between the left and right hands typically in human subjects by means of some questionnaire and scoring procedure." []
synonym: "handedness test" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000945
name: vibration isolation table
def: "A device  that supports another device such as a precision instrument by isolating it from vibration that is transmitted from the floor." []
is_a: OBI:0001034 ! environmental control device

[Term]
id: OBI:0000946
name: sterilization function
def: "a function to remove viable organisms from an input material" []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000947
name: service provider role
def: "is a role which inheres in a person or organization and is realized in in a planned process which provides access to training, materials or execution of protocols for an organization or person" []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000948
name: oscilloscope
def: "A device that measures and displayes signal voltages, usually as a two-dimensional graph of one or more electrical potential differences (vertical axis) plotted as a function of time or of some other voltage (horizontal axis)." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0000949
name: accessed material role
def: "is realized in a planned process where the bearer participates" []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0000950
name: paraffin specimen
def: "a specimen that is output of a paraffin storage process in which specimen is embedded in paraffin" []
is_a: OBI:0001472 ! specimen with known storage state

[Term]
id: OBI:0000951
name: compound treatment design
def: "an intervention design in which the treatment is the administration of a compound" []
is_a: OBI:0000115 ! intervention design

[Term]
id: OBI:0000952
name: oral administration
def: "An administering substance in vivo into the mouth of an organism" []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0000953
name: processed specimen
def: "A specimen that has been intentionally physically modified." []
is_a: COB:0000026 ! processed material entity
is_a: OBI:0100051 ! specimen

[Term]
id: OBI:0000954
name: subcutaneous injection
def: "is the injection of a material entity (bearing the administered substance role) into the hypodermis (bearing the target role) of an organism using a syringe" []
is_a: OBI:0000426 ! injection
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0000955
name: electrode puller
def: "A device used in the first step in making electrodes, that applies constant tension on a glass capillary tube and eventually breaks it while heating it; this produces a very fine point on the capillary tube." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0000956
name: obsolete_handedness
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: PATO:0002201

[Term]
id: OBI:0000957
name: self reported handedness assessment
def: "An assay where a person makes a statement that indicates what handedness he has from a choice of different categories." []
is_a: OBI:0000944 ! handedness assay

[Term]
id: OBI:0000959
name: vibrotome
def: "A preparation device that uses a vibrating razor blade to cut through tissue." []
is_a: OBI:0000932 ! material separation device

[Term]
id: OBI:0000960
name: reagent application function
def: "A function that is realized when a reagent is automatically added to some research material." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0000961
name: addition of molecular tracer function
def: "A reagent application function that is realized when a molecular tracer, such as an antibody or probe is automatically transferred to a biological specimen." []
is_a: OBI:0000960 ! reagent application function

[Term]
id: OBI:0000962
name: training objective
def: "An objective specification which is fulfilled by the provision of some training." []
is_a: IAO:0000005 ! objective specification

[Term]
id: OBI:0000963
name: categorical label
def: "A label that is part of a categorical datum and that indicates the value of the data item on the categorical scale." []
is_a: IAO:0000009 ! datum label

[Term]
id: OBI:0000964
name: in live cell assay
def: "An assay in which a measurement is made by observing entities located in a live cell." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000965
name: lyophilized specimen
def: "a specimen that is output of a lyophilization storage process in which specimen is lyophilized for storage." []
is_a: OBI:0001472 ! specimen with known storage state

[Term]
id: OBI:0000966
name: in live organism assay
def: "An assay in which a measurement is made by observing entities located in an organism." []
synonym: "in vivo assay" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000967
name: container
def: "A device that can be used to restrict the location of material entities over time" []
is_a: COB:0001300 ! device

[Term]
id: OBI:0000968
name: obsolete device
def: "A material entity that is designed to perform a function in a scientific investigation, but is not a reagent." []
synonym: "instrument" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: COB:0001300

[Term]
id: OBI:0000969
name: dose specification
def: "a directive information entity that describes the dose that will be administered to a target" []
is_a: IAO:0000033 ! directive information entity

[Term]
id: OBI:0000970
name: scalar score from composite inputs
def: "A measurement datum which is the result of combining multiple datum. For example, a mean or summary score." []
synonym: "questionaire score" EXACT []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0000971
name: fresh specimen
def: "a specimen that is output of a specimen creation process used for an investigation without storage." []
is_a: OBI:0001472 ! specimen with known storage state

[Term]
id: OBI:0000972
name: obsolete_electrically powered device
def: "a processed material created to have a function and which requires electrical power to execute" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000973
name: sequence data
def: "A data item that representing the primary structure of a macromolecule(it's sequence) sometimes associated with an indicator of confidence of that measurement." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0000974
name: obsolete_right handedness
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000975
name: cell-cell binding detection by flow cytometry assay
def: "A binding assay which uses a flow cytometer to detect pairs of cells that are bound to each other by staining them with different fluorescent labels." []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0000976
name: handedness categorical measurement datum
def: "A datum used to record the answer to a self assessment of whether a person uses their left hand, right hand primarily or each hand equally" []
is_a: OBI:0000938 ! categorical measurement datum

[Term]
id: OBI:0000977
name: paraffin storage
def: "a storage process with input organism or anatomical entity and paraffin and output material embedded in paraffin for long term storage" []
comment: need to specify paraffin or wax is one of specified input of the process
is_a: OBI:0302893 ! storage

[Term]
id: OBI:0000978
name: in container assay
def: "An assay in which a measurement is made by observing entities located in a container." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0000980
name: obsolete_protocol service provider role
def: "a service provider role which is realized by a servicer provider organization performing a protocol execution" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000981
name: agar stab specimen
def: "a specimen that is output of a process that cell culture inoculated into agar for long term storage." []
is_a: OBI:0001472 ! specimen with known storage state

[Term]
id: OBI:0000982
name: computed tomography scanner
def: "An image acquisition device that generates a three-dimensional image of the inside of an object from a large series of two-dimensional X-ray images taken around a single axis of rotation." []
synonym: "CT scanner" EXACT []
synonym: "X-ray computed tomography scanner" EXACT []
is_a: OBI:0000398 ! image creation device

[Term]
id: OBI:0000983
name: intranasal mucosal administration
def: "The administration of a substance into the intranasal mucosis of an organism" []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0000984
name: dose
def: "A measurement datum that measures the quantity of something that may be administered to an organism or that an organism may be exposed to. Quantities of nutrients, drugs, vaccines and toxins are referred to as doses." []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0000985
name: growth condition intervention design
def: "A study design in which the independent variable is the environmental condition in which the specimen is growing" []
is_a: OBI:0000115 ! intervention design

[Term]
id: OBI:0000986
name: obsolete_DNA sequencing training service
def: "A training process with the objective to provide a trainee with the skill to run DNA sequencing experiments" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000987
name: obsolete_general scalar measurement datum
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000988
name: obsolete performing a diagnosis
def: "The interpretation of the information available about bodily features (clinical picture) of a patient resulting in a diagnosis" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0000989
name: PCR instrument
def: "A device that is used to amplify a single or few copies of a piece of DNA across several orders of magnitude, generating thousands to millions of copies of a particular DNA sequence." []
is_a: OBI:0400116 ! thermal cycler

[Term]
id: OBI:0000990
name: electron microscope
def: "A microscope that produces an image of an object by targeting it with an electron beam" []
is_a: OBI:0400169 ! microscope

[Term]
id: OBI:0000991
name: Edinburgh score
def: "A score that measures the dominance of a person's right or left hand in everyday activities." []
is_a: OBI:0000970 ! scalar score from composite inputs

[Term]
id: OBI:0000992
name: DNA sequencing service
def: "A DNA sequencing  process provided as a service - which is the realization of some DNA sequencing in which the service provider role is realized." []
is_a: OBI:0001904 ! sequencing service

[Term]
id: OBI:0000993
name: service provision objective
def: "An objective which is fulfilled by the provision of some service e.g. a training service" []
is_a: IAO:0000005 ! objective specification

[Term]
id: OBI:0000994
name: intravenous injection
def: "is the injection of a material entity (bearing the administered substance role) into the vein (bearing the target role) of an organism using a syringe" []
is_a: OBI:0000426 ! injection
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0000995
name: administration of material to specimen
def: "The directed combination of a material entity with a specimen." []
is_a: OBI:0000652 ! material combination

[Term]
id: OBI:0000996
name: device creation objective
def: "an objective which aims to create a device with a specified function" []
is_a: OBI:0000456 ! material transformation objective

[Term]
id: OBI:0000997
name: growth environment
def: "The collection of material entities and their qualities that are located near a live organism, tissue or cell and can influence its growth." []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0001000
name: questionnaire
def: "A document with a set of printed or written questions with a choice of answers, devised for the purposes of a survey or statistical study." []
is_a: IAO:0000310 ! document

[Term]
id: OBI:0001001
name: Edinburgh handedness assay
def: "An assay that uses a set of questions (the Edinburgh Handedness inventory) to generate a score that can be used to assess the dominance of a person's right or left hand in everyday activities. The inventory can be used by an observer assessing the person, or by a person self-reporting hand use. The latter method tends to be less reliable due to a person over-attributing tasks to the dominant hand." []
is_a: OBI:0000944 ! handedness assay

[Term]
id: OBI:0001002
name: Faraday cage
def: "A device formed by conducting material or by a mesh of such material, that blocks out external static electric fields." []
synonym: "Faraday shield" EXACT []
is_a: OBI:0001034 ! environmental control device

[Term]
id: OBI:0001003
name: agar stab storage
def: "a storage process with input cell culture and agar and output agar stab for long time storage" []
comment: need to specify that agar is one of input for this process
is_a: OBI:0302893 ! storage

[Term]
id: OBI:0001005
name: RNASE CL3 structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale using RNAse CL3 as reagent and enzymatic probe." []
synonym: "single nucleotide resolution mapping assay using RNAse CL3" EXACT []
is_a: OBI:0001014 ! single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing

[Term]
id: OBI:0001006
name: CMCT structure mapping assay
def: "A single-nucleotide-resolution nucleic acid structure mapping assay which uses CMCT as reagent and chemical probe to generate data and information at nucleotide resolution scale contributing to the determination of nucleic acid secondary structure" []
synonym: "single nucleotide resolution mapping assay using CMCT probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0001007
name: image creation
def: "A planned process that captures an image of an object." []
synonym: "image acquisition" EXACT []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0001008
name: MPE-Fe(II) structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at the nucleotide resolution scale using Fe-MP as reagent and chemical probe." []
synonym: "single nucleotide resolution mapping assay using Fe-MP probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0001009
name: obsolete_qualitative binding detection assay
def: "A binding assay where the specified output determines if two or more material entities do or do not have the disposition to form a complex above a threshold level of significance. The threshold can be defined through detection limits of the instrument, the use of experimental controls that establish what is considered significant binding, or a predefined cutoff based on what binding is considered significant in a certain context." []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0001010
name: nucleic acid extract
def: "An extract that is the output of an extraction process in which nucleic acid molecules are isolated from a specimen." []
is_a: OBI:0100051 ! specimen

[Term]
id: OBI:0001011
name: ENU structure mapping assay
def: "A single-nucleotide-resolution nucleic acid structure mapping assay that determines the secondary structure of a nucleic acid at the nucleotide resolution scale which uses ENU as reagent and chemical probe" []
synonym: "single nucleotide resolution mapping assay using ENU probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0001012
name: RNASE V1 structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale using RNAse V1 as reagent and enzymatic probe" []
synonym: "single nucleotide resolution mapping assay using RNAse V1" EXACT []
is_a: OBI:0001014 ! single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing

[Term]
id: OBI:0001013
name: kethoxal structure mapping assay
def: "A single-nucleotide-resolution nucleic acid structure mapping assay that determines nucleic acid secondary structure at nucleotide resolution scale using kethoxal as reagent and chemical probe" []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0001014
name: single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing
def: "A single-nucleotide-resolution nucleic acid structure mapping assay that determines structural information about the RNA species under study using proteins acting as enzymatic probes." []
is_a: OBI:0000870 ! single-nucleotide-resolution nucleic acid structure mapping assay

[Term]
id: OBI:0001015
name: DMS structure mapping assay
def: "A single-nucleotide-resolution nucleic acid structure mapping assay which determins nucleic acid secondary structure at a nucleotide resolution scale using DMS as reagent and chemical probe" []
synonym: "single nucleotide resolution mapping assay using DMS probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0001016
name: DNASE 1 structure mapping assay
def: "A single-nucleotide-resolution deoxyribonucleic acid structure mapping assay which uses DNAse 1 as reagent and enzymatic probe to generate data and information at nucleotide resolution scale contributing to the determination of nucleic acid secondary structure" []
synonym: "DNAse footprinting assay" EXACT []
synonym: "single nucleotide resolution mapping assay using DNAse I" EXACT []
is_a: OBI:0001014 ! single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing

[Term]
id: OBI:0001017
name: single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing
def: "A single-nucleotide-resolution nucleic acid structure mapping assay that determines structural information about the RNA species under study using small chemical compounds acting as chemical probes." []
is_a: OBI:0000870 ! single-nucleotide-resolution nucleic acid structure mapping assay

[Term]
id: OBI:0001018
name: Rhodium DNA structure mapping assay
def: "A single-nucleotide-resolution nucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale using Rhodium as reagent and chemical probe." []
synonym: "single nucleotide resolution mapping assay using Rhodium probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0001019
name: RNA ADA I RNA structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale using RNA adenosine deaminase I as reagent and enzymatic probe." []
synonym: "single nucleotide resolution mapping assay using RNA adenosine deaminase I" EXACT []
is_a: OBI:0001014 ! single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing

[Term]
id: OBI:0001020
name: Lead structure mapping assay
def: "A single-nucleotide-resolution nucleic acid structure mapping assay that determines nucleic acid secondary structure at nucleotide resolution scale using lead as reagent and chemical probe" []
synonym: "single nucleotide resolution mapping assay using Lead probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0001021
name: RNASE T2 structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale using RNAse T2 as reagent and enzymatic probe" []
synonym: "single nucleotide resolution mapping assay using RNAse T2" EXACT []
is_a: OBI:0001014 ! single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing

[Term]
id: OBI:0001022
name: gene dosage assay
def: "An assay that measures changes in phenotype due to increased or decreased dosage of a single allele of a gene." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0001023
name: Fe-BABE RNA structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic secondary structure at a nucleotide resolution scale using Fe-BABE as reagent and chemical probe." []
synonym: "single nucleotide resolution mapping assay using Fe-BABE probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0001024
name: RNASE U2 structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale using RNAase U2 as reagent and enzymatic probe" []
synonym: "single nucleotide resolution mapping assay using RNAse U2" EXACT []
is_a: OBI:0001014 ! single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing

[Term]
id: OBI:0001025
name: binding constant determination assay
def: "A binding assay where the specified output is a binding constant" []
is_a: OBI:0001146 ! binding assay

[Term]
id: OBI:0001026
name: NMIA RNA structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at the nucleotide resolution scale using NMIA as reagent and chemical probe" []
synonym: "SHAPE mapping assay" EXACT []
synonym: "single nucleotide resolution mapping assay using NMIA probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0001027
name: Terbium RNA structure mapping assay
def: "A single-nucleotide-resolution nucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale using Terbium as reagent and chemical probe" []
synonym: "single nucleotide resolution mapping assay using Terbium probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0001028
name: feature extraction
def: "A planed process with objective of obtaining quantified values from an image." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0001029
name: OH-radical structure mapping assay
def: "A single-nucleotide-resolution nucleic acid structure mapping assay hat determines nucleic acid secondary structure at a nucleotide resolution scale using hydroxyl radical as reagent and chemical probe" []
synonym: "MOHCA assay" EXACT []
synonym: "OH footprinting assay" EXACT []
synonym: "single nucleotide resolution mapping assay using OH-radical probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0001030
name: RNASE T1 structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale uses RNAse T1 as reagent and enzymatic probe." []
synonym: "single nucleotide resolution mapping assay using RNAse T1" EXACT []
is_a: OBI:0001014 ! single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing

[Term]
id: OBI:0001031
name: array image creation
def: "An image creation process that generate an image from the array." []
synonym: "array image acquisition" EXACT []
is_a: OBI:0001007 ! image creation

[Term]
id: OBI:0001032
name: light emission device
def: "A device which has a function to emit light." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001033
name: perturbation device
def: "A perturbation device is a device which is designed to perform a perturb function" []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001034
name: environmental control device
def: "An environmental control device is a device which has the function to control some aspect of the environment such as temperature, or humidity." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001035
name: Nuclease S1 structure mapping assay
def: "A single-nucleotide-resolution deoxyribonucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale using DNAse 1 as reagent and enzymatic probe." []
synonym: "single nucleotide resolution mapping assay using Nuclease S1" EXACT []
is_a: OBI:0001014 ! single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing

[Term]
id: OBI:0001036
name: specimen fixation function
def: "a function that allows specific identification of individual speciment from one another." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0001037
name: obsolete_specimen fixation function
def: "A specimen fixation function is a function that holds or fastens an entity in a fixed position." []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0001038
name: Ruthenium structure mapping assay
def: "A single-nucleotide-resolution nucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale using Rhutenium as reagent and chemical probe" []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0001039
name: inline probing RNA structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at nucleotide resolution scale using intromolecular reactivity" []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0001040
name: current amplification function
def: "A current amplification function is an amplification function that increases the amplitude of a current." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0001041
name: stabilization function
def: "A stabilization function is a function that holds or isolates an entity such as an instrument or specimen steadfast or at an unfluctuating level or quantity." []
synonym: "isolation function" EXACT []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0001042
name: pump function
def: "a transfer unction where the transfer requires work to move the entity, often against a gradient." []
is_a: OBI:0000383 ! transfer function

[Term]
id: OBI:0001043
name: cell transfer function
def: "is a transfer function that displaces cells from one place to another" []
is_a: OBI:0000383 ! transfer function

[Term]
id: OBI:0001044
name: angiograph
def: "A device that records the patterns of pulse waves inside blood vessels." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0001045
name: capillary blotter
def: "A device that is used to transfer nucleic acids from agarose gels onto a membrane, based on the movement of buffer from a reservoir through the gel and the blotting membrane to a stack of dry blotting paper by capillary force. The molecules are carried to the blotting membrane on which they are adsorbed." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001046
name: bioreactor
def: "A device or system that supports a biologically active environment." []
is_a: OBI:0001034 ! environmental control device

[Term]
id: OBI:0001047
name: pH meter
def: "A device that is used to measure the pH (acidity or alkalinity) of a liquid." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0001048
name: digital camera
def: "An image acquisition device that takes video or still photographs, or both, digitally by recording images via an electronic image sensor." []
is_a: OBI:0000398 ! image creation device

[Term]
id: OBI:0001049
name: chip spotting device
def: "A device for dropping and immobilizing a solution of biomolecules, for example, nucleic acids such as probe DNA, mRNA, and peptide nucleic acid (PNA), and proteins on a DNA microarray surface to manufacture a DNA microarray." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001050
name: RNA extraction/purification instrument
def: "A device that is used to isolate and collect RNA for subsequent molecular analysis." []
is_a: OBI:0001114 ! nucleic acid extraction/purification instrument

[Term]
id: OBI:0001051
name: DNA extract
def: "The output of an extraction process in which DNA molecules are purified in order to exclude DNA from organellas." []
is_a: OBI:0001010 ! nucleic acid extract

[Term]
id: OBI:0001052
name: two-photon laser/detector
def: "A light source used in fluorescence imaging that allows the imaging of living tissue up to a depth of 1 mm, based on the concept that two photons of low energy can excite a fluorophore in a quantum event, resulting in the emission of a fluorescence photon, typically at a higher energy than either of the two excitatory photons." []
is_a: OBI:0400065 ! light source

[Term]
id: OBI:0001053
name: electrophoresis system
def: "A device that moves charged particles through a medium by using an electric field induced by electrodes." []
is_a: OBI:0000932 ! material separation device

[Term]
id: OBI:0001054
name: PET synthesizer
def: "A device that is used to produce targeted molecular pharmaceuticals for use in positron emission tomography." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001055
name: spinning-disk confocal microscope
def: "A confocal microscope that uses a Nipkow disk, a mechanical, geometrically operating image scanning device." []
is_a: OBI:0001079 ! confocal microscope

[Term]
id: OBI:0001056
name: DNA synthesizer
def: "An oligonucleotide synthesizer that is used to custom-build DNA molecules to contain a particular sequence of nucleotides." []
is_a: OBI:0400113 ! oligonucleotide synthesizer

[Term]
id: OBI:0001057
name: high performance liquid chromatography instrument
def: "A liquid chromatography instrument that consists of a reservoir of mobile phase, a pump, an injector, a separation column, and a detector. The pump (rather than gravity) provides the higher pressure required to propel the mobile phase and analyte through the densely packed column." []
is_a: OBI:0001139 ! liquid chromatography instrument

[Term]
id: OBI:0001058
name: microplate reader
def: "A measurement device that detects biological, chemical or physical events of samples in microtiter plates." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0001059
name: ELISA microplate reader
def: "A microplate reader that is used for enzyme-linked immunosorbent assays (ELISA)." []
is_a: OBI:0001058 ! microplate reader

[Term]
id: OBI:0001060
name: spot cutter
def: "A robotic device that is used to excise spots from gels." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001061
name: microwave synthesis system
def: "A device that is used to apply microwave irradiation to chemical reactions." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001062
name: densitometer
def: "A device that measures the degree of darkness (the optical density) of a photographic or semitransparent material or of a reflecting surface." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0001063
name: automatic staining machine
def: "A device that is used to automatically stain tissue sections on slides or tissue specimens." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001064
name: automatic tissue processor
def: "A device for processing histological tissue having a tissue carrier basket suspended from a turntable overlying a plurality of beakers suspended from a carrier plate. The turntable is raised, indexed, and lowered by a suitable driving mechanism to move the tissue basket sequentially through the beakers. Timers can each be programmed to control the movement of the turntable to provide various different cycles for processing the tissue. Some of the beakers are received in individual thermal baths to heat and control the temperature of the substances received in the beakers for treating the tissue." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001065
name: stereo microscope
def: "An optical microscope that uses two separate optical paths with two objectives and two eyepieces to provide slightly different viewing angles to the left and right eyes." []
is_a: OBI:0000940 ! optical microscope

[Term]
id: OBI:0001066
name: top loading balance
def: "A balance that consists of a metal plate on which to place an object and a digital readout of the measurement of its mass." []
is_a: OBI:0001135 ! balance

[Term]
id: OBI:0001067
name: perfusion station
def: "A device or system in which perfusion units are integrated." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001068
name: SPECT scanner
def: "A nuclear medicine tomographic imaging device that uses gamma rays to provide 3D information, typically presented as cross-sectional slices through the specimen but with the ability to be freely reformatted or manipulated as required." []
is_a: OBI:0000398 ! image creation device

[Term]
id: OBI:0001069
name: array manufacturer role
def: "a manufacturer role which is played by the person or organization that manufactured the array" []
is_a: OBI:0000571 ! manufacturer role

[Term]
id: OBI:0001070
name: scintillation counter
def: "A device that is used to measure ionizing radiation." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0001071
name: programmable array microscope
def: "A confocal microscope that uses a programmable spatial light modulator for generating an arbitrary pattern of conjugate illumination and detection apertures." []
is_a: OBI:0001079 ! confocal microscope

[Term]
id: OBI:0001072
name: cryostat
def: "A device consisting of a vessel, similar in construction to a vacuum flask, that is used to maintain cold cryogenic temperatures. FIX THIS DEFINITION" []
is_a: OBI:0000967 ! container
is_a: OBI:0001034 ! environmental control device

[Term]
id: OBI:0001073
name: microtome knife maker
def: "A glass cutting and breaking device that is used to produce glass knives used in ultramicrotomy." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001074
name: cryofixation device
def: "A device that is used for the fixation or stabilization of biological materials as the first step in specimen preparation for electron microscopy." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001075
name: hybridization oven
def: "A device that creates an appropriate environment for nucleic acid hybridization." []
is_a: OBI:0000136 ! incubator
is_a: OBI:0002089 ! container with environmental control

[Term]
id: OBI:0001076
name: incubator shaker
def: "An incubating device that provides shaking motion for biomedical applications (e.g., cell cultures)." []
is_a: OBI:0002089 ! container with environmental control

[Term]
id: OBI:0001077
name: small-animal image acquisition device
def: "A device that is used to image small laboratory animals (e.g., rats and mice) in vivo." []
is_a: OBI:0000398 ! image creation device

[Term]
id: OBI:0001078
name: infrared image acquisition device
def: "An image acquisition device that is responsive to an infrared emissive target within a given field of view." []
is_a: OBI:0000398 ! image creation device

[Term]
id: OBI:0001079
name: confocal microscope
def: "A microscope that is used to increase micrograph contrast and/or reconstruct three-dimensional images by using a spatial pinhole to eliminate out-of-focus light in specimens that are thicker than the focal plane." []
is_a: OBI:0400169 ! microscope

[Term]
id: OBI:0001080
name: patch clamp device
def: "A device used in electrophysiology that allows the study of single or multiple ion channels in cells." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0001081
name: gel imaging system
def: "A device that is used to acquire images of laboratory gels." []
is_a: OBI:0000398 ! image creation device

[Term]
id: OBI:0001082
name: protein separation apparatus
def: "A device that is used for the separation of proteins." []
is_a: OBI:0000932 ! material separation device

[Term]
id: OBI:0001083
name: multichannel electronic pipette
def: "A multichannel pipette that can be programmed by the user to aspirate a volume of liquid reagent or sample and dispense the aspirated volume or a series of aliquots in successive dispensing operations." []
is_a: OBI:0001118 ! multichannel pipette

[Term]
id: OBI:0001084
name: vitrification apparatus
def: "A device that is used to effect the transition of a substance into a glass." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001085
name: radiography instrument
def: "An image acquisition device that uses ionizing electromagnetic radiation such as X-rays to view objects." []
is_a: OBI:0000398 ! image creation device

[Term]
id: OBI:0001086
name: radiation measurement device
def: "A device that consists of a radiosensitive detector and a means of recording the effects of radiation on the detector." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0001087
name: lyophilizer
def: "A device that is used to freeze dry material." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001088
name: tandem mass spectrometer
def: "A mass spectrometer in which ions are subjected to two or more sequential stages of analysis (which may be separated spatially or temporally) according to the quotient mass/charge." []
is_a: OBI:0000049 ! mass spectrometer

[Term]
id: OBI:0001089
name: microhardness tester
def: "A hardness testing device that is used in light-optical microscopes." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0001090
name: multimode microplate reader
def: "A microplate reader that can detect multiple types of absorbance, luminescence or fluorescence." []
is_a: OBI:0001058 ! microplate reader

[Term]
id: OBI:0001091
name: mechanical balance
def: "A balance that is used to compare the weights of two bodies, to determine the difference in mass (or weight)." []
is_a: OBI:0001135 ! balance

[Term]
id: OBI:0001092
name: computer cluster
def: "A group of linked computers, working together closely so that in many respects they form a single computer." []
is_a: OBI:0400107 ! computer

[Term]
id: OBI:0001093
name: microtome knife sharpener
def: "A device that is used to sharpen knives used in microtomy." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001094
name: plate shaker
def: "A device that provides shaking motion for microplates." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001095
name: coagulation analyzer
def: "A device for automatically analyzing blood coagulation in a clinical laboratory." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0001096
name: laser capture microdissection microscope
def: "A microscope that uses low-energy laser beams and special transfer film to lift single cells from a tissue." []
is_a: OBI:0400169 ! microscope

[Term]
id: OBI:0001097
name: liquid extraction robot
def: "A liquid handling device that provides automatic liquid extraction." []
is_a: OBI:0400112 ! liquid handler

[Term]
id: OBI:0001098
name: ultrasound machine
def: "A device that is used to visualize subcutaneous body structures including tendons, muscles, joints, vessels and internal organs." []
is_a: OBI:0000398 ! image creation device

[Term]
id: OBI:0001099
name: immunoblot scanner
def: "A device that is used for the imaging of immunoblots." []
is_a: OBI:0000398 ! image creation device

[Term]
id: OBI:0001100
name: microcentrifuge
def: "A type of centrifuge that is designed for small tubes (0.2 ml to 2.0 ml), has a compact design, and has a small footprint." []
is_a: OBI:0400106 ! centrifuge

[Term]
id: OBI:0001101
name: electronic repeater pipette
def: "A micropipette that can be programmed by the user to aspirate a volume of liquid reagent or sample and dispense a series of aliquots in successive dispensing operations." []
is_a: OBI:0001128 ! micropipette

[Term]
id: OBI:0001102
name: electron paramagnetic resonance spectrometer
def: "An spectrophotometer that is used to investigate chemical species that have one or more unpaired electrons, such as organic and inorganic free radicals or inorganic complexes possessing a transition metal ion." []
is_a: OBI:0400115 ! spectrophotometer

[Term]
id: OBI:0001103
name: rocker
def: "A device that provides three-dimensional motion for biomedical applications (e.g., gel trays)." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001104
name: analytical balance
def: "A balance with weighing pan(s) inside a transparent enclosure that is used to measure mass to a very high degree of precision and accuracy." []
is_a: OBI:0001135 ! balance

[Term]
id: OBI:0001105
name: scanning force microscope
def: "A microscope that forms images of surfaces using a physical probe that scans the specimen." []
is_a: OBI:0400169 ! microscope

[Term]
id: OBI:0001106
name: pulsed-field gel electrophoresis system
def: "A gel electrophoresis system in which the gel matrix is subjected to an electric field that periodically changes direction." []
is_a: OBI:0001121 ! gel electrophoresis system

[Term]
id: OBI:0001107
name: tissue embedding station
def: "A device that is used to perform paraffin embedding of tissue specimens." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001108
name: nucleic acid sequencer
def: "An device that is used to determine the order of nucleotides in nucleic acid sequences." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0001109
name: bead array reader
def: "A device that is used to acquire and image bead array data." []
is_a: OBI:0000398 ! image creation device

[Term]
id: OBI:0001110
name: real-time PCR machine
def: "An PCR instrument that enables both detection and quantification of one or more specific sequences in a DNA sample." []
is_a: OBI:0000989 ! PCR instrument

[Term]
id: OBI:0001111
name: paraffin oven
def: "A device that is used for the warming of paraffin embedding medium." []
is_a: OBI:0000967 ! container
is_a: OBI:0001034 ! environmental control device

[Term]
id: OBI:0001112
name: autoclave
def: "A device that is used to sterilize equipment and supplies by subjecting them to high pressure steam at 121 C or more, typically for 15 to 20 minutes depending on the size of the load and the contents." []
is_a: OBI:0001034 ! environmental control device

[Term]
id: OBI:0001113
name: microplate washer
def: "A device that is used to wash immunoassays in microwell strips and plates with professional accuracy. WHAT IS PROFESSIONAL ACCURACY??" []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001114
name: nucleic acid extraction/purification instrument
def: "A device that is used to isolate and collect nucleic acids (DNA or RNA) for subsequent molecular analysis." []
is_a: OBI:0000932 ! material separation device

[Term]
id: OBI:0001115
name: ELISA microplate washer
def: "A microplate washer that is used for enzyme-linked immunosorbent assays (ELISA)." []
is_a: OBI:0001113 ! microplate washer

[Term]
id: OBI:0001116
name: vacuum manifold
def: "A device that is used for the vacuum-driven processing of multiwell strips or plates, or spin columns. IS THIS AN INSTRUMENT? IS THE DEFINTION CORRECT - TO DISTRIBUTE PRESSURE EVENLY." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001117
name: DNA extraction/purification instrument
def: "A device that is used to isolate and collect DNA for subsequent molecular analysis." []
is_a: OBI:0001114 ! nucleic acid extraction/purification instrument

[Term]
id: OBI:0001118
name: multichannel pipette
def: "A pipetting system that has a plurality of tip fittings and is used for multi-well plate applications." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0001119
name: cell harvester
def: "A device that is used to harvest cells from microplates and deposit samples on a filter mat. NOT AN INSTRUMENT?" []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001120
name: portable fluorometer
def: "A compact fluorometer that can be carried or moved with ease." []
is_a: OBI:0400143 ! fluorometer

[Term]
id: OBI:0001121
name: gel electrophoresis system
def: "An electrophoresis system in which an electric field is applied to a gel matrix" []
is_a: OBI:0001053 ! electrophoresis system

[Term]
id: OBI:0001122
name: diffractometer
def: "A measurement device for analyzing the structure of a material from the scattering pattern produced when a beam of radiation or particles (e.g. X rays or neutrons) interacts with it." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0001123
name: microdissection instrument
def: "A device that is used for the dissection of tissues under magnification." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001124
name: micropipette puller
def: "A device that is used to fabricate glass micropipettes." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001125
name: laser scanning confocal microscope
def: "A confocal microscope that obtains high-resolution optical images with depth selectivity, in which a laser beam passes through a light source aperture and then is focused by an objective lens into a small (ideally diffraction limited) focal volume within or on the surface of a specimen." []
is_a: OBI:0001079 ! confocal microscope

[Term]
id: OBI:0001126
name: digital microscope
def: "A microscope that uses optics and a charge-coupled device (CCD) camera to output a digital image to a monitor." []
is_a: OBI:0400169 ! microscope

[Term]
id: OBI:0001127
name: freeze substitution system
def: "A device or system for dehydrating and then chemically fixing electron microscopy samples at low temperatures in preparation for various treatments including embedding in resins." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001128
name: micropipette
def: "A microinjection device that is used to measure very small volumes of liquids." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0001129
name: voltage clamp device
def: "A device that is used to measure the ion currents across the membrane of excitable cells, such as neurons, while holding the membrane voltage at a set level." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0001130
name: vacuum oven
def: "A device that heats materials in a vacuum." []
is_a: OBI:0000967 ! container
is_a: OBI:0001034 ! environmental control device

[Term]
id: OBI:0001131
name: slide warmer
def: "A device that is used to heat microscope slides." []
is_a: OBI:0001034 ! environmental control device

[Term]
id: OBI:0001132
name: capillary electrophoresis instrument
def: "An electrophoresis system that is used to separate ionic species by their charge and frictional forces and mass." []
is_a: OBI:0001053 ! electrophoresis system

[Term]
id: OBI:0001133
name: denaturing high-performance liquid chromatography instrument
def: "A high performance liquid chromatography instrument that employs temperature-dependent separation of DNA containing mismatched base pairs from PCR-amplified DNA fragments for chromatographic mutation analysis." []
is_a: OBI:0000932 ! material separation device

[Term]
id: OBI:0001134
name: agarose gel electrophoresis system
def: "A gel electrophoresis system that is used to separate DNA or RNA molecules by size, achieved by moving negatively charged nucleic acid molecules through an agarose matrix with an electric field." []
is_a: OBI:0001121 ! gel electrophoresis system

[Term]
id: OBI:0001135
name: balance
def: "A measuring instrument that is used to determine the weight or mass of an object." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0001136
name: surface plasmon resonance instrument
def: "A tool for measuring adsorption of material onto planar metal (typically gold and silver) surfaces or onto the surface of metal nanoparticles." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0001137
name: protein sequencer
def: "An device that is used to determine the order of amino acids in protein sequences." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0001138
name: X-ray source
def: "A device that is used to generate X-rays." []
synonym: "x-ray generator" EXACT []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001139
name: liquid chromatography instrument
def: "A chromatography device that dissolves a mixture in liquid mobile phase to separate the analyte to be measured from other molecules in the mixture and allows it to be isolated" []
is_a: OBI:0000048 ! chromatography device

[Term]
id: OBI:0001140
name: spike-in quality control role
def: "a reference substance role that is borne by a material entity with a known amount which is mixed into the evaluant of assays for quality control or data normalization purposes" []
is_a: OBI:0000025 ! reference substance role

[Term]
id: OBI:0001141
name: individual organism identifier
def: "a CRID symbol used to distinguish one individual organism from another." []
is_a: IAO:0000577 ! centrally registered identifier symbol

[Term]
id: OBI:0001142
name: dye swap quality control role
def: "a reference substance role that is borne by a material entity used in a dye swap design experiment for quality control or data normalization purposes" []
is_a: OBI:0000025 ! reference substance role

[Term]
id: OBI:0001143
name: labeled nucleic acid extract
def: "a labeled specimen that is the output of a labeling process and has grain labeled nucleic acid for detection of the nucleic acid in future experiments." []
synonym: "labeled extract" EXACT []
is_a: OBI:0000924 ! labeled specimen

[Term]
id: OBI:0001144
name: binding constant
def: "A quantitative binding datum that is expressed as a scalar number and a unit, which can be utilized in equations that model the binding process independent of the specific assay performed." []
is_a: OBI:0003142 ! quantitative binding datum

[Term]
id: OBI:0001145
name: 3D structure determination of bound molecular complex assay
def: "A 3D molecular structure determination assay in which a complex of 2 or more molecular enties is characterized which provides information on their binding configuration." []
is_a: OBI:0003117 ! 3D molecular structure determination assay

[Term]
id: OBI:0001146
name: binding assay
def: "An assay with the objective to characterize the disposition of two or more material entities to form a complex." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0001147
name: cell culture expansion
def: "a process that results in the increase of cell numbers" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0001148
name: gene knock out
def: "a genetic transformation that renders a gene non-functional, e.g. due to a point mutation, or the removal of all, or part of, the gene using recombinant methods." []
is_a: OBI:0600043 ! genetic transformation

[Term]
id: OBI:0001149
name: gene knock in
def: "a genetic transformation that involves the insertion of a protein coding cDNA sequence at a particular locus in an organism's chromosome. Typically, this is done in mice since the technology for this process is more refined, and because mouse embryonic stem cells are easily manipulated. The difference between knock-in technology and transgenic technology is that a knock-in involves a gene inserted into a specific locus, and is a \"targeted\" insertion." []
is_a: OBI:0600043 ! genetic transformation

[Term]
id: OBI:0001150
name: chromosomal substitution
def: "A genetic transformation in which all, or part, of a chromosome from a donor replaces that of the recipient. It does not include chromosome recombination. For single gene insertion, use the term 'gene knock in'." []
is_a: OBI:0600043 ! genetic transformation

[Term]
id: OBI:0001151
name: genetically modified material
def: "a material entity, organism or cell,  that is the output of a genetic transformation process." []
is_a: UBERON:0000465 ! material anatomical entity

[Term]
id: OBI:0001152
name: transfection
def: "a genetic transformation which relies on the use of physical, electrical and chemical phenomena to introduce DNA or RNA into a cell" []
is_a: OBI:0600043 ! genetic transformation

[Term]
id: OBI:0001153
name: genetic transformation objective
def: "a material transformation objective aims to create genetically modified organism or cell" []
is_a: OBI:0000456 ! material transformation objective

[Term]
id: OBI:0001154
name: induced mutagenesis
def: "A genetic transformation that is the modification of the genetic material (either coding or non-coding) of an organism caused by mutagenic processes, compounds, or irradiation." []
is_a: OBI:0600043 ! genetic transformation

[Term]
id: OBI:0001155
name: 3D structural organization datum
def: "A measurement datum that describes the structural orientation of a material entity in 3D space." []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0001156
name: age since planting measurement datum
def: "An age measurement datum that is the result of the measurement of the age of an organism since planting, the process of placing a plant in media (e.g. soil) to allow it to grow, which excludes sowing." []
is_a: OBI:0001167 ! age measurement datum

[Term]
id: OBI:0001157
name: age since hatching measurement datum
def: "An age measurement datum that is the result of the measurement of the age of an organism since hatching, the process of emergence from an egg." []
is_a: OBI:0001167 ! age measurement datum

[Term]
id: OBI:0001158
name: age determination assay
def: "An assay that determines the duration of part of the life of an organism, where the initial time point is the beginning of some transitional state (such as birth or when planted)." []
synonym: "age measurement assay" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0001159
name: age since egg laying measurement datum
def: "An age measurement datum that is the result of the measurement of the age of an organism since egg laying, the process of the production of egg(s) by an organism." []
is_a: OBI:0001167 ! age measurement datum

[Term]
id: OBI:0001160
name: assay validation objective
def: "an objective specification to check the accuracy or the quality of the results of an assay by comparison with independent results" []
is_a: IAO:0000005 ! objective specification

[Term]
id: OBI:0001161
name: age since germination measurement datum
def: "An age measurement datum that is the result of the measurement of the age of an organism since germination, the process consisting of physiological and developmental changes by a seed, spore, pollen grain (microspore), or zygote that occur after release from dormancy, and encompassing events prior to and including the first visible indications of growth." []
is_a: OBI:0001167 ! age measurement datum

[Term]
id: OBI:0001162
name: validation by reverse transcription PCR design
def: "a study design in which checks the accuracy or the quality of the result of an assay  by comparing with reverse transcription PCR results" []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001163
name: age since eclosion measurement datum
def: "An age measurement datum that is the result of the measurement of the age of an organism since eclosion, the process of emergence of an adult insect from its pupa or cocoon." []
is_a: OBI:0001167 ! age measurement datum

[Term]
id: OBI:0001164
name: age since sowing measurement datum
def: "An age measurement datum that is the result of the measurement of the age of an organism since sowing, the process of placing a seed or spore in some media with the intention to invoke germination." []
is_a: OBI:0001167 ! age measurement datum

[Term]
id: OBI:0001165
name: age since coitus measurement datum
def: "An age measurement datum that is the result of the measurement of the age of an organism since coitus, the process of copulation that occurs during the process of sexual reproduction." []
is_a: OBI:0001167 ! age measurement datum

[Term]
id: OBI:0001166
name: validation by real time PCR design
def: "a study design in which the accuracy or the quality of the result of an assay is checked by comparing with real time PCR results" []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001167
name: age measurement datum
def: "A time measurement datum that is the result of measurement of age of an organism" []
is_a: IAO:0000416 ! time measurement datum

[Term]
id: OBI:0001168
name: age since fertilization measurement datum
def: "An age measurement datum that is the result of the measurement of the age of an organism since fertilization, the process of the union of gametes of opposite sexes during the process of sexual reproduction to form a zygote." []
is_a: OBI:0001167 ! age measurement datum

[Term]
id: OBI:0001169
name: age since birth measurement datum
def: "An age measurement datum that is the result of the measurement of the age of an organism since birth, the process of emergence and separation of offspring from the mother." []
is_a: OBI:0001167 ! age measurement datum

[Term]
id: OBI:0001170
name: reverse transcription polymerase chain reaction assay
def: "An assay that determines the concentration of RNA in a sample in which an RNA strand is first reverse transcribed into its DNA complement (complementary DNA, or cDNA) using the enzyme reverse transcriptase, and the resulting cDNA is amplified using traditional or real-time PCR." []
is_a: OBI:0002692 ! polymerase chain reaction assay

[Term]
id: OBI:0001171
name: half life datum (t 1/2)
def: "The time it takes for 50% of a class of stochastic processes to occur." []
synonym: "t 1/2" EXACT []
is_a: IAO:0000416 ! time measurement datum

[Term]
id: OBI:0001172
name: dose response curve
def: "A data item of paired values, one indicating the dose of a material, the other quantitating a measured effect at that dose. The dosing intervals are chosen so that effect values be interpolated by a plotting a curve." []
is_a: IAO:0000573 ! line graph

[Term]
id: OBI:0001173
name: service
def: "A planned process in which a service provider performs a task (i.e. a planned process) for a service consumer." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0001174
name: passive immunization
def: "The injection of immune effector material (antibodies, T cells or B cells) into an organism so that the organisms immune system gains its  immune effector function to recognize specific antigens." []
synonym: "adoptive transfer" EXACT []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0001175
name: selective organism creation objective
def: "an objective specification to generate a population or type of organism within species that have some uniform behavioral, morphological, physiological, or genetic characteristics with similarly bred organisms." []
is_a: IAO:0000005 ! objective specification

[Term]
id: OBI:0001176
name: Individual epitope immunization in vivo
def: "An immunization in which an individual epitope is administered into a host organism." []
is_a: OBI:1110015 ! Immunization in vivo

[Term]
id: OBI:0001177
name: RNA sequencing assay
def: "An assay that determines the sequence of an RNA molecule." []
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0001178
name: efficacy of epitope intervention experiment
def: "An assay that tests  if inducing an epitope specific immune response in an organism has an effect, such as the ability to prevent, treat or exacerbate diseases in the organism." []
synonym: "efficacy of in vivo intervention" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0001179
name: epitope protection from infectious challenge experiment
def: "An epitope protection experiment in which the ability of the epitope to protect the host from an infection is assessed." []
synonym: "protection from infectious challenge" EXACT []
is_a: OBI:0001184 ! epitope protection experiment

[Term]
id: OBI:0001180
name: half maximal effective concentration (EC50)
def: "half maximal effective concentration (EC50) is a scalar measurement datum corresponding to the concentration of a compound which induces a response halfway between the baseline and maximum after some specified exposure time." []
is_a: IAO:0000032 ! scalar measurement datum

[Term]
id: OBI:0001181
name: binding datum
def: "A data item that states if two or more material entities have the disposition to form a complex, and if so, how strong that disposition is." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0001182
name: negative binding datum
def: "A categorical binding datum that states that there is no significant disposition of two or more entities to form a complex." []
is_a: OBI:0003141 ! categorical binding datum

[Term]
id: OBI:0001183
name: epitope protection from tumor challenge experiment
def: "An epitope protection experiment in which the ability of the epitope to protect the host from developing tumors is assessed." []
synonym: "protection from tumor challenge" EXACT []
is_a: OBI:0001184 ! epitope protection experiment

[Term]
id: OBI:0001184
name: epitope protection experiment
def: "An efficacy of epitope intervention experiment that tests the efficacy of inducing an immune epitope response to prevent disease in a host." []
synonym: "protection from challenge" EXACT []
is_a: OBI:0001178 ! efficacy of epitope intervention experiment

[Term]
id: OBI:0001185
name: selectively maintained organism
def: "An organism that is bred to have some uniform behavioral, morphological, physiological, or genetic characteristics with similarly bred organisms" []
synonym: "cultivar" EXACT []
synonym: "ecotype" EXACT []
synonym: "strain" EXACT []
is_a: COB:0000022 ! organism

[Term]
id: OBI:0001186
name: epitope protection from infectious challenge experiment based on pathogen burden
def: "An epitope protection from infectious challenge experiment in which the readout is a reduction in the presence of pathogens in the host compared to controls." []
synonym: "burden after infectious challenge" EXACT []
is_a: OBI:0001179 ! epitope protection from infectious challenge experiment

[Term]
id: OBI:0001187
name: infectious agent detection assay
def: "An assay that measures the presence or amount of an infectious agent in an evaluant" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0001188
name: epitope disease exacerbation experiment
def: "An efficacy of epitope intervention experiment that tests the ability of inducing an epitope immune response to increase the severity of an existing disease in the host." []
synonym: "exacerbation assay" EXACT []
is_a: OBI:0001178 ! efficacy of epitope intervention experiment

[Term]
id: OBI:0001189
name: epitope protection experiment based on survival
def: "An epitope protection experiment that determines the success of the epitope intervention based on increased survival of the host." []
synonym: "host survival after challenge" EXACT []
is_a: OBI:0001184 ! epitope protection experiment

[Term]
id: OBI:0001190
name: epitope treatment experiment
def: "An epitope intervention experiment that tests the ability of inducing an epitope immune response to treat an existing disease  in the host." []
synonym: "decreased disease symptoms after treatment" EXACT []
is_a: OBI:0001178 ! efficacy of epitope intervention experiment

[Term]
id: OBI:0001191
name: half maximal inhibitory concentration (IC50)
def: "Half maximal inhibitory concentration (IC50) is a scalar measurement datum that measures the effectiveness of a compound to competitively inhibit a given process, and corresponds to the concentration of the compound at which it reaches half of its maximum inhibitory effect." []
is_a: IAO:0000032 ! scalar measurement datum

[Term]
id: OBI:0001192
name: epitope specific immune intervention
def: "An administration in vivo to either actively or passively immunize an organism in order to induce a response against a specific immune epitope" []
is_a: OBI:0001174 ! passive immunization

[Term]
id: OBI:0001193
name: epitope specific cytokine production by T cells
def: "A process of cytokine production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0001816 ! cytokine production

[Term]
id: OBI:0001194
name: ELISPOT assay measuring epitope specific transforming growth factor-beta production by T cells
def: "An enzyme-linked immunospot assay that detects transforming growth factor-beta production by T cells." []
synonym: "TGFb release|ELISPOT" EXACT []
is_a: OBI:0001264 ! assay measuring epitope specific transforming growth factor-beta production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001195
name: operator variation design
def: "A study design that assesses the operator performance and relation to data consistency and quality." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001196
name: cytometric bead array assay measuring epitope specific IP-10 production by T cells
def: "A cytometric bead array assay that detects IP-10 production by T cells." []
synonym: "CXCL10/IP-10 release|cytometric bead array" EXACT []
is_a: OBI:0001308 ! assay measuring epitope specific IP-10 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001197
name: comparative genome hybridization by array design
def: "A study design that detects genomic copy number variations using microarray technology." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001198
name: assay measuring epitope specific interleukin-27 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-27 production by T cells." []
synonym: "IL-27 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001199
name: in vivo design
def: "A study design that is conducted entirely in a living organism, e.g. a compound treatment in a mouse model." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001200
name: genotyping by high throughput sequencing design
def: "A study design that classifies an individual or group of individuals on the basis of alleles, haplotypes, SNPs using high througput sequencing techniques." []
is_a: OBI:0001444 ! genotyping design

[Term]
id: OBI:0001201
name: epitope specific tolerance induction by T cells
def: "A process of tolerance induction by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0002507 ! tolerance induction

[Term]
id: OBI:0001202
name: innate behavior design
def: "A study design in which the innate behavior of the organism is examined, e.g. path finding in bees." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001203
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific transforming growth factor-beta production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects transforming growth factor-beta production by T cells." []
synonym: "TGFb release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001264 ! assay measuring epitope specific transforming growth factor-beta production by T cells

[Term]
id: OBI:0001204
name: SNP microarray
def: "A DNA microarray used to detect polymorphisms in DNA samples" []
is_a: OBI:0400148 ! DNA microarray

[Term]
id: OBI:0001205
name: cell component comparison design
def: "A study design that compares samples from different cell components." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001206
name: ELISPOT assay measuring epitope specific granulocyte macrophage colony-stimulating factor production by T cells
def: "An enzyme-linked immunospot assay that detects granulocyte macrophage colony stimulating factor production by T cells." []
synonym: "GM-CSF release|ELISPOT" EXACT []
is_a: OBI:0001233 ! assay measuring epitope specific granulocyte macrophage colony stimulating factor production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001207
name: epitope specific macrophage inflammatory protein-1 alpha production by T cells
def: "A process of macrophage inflammatory protein-1 alpha production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0071608 ! macrophage inflammatory protein-1 alpha production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001208
name: epitope specific T cell activation
def: "A process of T cell activation resulting from the recognition of a T cell epitope." []
is_a: GO:0042110 ! T cell activation

[Term]
id: OBI:0001209
name: assay measuring epitope specific interleukin-10 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-10 production by T cells." []
synonym: "IL-10 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001210
name: cytometric bead array assay measuring epitope specific transforming growth factor-beta production by T cells
def: "A cytometric bead array assay that detects transforming growth factor-beta production by T cells" []
synonym: "TGFb release|cytometric bead array" EXACT []
is_a: OBI:0001264 ! assay measuring epitope specific transforming growth factor-beta production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001211
name: ex vivo design
def: "A study design where all or part of an organism is removed and studied in vitro, e.g. part of a mouse is removed and cultured in vitro. A cell culture with an established cell line is an in vitro experiment." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001212
name: epitope specific type IV hypersensitivity by T cells
def: "A process of type IV hypersensitivity by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0001806 ! type IV hypersensitivity

[Term]
id: OBI:0001214
name: normalization testing design
def: "A study design that tests different normalization procedures." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001215
name: intracellular material detection assay measuring epitope specific perforin release
def: "A flow cytometry assay that detects epitope specific perforin release by T cells." []
synonym: "perforin release|intracellular staining" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001497 ! assay measuring epitope specific perforin release by T cells

[Term]
id: OBI:0001216
name: cell culture analyte detection bioassay measuring epitope specific interleukin-2 production by T cells
def: "A reporter cell line analyte detection bioassay that detects interleukin-2 production by T cells." []
synonym: "IL-2 release|bioassay" EXACT []
is_a: OBI:0000904 ! reporter cell line analyte detection bioassay
is_a: OBI:0001445 ! assay measuring epitope specific interleukin-2 production by T cells

[Term]
id: OBI:0001217
name: assay measuring epitope specific interleukin-22 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-22 production by T cells." []
synonym: "IL-22 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001218
name: assay measuring epitope specific interleukin-8 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-8 production by T cells." []
synonym: "IL-8 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001219
name: epitope specific chemokine (C-C motif) ligand 1 production by T cells
def: "A process of chemokine (C-C motif) ligand 1 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0071610 ! chemokine (C-C motif) ligand 1 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001220
name: cell culture analyte detection bioassay measuring epitope specific interleukin-10 production by T cells
def: "A reporter cell line analyte detection bioassay that detects interleukin-10 production by T cells." []
synonym: "IL-10 release|bioassay" EXACT []
is_a: OBI:0000904 ! reporter cell line analyte detection bioassay
is_a: OBI:0001209 ! assay measuring epitope specific interleukin-10 production by T cells

[Term]
id: OBI:0001221
name: ChIP-chip by SNP array assay
def: "A ChIP-ChIP assay in which immunoprecipitated chromatin is run on a SNP array to detect polymorphism specific DNA elements in the isolated chromatin" []
is_a: OBI:0001248 ! ChIP-chip assay

[Term]
id: OBI:0001222
name: ELISA measuring epitope specific RANTES production by T cells
def: "An enzyme-linked immunosorbent assay that detects RANTES production by T cells." []
synonym: "CCL5/RANTES release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001232 ! assay measuring epitope specific RANTES production by T cells

[Term]
id: OBI:0001223
name: cytometric bead array assay measuring epitope specific interleukin-1 beta production by T cells
def: "A cytometric bead array assay that detects interleukin-1 beta production by T cells." []
synonym: "IL-1b release|cytometric bead array" EXACT []
is_a: OBI:0001449 ! assay measuring epitope specific interleukin-1 beta production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001225
name: genetic population background information
def: "a genetic characteristics information which is a part of genotype information that identifies the population of organisms" []
is_a: OBI:0001404 ! genetic characteristics information

[Term]
id: OBI:0001226
name: environmental history design
def: "A study design in which some aspect of the organism's environmental history is studied, such as exposure to teratogen, radiation, climate etc." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001227
name: ELISPOT assay measuring epitope specific interleukin-6 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-6 production by T cells" []
synonym: "IL-6 release|ELISPOT" EXACT []
is_a: OBI:0001451 ! assay measuring epitope specific interleukin-6 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001228
name: in vivo assay measuring epitope specific helper T cell enhancement of a B cell mediated immune response
def: "A T cell epitope specific helper activity assay that detects the ability of a T cell epitope to enhance an antibody response." []
synonym: "antibody help|in vivo assay" EXACT []
is_a: OBI:0001495 ! in vivo assay measuring epitope specific T cell helper activity

[Term]
id: OBI:0001229
name: plasmon resonance assay measuring the dissociation constant [KD] of a T cell epitope:MHC:TCR complex
def: "A surface plasmon resonance binding assay that measures the dissociation constant [KD] of an epitope:MHC complex binding with a T cell receptor." []
synonym: "dissociation constant KD|surface plasmon resonance (SPR)|nM" EXACT []
is_a: OBI:0000923 ! surface plasmon resonance binding assay
is_a: OBI:0002097 ! assay measuring the dissociation constant [KD] of a T cell epitope:MHC:TCR complex

[Term]
id: OBI:0001230
name: assay measuring epitope specific interleukin-5 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-5 production by T cells." []
synonym: "IL-5 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001231
name: ELISA measuring epitope specific transforming growth factor-beta production by T cells
def: "An enzyme-linked immunosorbent assay that detects transforming growth factor-beta production by T cells." []
synonym: "TGFb release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001264 ! assay measuring epitope specific transforming growth factor-beta production by T cells

[Term]
id: OBI:0001232
name: assay measuring epitope specific RANTES production by T cells
def: "A T cell epitope specific cytokine production assay that detects RANTES production by T cells." []
synonym: "CCL5/RANTES release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001233
name: assay measuring epitope specific granulocyte macrophage colony stimulating factor production by T cells
def: "A T cell epitope specific cytokine production assay that detects granulocyte macrophage colony stimulating factor production by T cells." []
synonym: "GM-CSF release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001234
name: epigenetic modification identification objective
def: "A molecular feature identification objective that aims to detect epigenetic modifications, such as DNA methylation, histone modifications." []
is_a: OBI:0000131 ! molecular feature identification objective

[Term]
id: OBI:0001235
name: transcription profiling by tiling array assay
def: "A transcription profiling by array assay that uses a tiling path array." []
is_a: OBI:0001463 ! transcription profiling by array assay

[Term]
id: OBI:0001236
name: ELISA measuring epitope specific interleukin-22 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-22 production by T cells." []
synonym: "IL-22 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001217 ! assay measuring epitope specific interleukin-22 production by T cells

[Term]
id: OBI:0001237
name: assay measuring epitope specific interleukin-21 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-21 production by T cells." []
synonym: "IL-21 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001238
name: ELISA measuring epitope specific interleukin-9 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-9 production by T cells." []
synonym: "IL-9 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001253 ! assay measuring interleukin-9 production by T cells

[Term]
id: OBI:0001239
name: transcription profiling by high throughput sequencing design
def: "A study design in which sequencing technology (e.g. Solexa/454) is used to generate RNA sequence, analyse the transcibed regions of the genome, and/or to quantitate transcript abundance" []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001240
name: intracellular cytokine staining assay measuring epitope specific interleukin-6 production by T cells
def: "A flow cytometry assay that detects interleukin-6 production by T cells." []
synonym: "IL-6 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001451 ! assay measuring epitope specific interleukin-6 production by T cells

[Term]
id: OBI:0001241
name: cell culture analyte detection bioassay measuring epitope specific interleukin-4 production by T cells
def: "A reporter cell line analyte detection bioassay that detects interleukin-4 production by T cells." []
synonym: "IL-4 release|bioassay" EXACT []
is_a: OBI:0000904 ! reporter cell line analyte detection bioassay
is_a: OBI:0001450 ! assay measuring epitope specific interleukin-4 production by T cells

[Term]
id: OBI:0001242
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific tumor necrosis factor alpha production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects tumor necrosis factor alpha production by T cells." []
synonym: "TNFa release|RNA/DNA detection" EXACT []
is_a: OBI:0001416 ! assay measuring epitope specific tumor necrosis factor alpha production by T cells
is_a: OBI:0001788 ! detection of specific nucleic acids with complementary probes assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells

[Term]
id: OBI:0001243
name: cytometric bead array assay measuring epitope specific monocyte chemotactic protein-1 production by T cells
def: "A cytometric bead array assay that detects monocyte chemotactic protein-1 production by T cells." []
synonym: "CCL2/MCP-1 release|cytometric bead array" EXACT []
is_a: OBI:0001465 ! assay measuring epitope specific monocyte chemotactic protein-1 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001244
name: ELISA measuring epitope specific interleukin-23 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-23 production by T cells." []
synonym: "IL-23 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001363 ! assay measuring epitope specific interleukin-23 production by T cells

[Term]
id: OBI:0001245
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific perforin release
def: "A detection of specific nucleic acids with complementary probes assay that detects epitope specific perforin release by T cells." []
synonym: "perforin release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001497 ! assay measuring epitope specific perforin release by T cells

[Term]
id: OBI:0001246
name: ELISA measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells
def: "An enzyme-linked immunosorbent assay that detects tumor necrosis factor superfamily cytokine production by T cells." []
synonym: "TNF release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001400 ! assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells

[Term]
id: OBI:0001247
name: genotyping by high throughput sequencing assay
def: "A genotyping assay that uses a high througput sequencer" []
is_a: OBI:0000435 ! genotyping assay

[Term]
id: OBI:0001248
name: ChIP-chip assay
def: "An assay in which chromatin is immunoprecipitated and subsequently analyzed using a DNA microarray to identify which parts of DNA are part of the isolated chromatin" []
synonym: "ChIP-on-chip assay" EXACT []
is_a: OBI:0001954 ! ChIP assay

[Term]
id: OBI:0001249
name: epitope specific T cell tolerance induction
def: "A process of T cell tolerance induction resulting from the recognition of a T cell epitope." []
is_a: GO:0002517 ! T cell tolerance induction
is_a: OBI:0001201 ! epitope specific tolerance induction by T cells

[Term]
id: OBI:0001250
name: obsolete intracellular material detection by flow cytometry assay  of epitope specific cytotoxic T cell degranulation
def: "An intracellular material detection by flow cytometry assay  that measures epitope specific cytotoxic T cell degranulation" []
synonym: "T cell degranulation by intracellular staining" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: OBI:0000916

[Term]
id: OBI:0001251
name: assay measuring epitope specific interleukin-13 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-13 production by T cells." []
synonym: "IL-13 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001252
name: array platform variation design
def: "A study design in which the array platform is compared, e.g. Agilent versus Affymetrix." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001253
name: assay measuring interleukin-9 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-9 production by T cells." []
synonym: "IL-9 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001254
name: epitope specific interleukin-3 production by T cells
def: "A process of interleukin-3 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0032632 ! interleukin-3 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001255
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-5 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-5 production by T cells." []
synonym: "IL-5 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001230 ! assay measuring epitope specific interleukin-5 production by T cells

[Term]
id: OBI:0001256
name: epitope specific lymphotoxin A production by T cells
def: "A process of lymphotoxin A production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0032641 ! lymphotoxin A production
is_a: OBI:0001351 ! epitope specific tumor necrosis factor superfamily cytokine production by T cells

[Term]
id: OBI:0001257
name: epitope specific interleukin-1 alpha production by T cells
def: "A process of interleukin-1 alpha production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0032610 ! interleukin-1 alpha production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001258
name: ChIP-seq design
def: "A study design which aims to identify protein and DNA interactions using a combination of chromatin immunoprecipitation and high throughput sequencing. Massively parallel sequence analyses are used in conjunction with whole-genome sequence databases to analyze the interaction pattern of any protein with DNA, or the pattern of any epigenetic chromatin modifications." []
is_a: OBI:0001425 ! protein binding site identification design

[Term]
id: OBI:0001259
name: translational bias design
def: "A study design that characterizes the association of transcripts and translation machinery." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001260
name: ELISA measuring epitope specific interleukin-3 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-3 production by T cells." []
synonym: "IL-3 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001406 ! assay measuring epitope specific interleukin-3 production by T cells

[Term]
id: OBI:0001261
name: ELISA measuring epitope specific interleukin-1 alpha production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-1 alpha production by T cells." []
synonym: "IL-1a release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001388 ! assay measuring epitope specific interleukin-1 alpha production by T cells

[Term]
id: OBI:0001262
name: epitope specific interleukin-27 production by T cells
def: "A process of interleukin-27 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0032631 ! interleukin-27 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001263
name: in vivo assay measuring epitope specific helper T cell enhancement of a T cell mediated immune response
def: "A T cell epitope specific helper activity assay that detects the ability of a T cell epitope to enhance a T cell response." []
synonym: "T cell help|in vivo assay" EXACT []
is_a: OBI:0001495 ! in vivo assay measuring epitope specific T cell helper activity

[Term]
id: OBI:0001264
name: assay measuring epitope specific transforming growth factor-beta production by T cells
def: "A T cell epitope specific cytokine production assay that detects transforming growth factor-beta production by T cells." []
synonym: "TGFb release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001265
name: FWER adjusted p-value
def: "A quantitative confidence value resulting from a multiple testing error correction method which adjusts the p-value used as input to control for Type I error in the context of multiple pairwise tests" []
is_a: OBI:0000071 ! quantitative confidence value

[Term]
id: OBI:0001266
name: DNA methylation profiling by high throughput sequencing assay
def: "A DNA methylation profiling assay in which the methylation state of DNA is determined and can be compared between samples using sequencing based technology" []
is_a: OBI:0000634 ! DNA methylation profiling assay

[Term]
id: OBI:0001267
name: epitope specific transforming growth factor-beta production by T cells
def: "A process of transforming growth factor-beta production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0071604 ! transforming growth factor beta production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001268
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-12 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-12 production by T cells." []
synonym: "IL-12 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001391 ! assay measuring epitope specific interleukin-12 production by T cells

[Term]
id: OBI:0001269
name: assay measuring epitope specific cytotoxic T cell degranulation
def: "A T cell epitope dependent biological activity assay that detects cytotoxic T cell degranulation." []
synonym: "degranulation|biological activity" EXACT []
is_a: OBI:0002055 ! assay measuring biological activity resulting from T cell epitope:MHC:TCR binding

[Term]
id: OBI:0001270
name: cell culture analyte detection bioassay measuring epitope specific transforming growth factor-beta production by T cells
def: "A reporter cell line analyte detection bioassay that detects transforming growth factor-beta production by T cells." []
synonym: "TGFb release|bioassay" EXACT []
is_a: OBI:0000904 ! reporter cell line analyte detection bioassay
is_a: OBI:0001264 ! assay measuring epitope specific transforming growth factor-beta production by T cells

[Term]
id: OBI:0001271
name: RNA-seq assay
def: "An RNA sequencing assay that determines an RNA sequence by analyzing the transcibed regions of the genome and or to quantitate transcript abundance." []
synonym: "transcription profiling by high throughput sequencing" EXACT []
is_a: OBI:0001177 ! RNA sequencing assay

[Term]
id: OBI:0001272
name: ELISPOT assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells
def: "An enzyme-linked immunospot assay that detects tumor necrosis factor superfamily cytokine production by T cells." []
synonym: "TNF release|ELISPOT" EXACT []
is_a: OBI:0001400 ! assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001273
name: cell culture analyte detection bioassay measuring epitope specific interleukin-5 production by T cells
def: "A reporter cell line analyte detection bioassay that detects interleukin-5 production by T cells." []
synonym: "IL-5 release|bioassay" EXACT []
is_a: OBI:0000904 ! reporter cell line analyte detection bioassay
is_a: OBI:0001230 ! assay measuring epitope specific interleukin-5 production by T cells

[Term]
id: OBI:0001274
name: genotyping by array assay
def: "A genotyping assay that uses an array" []
is_a: OBI:0000435 ! genotyping assay
is_a: OBI:0001985 ! microarray assay

[Term]
id: OBI:0001275
name: epitope specific interleukin-16 production by T cells
def: "A process of interleukin-16 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0032619 ! interleukin-16 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001276
name: assay measuring epitope specific chemokine (C-C motif) ligand 1 production by T cells
def: "A T cell epitope specific cytokine production assay that detects production of chemokine (C-C motif) ligand 1 by T cells." []
synonym: "CCL1/TCA-3 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001277
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-2 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-2 production by T cells." []
synonym: "IL-2 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001445 ! assay measuring epitope specific interleukin-2 production by T cells

[Term]
id: OBI:0001278
name: DNA methylation profiling by array design
def: "A study design in which the methylation state of DNA is determined and is compared between samples using array technology." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001279
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-22 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-22 production by T cells." []
synonym: "IL-22 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001217 ! assay measuring epitope specific interleukin-22 production by T cells

[Term]
id: OBI:0001280
name: assay measuring epitope specific interleukin-16 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-16 production by T cells." []
synonym: "IL-16 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001281
name: ELISA measuring epitope specific IP-10 production by T cells
def: "An enzyme-linked immunosorbent assay that detects IP-10 production by T cells." []
synonym: "CXCL10/IP-10 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001308 ! assay measuring epitope specific IP-10 production by T cells

[Term]
id: OBI:0001282
name: translation profiling assay
def: "An assay in which surface-bound, translationally competent ribosome complexes are used to generate a translation profile for mRNA, which mRNA may be a single molecular species, or a combination of species, including complex mixtures such as those found in the set of mRNAs isolated from a cell or tissue. One or more components of the surface-bound ribosome complex may be labeled at specific positions to permit analysis of multiple or single molecules for determination of ribosomal conformational changes and translation kinetics. Translation profiles are used as the basis for comparison of an mRNA or set of mRNA species. The translation profile can be used to determine such characteristics as kinetics of initiation, kinetic of elongation, identity of the polypeptide product, and the like. Analysis of translation profiles may be used to determine differential gene expression, optimization of mRNA sequences for expression, screening drug candidates for an effect on translation." []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0001283
name: ELISA measuring epitope specific interleukin-15 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-15 production by T cells." []
synonym: "IL-15 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001292 ! assay measuring epitope specific interleukin-15 production by T cells

[Term]
id: OBI:0001284
name: cytometric bead array assay measuring epitope specific interleukin-12 production by T cells
def: "A cytometric bead array assay that detects interleukin-12 production by T cells." []
synonym: "IL-12 release|cytometric bead array" EXACT []
is_a: OBI:0001391 ! assay measuring epitope specific interleukin-12 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001285
name: in vitro design
def: "A study design that is done in a test tube or a culture dish, e.g. A bacterial invasion assay in an established cell culture." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001286
name: RNAi profiling by array design
def: "A study design in which experiment double stranded RNA is synthesized with a sequence complementary to a gene(s) of interest and introduced into a cell or organism, where it is recognized as exogenous genetic material and activates the RNAi pathway resulting in knockdown of the transcripts and providing a means to study downstream changes in gene expression." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001288
name: ELISA measuring epitope specific lymphotoxin A production by T cells
def: "An enzyme-linked immunosorbent assay that detects lymphotoxin A production by T cells." []
synonym: "lymphotoxin A/TNFb release|ELISA" EXACT []
is_a: OBI:0001246 ! ELISA measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells
is_a: OBI:0001327 ! assay measuring epitope specific lymphotoxin A production by T cells

[Term]
id: OBI:0001289
name: cytometric bead array assay measuring epitope specific interleukin-5 production by T cells
def: "A cytometric bead array assay that detects interleukin-5 production by T cells." []
synonym: "IL-5 release|cytometric bead array" EXACT []
is_a: OBI:0001230 ! assay measuring epitope specific interleukin-5 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001290
name: transcription profiling by array design
def: "A study design that identifies forms and abundance of transcripts in the genome using microarray technology." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001291
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-17 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-17 production by T cells." []
synonym: "IL-17 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001295 ! assay measuring epitope specific interleukin-17 production by T cells

[Term]
id: OBI:0001292
name: assay measuring epitope specific interleukin-15 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-15 production by T cells." []
synonym: "IL-15 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001293
name: disease state design
def: "A study design in which the pathological condition of a part, organ, or system of an organism is studied. The etiology may be from infection, genetic defect, or environmental stress." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001294
name: wild type organism genotype information
def: "a genotype information about an organism and includes information that there are no known modifications to the genetic background. Generally it is the genotype information of a representative individual from a class of organisms." []
is_a: OBI:0001305 ! genotype information

[Term]
id: OBI:0001295
name: assay measuring epitope specific interleukin-17 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-17 production by T cells." []
synonym: "IL-17 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001296
name: cytometric bead array assay measuring epitope specific interleukin-17 production by T cells
def: "A cytometric bead array assay that detects interleukin-17 production by T cells." []
synonym: "IL-17 release|cytometric bead array" EXACT []
is_a: OBI:0001295 ! assay measuring epitope specific interleukin-17 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001297
name: cytometric bead array assay measuring epitope specific interleukin-10 production by T cells
def: "A cytometric bead array assay that detects interleukin-10 production by T cells." []
synonym: "IL-10 release|cytometric bead array" EXACT []
is_a: OBI:0001209 ! assay measuring epitope specific interleukin-10 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001298
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-21 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-21 production by T cells." []
synonym: "IL-21 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001237 ! assay measuring epitope specific interleukin-21 production by T cells

[Term]
id: OBI:0001299
name: intracellular cytokine staining assay measuring epitope specific interleukin-5 production by T cells
def: "A flow cytometry assay that detects interleukin-5 production by T cells." []
synonym: "IL-5 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001230 ! assay measuring epitope specific interleukin-5 production by T cells

[Term]
id: OBI:0001300
name: cytometric bead array assay measuring epitope specific interleukin-2 production by T cells
def: "A cytometric bead array assay that detects interleukin-2 production by T cells." []
synonym: "IL-2 release|cytometric bead array" EXACT []
is_a: OBI:0001445 ! assay measuring epitope specific interleukin-2 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001301
name: cell culture analyte detection bioassay measuring epitope specific interleukin-16 production by T cells
def: "A reporter cell line analyte detection bioassay that detects interleukin-16 production by T cells." []
synonym: "IL-16 release|bioassay" EXACT []
is_a: OBI:0000904 ! reporter cell line analyte detection bioassay
is_a: OBI:0001280 ! assay measuring epitope specific interleukin-16 production by T cells

[Term]
id: OBI:0001302
name: ELISA measuring epitope specific macrophage inflammatory protein-1 alpha production by T cells
def: "An enzyme-linked immunosorbent assay that detects macrophage inflammatory protein-1 alpha production by T cells." []
synonym: "CCL3/MIP-1a release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001333 ! assay measuring epitope specific macrophage inflammatory protein-1 alpha production by T cells

[Term]
id: OBI:0001303
name: intracellular cytokine staining assay measuring epitope specific granulocyte macrophage colony-stimulating factor production by T cells
def: "A flow cytometry assay that detects granulocyte macrophage colony stimulating factor production by T cells." []
synonym: "GM-CSF release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001233 ! assay measuring epitope specific granulocyte macrophage colony stimulating factor production by T cells

[Term]
id: OBI:0001304
name: RNAi profiling by array assay
def: "An assay in which double stranded RNA is synthesized with a sequence complementary to a gene(s) of interest and introduced into a cell or organism, where it is recognized as exogenous genetic material and activates the RNAi pathway resulting in knockdown of the transcripts and providing a means to study downstream changes in gene expression." []
is_a: OBI:0001985 ! microarray assay

[Term]
id: OBI:0001305
name: genotype information
def: "a genetic characteristics information that is about the genetic material of an organism and minimally includes information about the genetic background and can in addition contain information about specific alleles, genetic modifications, etc." []
is_a: OBI:0001404 ! genetic characteristics information

[Term]
id: OBI:0001306
name: RNA stability design
def: "A study design that examines the stability and/or decay of RNA transcripts." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001307
name: tiling microarray
def: "A DNA microarray which has short fragments of nucleic acid immobilized on a substrate. These are designed to cover the whole genome of the target species. Tiling arrays are used to determine genome binding in ChIP assays or to identify transcribed regions." []
synonym: "genome tiling array" EXACT []
is_a: OBI:0400148 ! DNA microarray

[Term]
id: OBI:0001308
name: assay measuring epitope specific IP-10 production by T cells
def: "A T cell epitope specific cytokine production assay that detects IP-10 production by T cells." []
synonym: "CXCL10/IP-10 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001309
name: intracellular cytokine staining assay measuring epitope specific interleukin-13 production by T cells
def: "A flow cytometry assay that detects interleukin-13 production by T cells." []
synonym: "IL-13 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001251 ! assay measuring epitope specific interleukin-13 production by T cells

[Term]
id: OBI:0001310
name: species comparison design
def: "A study design that assays differences between distinct species." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001311
name: X-ray crystallography assay determining the 3D structure of a T cell epitope:MHC:TCR complex
def: "A X-ray crystallography 3D molecular structure determination assay that characterizes the 3-dimensional molecular structure of a T cell epitope:MHC:TCR complex." []
synonym: "3D structure|x-ray crystallography|angstroms" EXACT []
is_a: OBI:0000912 ! X-ray crystallography 3D molecular structure determination assay
is_a: OBI:0001999 ! 3D molecular structure determination assay of a T cell epitope:MHC:TCR complex

[Term]
id: OBI:0001313
name: transcription profiling by RT-PCR design
def: "A study design which aims to examine the transcriptome of a biological sample by reverse transcription PCR (RT-PCR)." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001314
name: epitope specific T cell enhancement of B cell mediated immune response
def: "A process of T cell enhancement of B cell mediated immune response resulting from the recognition of a T cell epitope." []
is_a: GO:0035399 ! helper T cell enhancement of B cell mediated immune response

[Term]
id: OBI:0001315
name: ELISA measuring epitope specific chemokine (C-C motif) ligand 1 production by T cells
def: "An enzyme-linked immunosorbent assay that detects chemokine (C-C motif) ligand 1 production by T cells." []
synonym: "CCL1/TCA-3 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001276 ! assay measuring epitope specific chemokine (C-C motif) ligand 1 production by T cells

[Term]
id: OBI:0001316
name: epitope specific interleukin-21 production by T cells
def: "A process of interleukin-21 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0032625 ! interleukin-21 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001317
name: flow cytometry assay measuring cell-cell binding of a T cell epitope:MHC:TCR complex
def: "A flow cytometry assay that measures the cell-cell binding of an epitope:MHC complex binding with a T cell receptor." []
synonym: "T cell- APC binding|binding assay" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:1110124 ! assay measuring qualitative binding of a T cell epitope:MHC:TCR complex

[Term]
id: OBI:0001318
name: proteomic profiling by array assay
def: "An assay that detects proteins in a sample (quantified or otherwise analyzed), e.g. antibody profiling using an array based technology." []
is_a: OBI:0001985 ! microarray assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:0001319
name: cell culture analyte detection bioassay measuring epitope specific interferon-gamma production by T cells
def: "A reporter cell line analyte detection bioassay that detects interferon-gamma production by T cells." []
synonym: "IFNg release|bioassay" EXACT []
is_a: OBI:0000904 ! reporter cell line analyte detection bioassay
is_a: OBI:0001414 ! assay measuring epitope specific interferon-gamma production by T cells

[Term]
id: OBI:0001322
name: ELISPOT assay measuring epitope specific granzyme B release by T cells
def: "An enzyme-linked immunospot assay that detects  epitope specific granzyme B release by T cells." []
synonym: "granzyme B release|ELISPOT" EXACT []
is_a: OBI:0001436 ! assay measuring epitope specific granzyme B release by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001323
name: microRNA profiling by array design
def: "A study design in which a microRNA array is used to analyse the microRNA component of the transcriptome." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001324
name: in vivo assay measuring T cell epitope specific tolerance induction
def: "An efficacy of T cell epitope intervention experiment that uses a tolerance induction intervention experiment." []
synonym: "tolerance|in vivo assay" EXACT []
is_a: OBI:0001484 ! assay measuring T cell epitope specific in vivo activity
is_a: OBI:0001488 ! epitope tolerance induction experiment

[Term]
id: OBI:0001325
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific RANTES production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects RANTES production by T cells." []
synonym: "CCL5/RANTES release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001232 ! assay measuring epitope specific RANTES production by T cells

[Term]
id: OBI:0001326
name: cytometric bead array assay measuring epitope specific interleukin-4 production by T cells
def: "A cytometric bead array assay that detects interleukin-4 production by T cells" []
synonym: "IL-4 release|cytometric bead array" EXACT []
is_a: OBI:0001450 ! assay measuring epitope specific interleukin-4 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001327
name: assay measuring epitope specific lymphotoxin A production by T cells
def: "A T cell epitope specific cytokine production assay that detects lymphotoxin A production by T cells." []
synonym: "lymphotoxin A/TNFb release|biological activity" EXACT []
is_a: OBI:0001400 ! assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells

[Term]
id: OBI:0001328
name: organism development design
def: "A study design that assays events associated with development. Development applies to organism(s) acquiring a mature state." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001329
name: family history design
def: "A study design in which the family history such as traits, characteristics, susceptibility to disease is studied." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001330
name: ELISA measuring epitope specific chemokine (C-X-C motif) ligand 9 production by T cells
def: "An enzyme-linked immunosorbent assay that detects chemokine (C-X-C motif) ligand 9 production by T cells." []
synonym: "CXCL9/MIG release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001459 ! assay measuring epitope specific chemokine (C-X-C motif) ligand 9 production by T cells

[Term]
id: OBI:0001331
name: transcription profiling identification objective
def: "A molecular feature identification objective that aims to characterize the abundance of transcripts" []
is_a: OBI:0000131 ! molecular feature identification objective

[Term]
id: OBI:0001332
name: DNA methylation profiling by array assay
def: "A DNA methylation profiling assay in which the methylation state of DNA is determined and can be compared between samples using array technology" []
is_a: OBI:0000634 ! DNA methylation profiling assay

[Term]
id: OBI:0001333
name: assay measuring epitope specific macrophage inflammatory protein-1 alpha production by T cells
def: "A T cell epitope specific cytokine production assay that detects macrophage inflammatory protein-1 alpha production by T cells." []
synonym: "CCL3/MIP-1a release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001334
name: epitope specific granulocyte colony stimulating factor production by T cells
def: "A process of granulocyte colony stimulating factor production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0071611 ! granulocyte colony-stimulating factor production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001335
name: microRNA profiling by array assay
def: "An assay that analyses the microRNA component of the transcriptome using a microRNA array." []
is_a: OBI:0001926 ! microRNA profiling assay

[Term]
id: OBI:0001336
name: quality control testing design
def: "A study design in which some aspects of the experiment is quality controlled for the purposes of quality assurance." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001337
name: clinical history design
def: "A study design that the organism's clinical history of diagnosis, treatments, e.g. vaccinations, surgery etc. is studied." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001339
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-4 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-4 production by T cells." []
synonym: "IL-4 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001450 ! assay measuring epitope specific interleukin-4 production by T cells

[Term]
id: OBI:0001341
name: cell culture analyte detection bioassay measuring epitope specific granulocyte macrophage colony-stimulating factor production by T cells
def: "A reporter cell line analyte detection bioassay that detects granulocyte macrophage colony stimulating factor production by T cells." []
synonym: "GM-CSF release|bioassay" EXACT []
is_a: OBI:0000904 ! reporter cell line analyte detection bioassay
is_a: OBI:0001233 ! assay measuring epitope specific granulocyte macrophage colony stimulating factor production by T cells

[Term]
id: OBI:0001342
name: intracellular cytokine staining assay measuring epitope specific interleukin-21 production by T cells
def: "A flow cytometry assay that detects interleukin-21 production by T cells." []
synonym: "IL-21 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001237 ! assay measuring epitope specific interleukin-21 production by T cells

[Term]
id: OBI:0001343
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific monocyte chemotactic protein-1 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects monocyte chemotactic protein-1 production by T cells." []
synonym: "CCL2/MCP-1 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001465 ! assay measuring epitope specific monocyte chemotactic protein-1 production by T cells

[Term]
id: OBI:0001344
name: ELISA measuring epitope specific monocyte chemotactic protein-1 production by T cells
def: "An enzyme-linked immunosorbent assay that detects monocyte chemotactic protein-1 production by T cells." []
synonym: "CCL2/MCP-1 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001465 ! assay measuring epitope specific monocyte chemotactic protein-1 production by T cells

[Term]
id: OBI:0001345
name: assay measuring epitope specific chemokine (C-C motif) ligand 4 production by T cells
def: "A T cell epitope specific cytokine production assay that detects chemokine (C-C motif) ligand 4 production by T cells." []
synonym: "CCL4/MIP-1b release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001346
name: ELISA measuring epitope specific interleukin-21 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-21 production by T cells." []
synonym: "IL-21 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001237 ! assay measuring epitope specific interleukin-21 production by T cells

[Term]
id: OBI:0001348
name: in vivo skin test assay measuring T cell epitope specific type IV hypersensitivity
def: "An efficacy of T cell epitope intervention experiment that detects epitope specific type IV hypersensitivity." []
synonym: "type IV hypersensitivity (DTH)|in vivo skin test" EXACT []
is_a: OBI:0001178 ! efficacy of epitope intervention experiment
is_a: OBI:0001484 ! assay measuring T cell epitope specific in vivo activity

[Term]
id: OBI:0001349
name: cytometric bead array assay measuring epitope specific interleukin-13 production by T cells
def: "A cytometric bead array assay that detects interleukin-13 production by T cells." []
synonym: "IL-13 release|cytometric bead array" EXACT []
is_a: OBI:0001251 ! assay measuring epitope specific interleukin-13 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001350
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interferon-gamma production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interferon-gamma production by T cells." []
synonym: "IFNg release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001414 ! assay measuring epitope specific interferon-gamma production by T cells

[Term]
id: OBI:0001351
name: epitope specific tumor necrosis factor superfamily cytokine production by T cells
def: "A process of tumor necrosis factor superfamily cytokine production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0071706 ! tumor necrosis factor superfamily cytokine production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001352
name: allele information
def: "a genetic alteration information that about one of two or more alternative forms of a gene or marker sequence and differing from other alleles at one or more mutational sites based on sequence. Polymorphisms are included in this definition." []
is_a: OBI:0001364 ! genetic alteration information

[Term]
id: OBI:0001353
name: cytometric bead array assay measuring epitope specific tumor necrosis factor alpha production by T cells
def: "A cytometric bead array assay that detects tumor necrosis factor alpha production by T cells." []
synonym: "TNFa release|cytometric bead array" EXACT []
is_a: OBI:0001368 ! cytometric bead array assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells
is_a: OBI:0001416 ! assay measuring epitope specific tumor necrosis factor alpha production by T cells

[Term]
id: OBI:0001354
name: ELISPOT assay measuring epitope specific interleukin-17 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-17 production by T cells." []
synonym: "IL-17 release|ELISPOT" EXACT []
is_a: OBI:0001295 ! assay measuring epitope specific interleukin-17 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001356
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interferon-beta production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interferon-beta production by T cells." []
synonym: "IFNb release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001390 ! assay measuring epitope specific interferon-beta production by T cells

[Term]
id: OBI:0001357
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific granulocyte macrophage colony-stimulating factor production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects granulocyte macrophage colony stimulating factor production by T cells." []
synonym: "GM-CSF release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001233 ! assay measuring epitope specific granulocyte macrophage colony stimulating factor production by T cells

[Term]
id: OBI:0001358
name: post-transcriptional modification design
def: "A study design in which a modification of the transcriptome, proteome (not genome) is made, for example RNAi, antibody targeting." []
is_a: OBI:0000115 ! intervention design

[Term]
id: OBI:0001359
name: ELISA measuring epitope specific interleukin-8 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-8 production by T cells." []
synonym: "IL-8 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001218 ! assay measuring epitope specific interleukin-8 production by T cells

[Term]
id: OBI:0001360
name: cytometric bead array assay measuring epitope specific interleukin-6 production by T cells
def: "A cytometric bead array assay that detects interleukin-6 production by T cells." []
synonym: "IL-6 release|cytometric bead array" EXACT []
is_a: OBI:0001451 ! assay measuring epitope specific interleukin-6 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001361
name: transcription profiling by RT-PCR assay
def: "A transcription profiling assay that uses reverse transcription PCR (RT-PCR)." []
is_a: OBI:0000424 ! transcription profiling assay
is_a: OBI:0002692 ! polymerase chain reaction assay

[Term]
id: OBI:0001362
name: epitope specific chemokine (C-C motif) ligand 4 production by T cells
def: "A process of chemokine (C-C motif) ligand 4 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0071606 ! chemokine (C-C motif) ligand 4 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001363
name: assay measuring epitope specific interleukin-23 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-23 production by T cells." []
synonym: "IL-23 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001364
name: genetic alteration information
def: "a genetic characteristics information that is about known changes or the lack thereof from the genetic background, including allele information, duplication, insertion, deletion, etc." []
is_a: OBI:0001404 ! genetic characteristics information

[Term]
id: OBI:0001365
name: cellular process design
def: "A study design that aims to study the processes that are carried out at the cellular level, but are not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001366
name: epitope specific RANTES production by T cells
def: "A process of RANTES production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0071609 ! chemokine (C-C motif) ligand 5 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001367
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-10 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-10 production by T cells." []
synonym: "IL-10 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001209 ! assay measuring epitope specific interleukin-10 production by T cells

[Term]
id: OBI:0001368
name: cytometric bead array assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells
def: "A cytometric bead array assay that detects tumor necrosis factor superfamily cytokine production by T cells." []
synonym: "TNF release|cytometric bead array" EXACT []
is_a: OBI:0001400 ! assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001369
name: wild type allele information
def: "an allele information that is about the allele found most frequently in natural populations, or in standard laboratory stocks for a given organism." []
is_a: OBI:0001352 ! allele information

[Term]
id: OBI:0001370
name: intracellular cytokine staining assay measuring epitope specific chemokine (C-C motif) ligand 4 production by T cells
def: "A flow cytometry assay that detects chemokine (C-C motif) ligand 4 production by T cells." []
synonym: "CCL4/MIP-1b release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001345 ! assay measuring epitope specific chemokine (C-C motif) ligand 4 production by T cells

[Term]
id: OBI:0001371
name: epitope specific granzyme B production by T cells
def: "A process of granzyme B production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0071613 ! granzyme B production

[Term]
id: OBI:0001373
name: epitope specific interleukin-8 production by T cells
def: "A process of interleukin-8 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0032637 ! interleukin-8 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001374
name: injury design
def: "A study design in which the response of an organism(s) to injury or damage is studied." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001376
name: intracellular cytokine staining assay measuring epitope specific interleukin-3 production by T cells
def: "A flow cytometry assay that detects interleukin-3 production by T cells." []
synonym: "IL-3 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001406 ! assay measuring epitope specific interleukin-3 production by T cells

[Term]
id: OBI:0001377
name: organism status comparison design
def: "A study design that compares samples from live and dead organisms." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001378
name: ELISA measuring epitope specific chemokine (C-C motif) ligand 4 production by T cells
def: "An enzyme-linked immunosorbent assay that detects chemokine (C-C motif) ligand 4 production by T cells." []
synonym: "CCL4/MIP-1b release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001345 ! assay measuring epitope specific chemokine (C-C motif) ligand 4 production by T cells

[Term]
id: OBI:0001379
name: cytometric bead array assay measuring epitope specific interferon-gamma production by T cells
def: "A cytometric bead array assay that detects interferon-gamma production by T cells." []
synonym: "IFNg release|cytometric bead array" EXACT []
is_a: OBI:0001414 ! assay measuring epitope specific interferon-gamma production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001380
name: assay measuring epitope specific interleukin-18 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-18 production by T cells." []
synonym: "IL-18 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001381
name: epitope specific interleukin-23 production by T cells
def: "A process of interleukin-23 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0032627 ! interleukin-23 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001382
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-27 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-27 production by T cells." []
synonym: "IL-27 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001198 ! assay measuring epitope specific interleukin-27 production by T cells

[Term]
id: OBI:0001383
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific IP-10 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects IP-10 production by T cells." []
synonym: "CXCL10/IP-10 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001308 ! assay measuring epitope specific IP-10 production by T cells

[Term]
id: OBI:0001384
name: cell culture analyte detection bioassay measuring epitope specific interleukin-3 production by T cells
def: "A reporter cell line analyte detection bioassay that detects interleukin-3 production by T cells." []
synonym: "IL-3 release|bioassay" EXACT []
is_a: OBI:0000904 ! reporter cell line analyte detection bioassay
is_a: OBI:0001406 ! assay measuring epitope specific interleukin-3 production by T cells

[Term]
id: OBI:0001385
name: intracellular cytokine staining assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells
def: "A flow cytometry assay that detects tumor necrosis factor superfamily cytokine production by T cells." []
synonym: "TNF release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001400 ! assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells

[Term]
id: OBI:0001386
name: epitope specific monocyte chemotactic protein-1 production by T cells
def: "A process of monocyte chemotactic protein-1 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0071605 ! monocyte chemotactic protein-1 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001387
name: genotyping by array design
def: "A study design that classifies an individual or group of individuals on the basis of alleles, haplotypes, SNPs using microarray technology." []
is_a: OBI:0001444 ! genotyping design

[Term]
id: OBI:0001388
name: assay measuring epitope specific interleukin-1 alpha production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-1 alpha production by T cells." []
synonym: "IL-1a release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001389
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-6 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-6 production by T cells." []
synonym: "IL-6 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001451 ! assay measuring epitope specific interleukin-6 production by T cells

[Term]
id: OBI:0001390
name: assay measuring epitope specific interferon-beta production by T cells
def: "A T cell epitope specific cytokine production assay that detects interferon-beta production by T cells." []
synonym: "IFNb release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001391
name: assay measuring epitope specific interleukin-12 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-12 production by T cells." []
synonym: "IL-12 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001392
name: in vivo assay measuring epitope specific T cell killing
def: "An in vivo cell killing assay that measures the killing of antigen presenting cells (APC) by T cells whose TCR recognizes an epitope presented by the APC." []
synonym: "cytotoxicity|in vivo assay" EXACT []
is_a: OBI:0000883 ! in vivo cell killing assay
is_a: OBI:0001484 ! assay measuring T cell epitope specific in vivo activity
is_a: OBI:1110130 ! assay measuring epitope specific T cell killing

[Term]
id: OBI:0001393
name: comparative genomic hybridization by array assay
def: "An assay that measures changes in DNA sequence copy number using a microarray. For example the analysis of LOH in tumor cells vs a non diseased sample or the comparison of clinical isolated of disease causing bacteria." []
synonym: "array CGH" EXACT []
is_a: OBI:0000435 ! genotyping assay
is_a: OBI:0001985 ! microarray assay

[Term]
id: OBI:0001394
name: epitope specific cytotoxic T cell degranulation
def: "A process of cytotoxic T cell degranulation resulting from the recognition of a T cell epitope." []
is_a: GO:0043316 ! cytotoxic T cell degranulation

[Term]
id: OBI:0001395
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-23 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-23 production by T cells." []
synonym: "IL-23 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001363 ! assay measuring epitope specific interleukin-23 production by T cells

[Term]
id: OBI:0001396
name: stimulus or stress design
def: "A study design in which the response of an organism(s) to the stress or stimulus is studied, e.g. osmotic stress, heat shock, radiation exposure, behavioral treatment etc." []
is_a: OBI:0000115 ! intervention design

[Term]
id: OBI:0001397
name: cytometric bead array assay measuring epitope specific granulocyte colony stimulating factor production by T cells
def: "A cytometric bead array assay that detects granulocyte colony stimulating factor production by T cells." []
synonym: "G-CSF release|cytometric bead array" EXACT []
is_a: OBI:0001600 ! assay measuring epitope specific granulocyte colony stimulating factor production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001398
name: protein and DNA interaction identification objective
def: "A sequence feature identification objective that aims to characterize the interactions between protein and DNA which includes identification of transcription factor binding sites." []
is_a: OBI:0000113 ! sequence feature identification objective

[Term]
id: OBI:0001399
name: epitope specific interleukin-22 production by T cells
def: "A process of interleukin-22 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0032626 ! interleukin-22 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001400
name: assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells
def: "A T cell epitope specific cytokine production assay that detects tumor necrosis factor superfamily cytokine production by T cells." []
synonym: "TNF release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001401
name: protocol optimization design
def: "A study design where different protocols or protocol parameters are compared aims to find an optimized protocol" []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001402
name: promoter activity detection by reporter gene assay measuring epitope specific interleukin-2 production by T cells
def: "A promoter activity detection by reporter gene assay that detects interleukin-2 production by T cells." []
synonym: "IL-2 release|reporter gene assay" EXACT []
is_a: OBI:0000913 ! promoter activity detection by reporter gene assay
is_a: OBI:0001445 ! assay measuring epitope specific interleukin-2 production by T cells

[Term]
id: OBI:0001403
name: ChIP-chip design
def: "A study design which aims to identify protein binding sites in genomic DNA by a combination of chromatin immunoprecipitation and DNA microarray (chip) assays." []
synonym: "ChIP-on-chip design" EXACT []
is_a: OBI:0001425 ! protein binding site identification design

[Term]
id: OBI:0001404
name: genetic characteristics information
def: "a data item that is about genetic material including polymorphisms, disease alleles, and haplotypes." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0001405
name: cytometric bead array assay measuring epitope specific macrophage inflammatory protein-1 alpha production by T cells
def: "A cytometric bead array assay that detects macrophage inflammatory protein-1 alpha production by T cells." []
synonym: "CCL3/MIP-1a release|cytometric bead array" EXACT []
is_a: OBI:0001333 ! assay measuring epitope specific macrophage inflammatory protein-1 alpha production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001406
name: assay measuring epitope specific interleukin-3 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-3 production by T cells." []
synonym: "IL-3 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001407
name: assay measuring epitope specific T cell activation
def: "A T cell epitope dependent biological activity assay that detects T cell activation." []
synonym: "activation|biological activity" EXACT []
is_a: OBI:0002055 ! assay measuring biological activity resulting from T cell epitope:MHC:TCR binding

[Term]
id: OBI:0001408
name: imprinting design
def: "A study design where differences in genetic imprinting of maternally- and paternally-inherited chromosomes (e.g., due to in vivo differences in chemical modification and/or chromatin structure) are compared." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001409
name: cell cycle design
def: "A study design that assays events that occur in relation to the cell cycle, which is the period between the formation of a cell, by division of its mother cell and the time when the cell itself divides to form two daughter cells." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001410
name: translation profiling design
def: "A study design in which surface-bound, translationally competent ribosome complexes are used to generate a translation profile for mRNA, where mRNA may be a single molecular species, or a combination of species, including complex mixtures such as those found in the set of mRNAs isolated from a cell or tissue. One or more components of the surface-bound ribosome complex may be labeled at specific positions to permit analysis of multiple or single molecules for determination of ribosomal conformational changes and translation kinetics. Translation profiles are used as the basis for comparison of an mRNA or set of mRNA species. The translation profile can be used to determine such characteristics as kinetics of initiation, kinetic of elongation, identity of the polypeptide product, and the like. Analysis of translation profiles may be used to determine differential gene expression, optimization of mRNA sequences for expression, screening drug candidates for an effect on translation." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001411
name: cell type comparison design
def: "A study design that compares cells of different type, for example different cell lines." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001412
name: cytometric bead array assay measuring epitope specific RANTES production by T cells
def: "A cytometric bead array assay that detects RANTES production by T cells." []
synonym: "CCL5/RANTES release|cytometric bead array" EXACT []
is_a: OBI:0001232 ! assay measuring epitope specific RANTES production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001413
name: cell culture analyte detection bioassay measuring epitope specific interleukin-6 production by T cells
def: "A reporter cell line analyte detection bioassay that detects interleukin-6 production by T cells." []
synonym: "IL-6 release|bioassay" EXACT []
is_a: OBI:0000904 ! reporter cell line analyte detection bioassay
is_a: OBI:0001451 ! assay measuring epitope specific interleukin-6 production by T cells

[Term]
id: OBI:0001414
name: assay measuring epitope specific interferon-gamma production by T cells
def: "A T cell epitope specific cytokine production assay that detects interferon-gamma production by T cells." []
synonym: "IFNg release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001415
name: epitope specific interleukin-9 production by T cells
def: "A process of interleukin-9 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0032638 ! interleukin-9 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001416
name: assay measuring epitope specific tumor necrosis factor alpha production by T cells
def: "An assay of epitope specific tumor necrosis factor alpha production by T cells that detects tumor necrosis factor production." []
synonym: "TNFa release|biological activity" EXACT []
is_a: OBI:0001400 ! assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells

[Term]
id: OBI:0001417
name: ChIP-chip by tiling array design
def: "A study design which aims to identify protein binding sites in genomic DNA by a combination of chromatin immunoprecipitation and tiling microarray (chip) assays." []
is_a: OBI:0001403 ! ChIP-chip design

[Term]
id: OBI:0001418
name: dose response design
def: "A study design that examines the relationship between the size of the administered dose and the extent of the response." []
is_a: OBI:0000951 ! compound treatment design

[Term]
id: OBI:0001419
name: ChIP-chip by tiling array assay
def: "A ChIP-ChIP assay in which immunoprecipitated chromatin is run on a tiling array that covers stretches of DNA to to detect which elements in those stretches are present in the isolated chromatin" []
is_a: OBI:0001248 ! ChIP-chip assay

[Term]
id: OBI:0001420
name: epitope specific helper T cell enhancement of T cell mediated immune response
def: "A process of helper T cell enhancement of T cell mediated immune response resulting from the recognition of a T cell epitope." []
is_a: GO:0035398 ! helper T cell enhancement of T cell mediated immune response

[Term]
id: OBI:0001421
name: epitope specific interferon-beta production by T cells
def: "A process of interferon-beta production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0032608 ! interferon-beta production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001422
name: organism part comparison design
def: "A study design that compares tissues, regions, organs within or between organisms" []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001423
name: intracellular material detection measuring epitope specific granzyme B release by T cells
def: "A flow cytometry assay that detects epitope specific granzyme B release by T cells" []
synonym: "granzyme B release|intracellular staining" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001436 ! assay measuring epitope specific granzyme B release by T cells

[Term]
id: OBI:0001425
name: protein binding site identification design
def: "A study design that investigates protein binding sites on nucleic acids." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001426
name: sex comparison design
def: "A study design that assays differences associated with an organism's sex, gender or mating type." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001427
name: transcription profiling by tiling array design
def: "A study design in which gene expression on a genome-wide basis is evaluated, without bias toward coding or noncoding regions, using tiling arrays containing oligonucleotides that are either overlapping or spaced at regular intervals." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001429
name: cell differentiation design
def: "A study design that assays events associated with cell development or differentiation." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001430
name: transcription profiling design
def: "A study design that identifies forms and abundance of transcripts in the genome." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001432
name: operon identification design
def: "A study design that identifies locations and members of operons in a genome." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001433
name: radio immuno assay measuring epitope specific interferon-gamma production by T cells
def: "A radio immuno assay that detects interferon-gamma production by T cells." []
synonym: "IFNg release|radio immuno assay (RIA)" EXACT []
is_a: OBI:0000910 ! radio immuno assay
is_a: OBI:0001414 ! assay measuring epitope specific interferon-gamma production by T cells

[Term]
id: OBI:0001435
name: DNA methylation profiling by high throughput sequencing design
def: "A study design in which the methylation state of DNA is determined and is compared between samples using high throughput sequencing technology." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001436
name: assay measuring epitope specific granzyme B release by T cells
def: "A T cell epitope specific cytotoxic T cell degranulation assay that detects granzyme B release by T cells." []
synonym: "granzyme B release|biological activity" EXACT []
is_a: OBI:0001269 ! assay measuring epitope specific cytotoxic T cell degranulation

[Term]
id: OBI:0001437
name: intracellular cytokine staining assay measuring epitope specific chemokine (C-X-C motif) ligand 9 production by T cells
def: "A flow cytometry assay that detects chemokine (C-X-C motif) ligand 9 production by T cells." []
synonym: "CXCL9/MIG release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001459 ! assay measuring epitope specific chemokine (C-X-C motif) ligand 9 production by T cells

[Term]
id: OBI:0001438
name: ELISA measuring epitope specific macrophage inflammatory protein-1 gamma production by T cells
def: "An enzyme-linked immunosorbent assay that detects macrophage inflammatory protein-1 gamma production by T cells." []
synonym: "CCL9/MIP-1g release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001456 ! assay measuring epitope specific macrophage inflammatory protein-1 gamma production by T cells

[Term]
id: OBI:0001439
name: epitope specific chemokine (C-X-C motif) ligand 9 production by T cells
def: "A process of chemokine (C-X-C motif) ligand 9 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0035393 ! chemokine (C-X-C motif) ligand 9 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001440
name: all pairs design
def: "A study design in which all specimens are compared to every other specimen." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001441
name: proteomic profiling by array design
def: "A study design in which proteins in a sample are detected, quantified or otherwise analysed, through an array-based technology." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001442
name: q-value
def: "A quantitative confidence value that measures the minimum false discovery rate that is incurred when calling that test significant. \nTo compute q-values, it is necessary to know the p-value produced by a test and possibly set a false discovery rate level." []
synonym: "FDR adjusted p-value" EXACT []
is_a: OBI:0000071 ! quantitative confidence value

[Term]
id: OBI:0001444
name: genotyping design
def: "A study design that classifies an individual or group of individuals on the basis of alleles, haplotypes, SNPs." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001445
name: assay measuring epitope specific interleukin-2 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-2 production by T cells." []
synonym: "IL-2 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001446
name: epitope specific interleukin-15 production by T cells
def: "A process of interleukin-15 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0032618 ! interleukin-15 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001447
name: epitope specific macrophage inflammatory protein-1 gamma production by T cells
def: "A process of macrophage inflammatory protein-1 gamma production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0071607 ! macrophage inflammatory protein-1 gamma production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001448
name: individual genetic characteristics comparison design
def: "A study design where genotype, haplotype, or other individual genetic characteristics are compared." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001449
name: assay measuring epitope specific interleukin-1 beta production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-1 beta production by T cells." []
synonym: "IL-1b release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001450
name: assay measuring epitope specific interleukin-4 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-4 production by T cells." []
synonym: "IL-4 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001451
name: assay measuring epitope specific interleukin-6 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-6 production by T cells." []
synonym: "IL-6 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001452
name: cell culture analyte detection bioassay measuring epitope specific tumor necrosis factor alpha production by T cells
def: "A reporter cell line analyte detection bioassay that detects tumor necrosis factor alpha production by T cells." []
synonym: "TNFa release|bioassay" EXACT []
is_a: OBI:0001416 ! assay measuring epitope specific tumor necrosis factor alpha production by T cells
is_a: OBI:0003488 ! cell culture analyte detection bioassay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells

[Term]
id: OBI:0001453
name: intracellular cytokine staining assay measuring epitope specific lymphotoxin A production by T cells
def: "A flow cytometry assay that detects lymphotoxin A production by T cells." []
synonym: "lymphotoxin A/TNFb release|ICS" EXACT []
is_a: OBI:0001327 ! assay measuring epitope specific lymphotoxin A production by T cells
is_a: OBI:0001385 ! intracellular cytokine staining assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells

[Term]
id: OBI:0001454
name: pathogenicity design
def: "A study design in which an infective agent such as a bacterium, virus, protozoan, fungus etc. infects a host organism(s) and the infective agent is assayed." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001455
name: ELISPOT assay measuring epitope specific interleukin-5 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-5 production by T cells." []
synonym: "IL-5 release|ELISPOT" EXACT []
is_a: OBI:0001230 ! assay measuring epitope specific interleukin-5 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001456
name: assay measuring epitope specific macrophage inflammatory protein-1 gamma production by T cells
def: "A T cell epitope specific cytokine production assay that detects macrophage inflammatory protein-1 gamma production by T cells." []
synonym: "CCL9/MIP-1g release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001457
name: cytometric bead array assay measuring epitope specific interleukin-8 production by T cells
def: "A cytometric bead array assay that detects interleukin-8 production by T cells." []
synonym: "IL-8 release|cytometric bead array" EXACT []
is_a: OBI:0001218 ! assay measuring epitope specific interleukin-8 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001459
name: assay measuring epitope specific chemokine (C-X-C motif) ligand 9 production by T cells
def: "A T cell epitope specific cytokine production assay that detects chemokine (C-X-C motif) ligand 9 production by T cells." []
synonym: "CXCL9/MIG release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001460
name: genetic modification design
def: "A study design in which an organism(s) is studied that has had genetic material removed, rearranged, mutagenized or added, such as in a knock out." []
is_a: OBI:0000115 ! intervention design

[Term]
id: OBI:0001461
name: ELISA measuring epitope specific granzyme B release by T cells
def: "An enzyme-linked immunosorbent assay that detects epitope specific granzyme B release by T cells." []
synonym: "granzyme B release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001436 ! assay measuring epitope specific granzyme B release by T cells

[Term]
id: OBI:0001462
name: epitope specific IP-10 production by T cells
def: "A process of IP-10 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0071612 ! IP-10 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001463
name: transcription profiling by array assay
def: "A transcription profiling assay that uses array technology." []
synonym: "RNA profiling by array assay" EXACT []
is_a: OBI:0000424 ! transcription profiling assay

[Term]
id: OBI:0001464
name: strain comparison design
def: "A study design that assays differences between multiple strains, cultivars, serovars, isolates, lines from organisms of a single species." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001465
name: assay measuring epitope specific monocyte chemotactic protein-1 production by T cells
def: "A T cell epitope specific cytokine production assay that detects monocyte chemotactic protein-1 production by T cells." []
synonym: "CCL2/MCP-1 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001466
name: intracellular cytokine staining assay measuring epitope specific interleukin-12 production by T cells
def: "A flow cytometry assay that detects interleukin-12 production by T cells." []
synonym: "IL-12 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001391 ! assay measuring epitope specific interleukin-12 production by T cells

[Term]
id: OBI:0001467
name: in vivo assay measuring T cell epitope specific disease exacerbation
def: "An efficacy of T cell epitope intervention experiment that uses a disease exacerbation in vivo intervention experiment." []
synonym: "disease exacerbation|in vivo assay" EXACT []
is_a: OBI:0001188 ! epitope disease exacerbation experiment
is_a: OBI:0001484 ! assay measuring T cell epitope specific in vivo activity

[Term]
id: OBI:0001468
name: cell specimen
def: "A specimen primarily composed of a cell or cells collected from a multicellular organism or a cell culture." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0001469
name: monospecific T cell recognition assay measuring MHC ligand processing and presentation
def: "A MHC ligand processing and presentation assay in which the presence of a specific ligand in an eluate is detected using the response of T cells that are known to be monospecific for that ligand as a readout." []
synonym: "ligand presentation|T cell recognition" EXACT []
is_a: OBI:1110125 ! assay measuring MHC ligand processing and presentation

[Term]
id: OBI:0001470
name: epitope specific interleukin-17F production by T cells
def: "A process of interleukin-17F production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0097088 ! interleukin-17F production
is_a: OBI:1110193 ! epitope specific IL-17 release by T cells

[Term]
id: OBI:0001471
name: T cell epitope specific immune intervention
def: "An epitope specific immune intervention in which the induced response targets a T cell epitope" []
is_a: OBI:0001192 ! epitope specific immune intervention

[Term]
id: OBI:0001472
name: specimen with known storage state
def: "A specimen for which it is known whether it has been subjected to storage of a specified type." []
is_a: OBI:0100051 ! specimen

[Term]
id: OBI:0001473
name: in vivo assay measuring T cell epitope specific protection after tumor burden challenge
def: "An in vivo assay measuring T cell epitope specific protection from tumor challenge using tumor burden." []
synonym: "tumor burden after challenge|in vivo assay" EXACT []
is_a: OBI:0003458 ! epitope protection from tumor challenge experiment based on burden
is_a: OBI:0003461 ! in vivo assay measuring T cell epitope specific protection from tumor challenge

[Term]
id: OBI:0001474
name: lowess group transformation
def: "A lowess transformation where a potentially different normalization curve is generated and used for two or more groups (delineated by some criteria); criteria could include blocks (e.g. print-tip groups) on an array, or the day on which mass spectrometry was performed." []
is_a: OBI:0001477 ! lowess transformation

[Term]
id: OBI:0001475
name: in vivo assay measuring T cell epitope specific protection from infectious challenge based on pathogen burden
def: "An in vivo assay measuring T cell epitope specific protection from pathogen challenge using pathogen burden." []
synonym: "pathogen burden after challenge|in vivo assay" EXACT []
is_a: OBI:0001186 ! epitope protection from infectious challenge experiment based on pathogen burden
is_a: OBI:0003460 ! in vivo assay measuring T cell epitope specific protection from pathogen challenge

[Term]
id: OBI:0001476
name: phage display binding assay
def: "A binding assay in which a collection of phages expressing a library of different peptides or protein fragnments is used to infect cells, followed by screening for cells that bind a protein of interest, and identifiying the sequence of infecting phages to determine a suitable binding partner." []
is_a: OBI:0001146 ! binding assay

[Term]
id: OBI:0001477
name: lowess transformation
def: "A data transformation of normalizing ratio data by using a locally weighted polynomial regression (typically after a log transformation). The regression can be performed on log ratios resulting from the relation of two data sets versus the average log intensity data from the same two data sets or it can be performed on raw or log transformed values from one data set versus values from another. The goal could be to remove intensity-dependent dye-specific effects from the set of pair wise ratios. This method can be applied globally, or limited by one or more specified criteria." []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0001478
name: mass spectrometry assay measuring MHC ligand processing and presentation
def: "A MHC ligand processing and presentation assay that uses a mass spectrometry assay to identify eluted ligands" []
synonym: "ligand presentation|mass spectrometry" EXACT []
is_a: OBI:1110125 ! assay measuring MHC ligand processing and presentation

[Term]
id: OBI:0001479
name: specimen from organism
def: "A specimen that derives from an anatomical part or substance arising from an organism. Examples of tissue specimen include tissue, organ, physiological system, blood, or body location (arm)." []
synonym: "tissue specimen" EXACT []
is_a: OBI:0100051 ! specimen

[Term]
id: OBI:0001480
name: phage display library panning
def: "Phage display library panning is a process in which a diverse collection of phages encoding peptides or proteins are screened and the ones encoding active peptides/proteins are selected in an iterative process similar to natural selection." []
is_a: COB:0000110 ! material processing

[Term]
id: OBI:0001481
name: lowess global transformation
def: "A lowess transformation where the same normalization curve is used for all members of the data set; e.g. Features on an array, picked spots on a gel, or measured metabolites in a sample." []
is_a: OBI:0001477 ! lowess transformation

[Term]
id: OBI:0001482
name: intracellular cytokine staining assay measuring epitope specific transforming growth factor-beta production by T cells
def: "A flow cytometry assay that detects transforming growth factor-beta production by T cells." []
synonym: "TGFb release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001264 ! assay measuring epitope specific transforming growth factor-beta production by T cells

[Term]
id: OBI:0001483
name: cell collecting
def: "A planned process that collects cells from culture." []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0001484
name: assay measuring T cell epitope specific in vivo activity
def: "A T cell epitope dependent biological activity determination assay that uses an in vivo intervention experiment." []
synonym: "in vivo activity|biological activity" EXACT []
is_a: OBI:0002055 ! assay measuring biological activity resulting from T cell epitope:MHC:TCR binding

[Term]
id: OBI:0001485
name: purified MHC molecule preparation
def: "A mixture containing MHC molecules that was purified to remove non-MHC molecular entities." []
is_a: OBI:0001633 ! purified material

[Term]
id: OBI:0001486
name: disposition to be bound by an MHC protein complex
def: "Is the disposition borne by a material entity that is realized in a process of being bound in the antigen binding grove of an MHC protein complex." []
synonym: "MHC ligand disposition" EXACT []
is_a: BFO:0000016 ! disposition

[Term]
id: OBI:0001487
name: B cell epitope specific immune intervention
def: "An epitope specific immune intervention in which the induced response targets a B cell epitope" []
is_a: OBI:0001192 ! epitope specific immune intervention

[Term]
id: OBI:0001488
name: epitope tolerance induction experiment
def: "An efficacy of epitope intervention experiment that tests the ability of the intervention to decrease an existing immune response" []
synonym: "tolerance induction" EXACT []
is_a: OBI:0001178 ! efficacy of epitope intervention experiment

[Term]
id: OBI:0001489
name: mass spectrometry assay measuring MHC ligand processing and presentation of MHC ligands eluted from cellular MHC
def: "A mass spectrometry of MHC ligands assay that identifies eluted ligands from cell bound MHC." []
synonym: "ligand presentation|cellular MHC/mass spectrometry" EXACT []
is_a: OBI:0001478 ! mass spectrometry assay measuring MHC ligand processing and presentation

[Term]
id: OBI:0001490
name: cytometric bead array measuring epitope specific granulocyte macrophage colony-stimulating factor production by T cells
def: "A cytometric bead array assay that detects granulocyte macrophage colony stimulating factor production by T cells." []
synonym: "GM-CSF release|cytometric bead array" EXACT []
is_a: OBI:0001233 ! assay measuring epitope specific granulocyte macrophage colony stimulating factor production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001491
name: binding assay using radioactivity detection
def: "A binding assay that uses radioactivity detection as an indicator of binding." []
is_a: OBI:0001146 ! binding assay

[Term]
id: OBI:0001492
name: in vivo assay measuring T cell epitope specific protection based on survival
def: "An in vivo assay measuring T cell epitope specific protection from other challenge using survival." []
synonym: "survival from challenge|in vivo assay" EXACT []
is_a: OBI:0001189 ! epitope protection experiment based on survival
is_a: OBI:0003462 ! in vivo assay measuring T cell epitope specific protection from other challenge

[Term]
id: OBI:0001493
name: cell bound MHC competitive binding assay of a MHC:ligand complex using T cell epitope recognition
def: "A cell bound MHC binding assay that uses a T cell epitope recognition assay." []
synonym: "qualitative binding|cellular MHC/T cell inhibition" EXACT []
is_a: OBI:0001550 ! assay measuring binding of a cell-bound-MHC:ligand complex

[Term]
id: OBI:0001494
name: linear amplification
def: "An enzymatic amplification which amplifies nucleic acid sequence by making many copies off the same template." []
is_a: OBI:0600058 ! enzymatic amplification

[Term]
id: OBI:0001495
name: in vivo assay measuring epitope specific T cell helper activity
def: "A T cell epitope dependent biological activity assay that detects the ability of epitope specific helper T cells to enhance either B cell or T cell adaptive immune response function." []
synonym: "helper response|in vivo assay" EXACT []
is_a: OBI:0001484 ! assay measuring T cell epitope specific in vivo activity

[Term]
id: OBI:0001496
name: intracellular cytokine staining assay measuring epitope specific interleukin-22 production by T cells
def: "A flow cytometry assay that detects interleukin-22 production by T cells." []
synonym: "IL-22 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001217 ! assay measuring epitope specific interleukin-22 production by T cells

[Term]
id: OBI:0001497
name: assay measuring epitope specific perforin release by T cells
def: "A T cell epitope specific cytotoxic T cell degranulation assay that detects perforin release by T cells." []
synonym: "perforin release|biological activity" EXACT []
is_a: OBI:0001269 ! assay measuring epitope specific cytotoxic T cell degranulation

[Term]
id: OBI:0001498
name: atmosphere
def: "A growth environment pertaining to the atmospheric conditions that is used to culture or grow an organism." []
is_a: OBI:0000997 ! growth environment

[Term]
id: OBI:0001499
name: binding assay using fluorescence detection
def: "A binding assay that uses fluorescence detection as an indicator of binding." []
is_a: OBI:0001146 ! binding assay

[Term]
id: OBI:0001500
name: coelution assay measuring MHC ligand processing and presentation using T cell recognition of HPLC fractionated eluate compared to synthetic ligand
def: "A MHC ligand processing and presentation assay in which an HPL chromatography is run to separate an input mixture of ligands eluted from MHC into fractions. These fractions are tested for recognition by T cells and compared to the recognition of a synthetic ligand that is presumed to be the recognized epitope. Identical HPLC fractionation and T cell recognition patterns confirm that the specific ligand was presented by MHC molecules." []
synonym: "ligand presentation|coelution" EXACT []
is_a: OBI:1110125 ! assay measuring MHC ligand processing and presentation

[Term]
id: OBI:0001501
name: fluorescence detection assay
def: "An assay in which a material's fluorescence is determined." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0001502
name: epitope specific perforin production by T cells
def: "The production of perforin, an immune mediator molecule involved in T cell degranulation,  resulting from the recognition of a T cell epitope." []
is_a: GO:0035944 ! perforin production

[Term]
id: OBI:0001503
name: MHC protein complex binding to ligand
def: "The process in which a ligand binds to an MHC molecule to form a stable complex." []
is_a: OBI:0001588 ! binding

[Term]
id: OBI:0001504
name: dissection
def: "A planned process that separates and isolates tissues for surgical purposes, or for the analysis or study of their structures." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0001505
name: purification
def: "A planned process to separate a material entity into different compositions of which one or more have are purified fractions that contain higher concentration of a desired component, while others contain impurities and are not of interest" []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0001506
name: specimen with pre- or post-mortem status
def: "A specimen that has been established to be taken from a live (pre-mortem) or dead (post-mortem) organism." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0001507
name: in vivo assay measuring T cell epitope specific treatment of disease
def: "An efficacy of T cell epitope intervention experiment that detects a decrease in disease." []
synonym: "decreased disease|in vivo assay" EXACT []
is_a: OBI:0001190 ! epitope treatment experiment
is_a: OBI:0001484 ! assay measuring T cell epitope specific in vivo activity

[Term]
id: OBI:0001508
name: sampling time measurement datum
def: "A time measurement datum when an observation is made or a sample is taken from a material as measured from some reference point." []
synonym: "time point" EXACT []
is_a: IAO:0000416 ! time measurement datum

[Term]
id: OBI:0001509
name: Edman degradation assay measuring MHC ligand processing and presentation
def: "A MHC ligand processing and presentation assay that uses Edman degradation to identify the eluted ligands" []
synonym: "ligand presentation|Edman degradation" EXACT []
is_a: OBI:1110125 ! assay measuring MHC ligand processing and presentation

[Term]
id: OBI:0001510
name: mass spectrometry assay measuring MHC ligand processing and presentation of MHC ligands eluted from secreted MHC
def: "A mass spectrometry of MHC ligands that identifies eluted ligands from secreted MHC." []
synonym: "ligand presentation|secreted MHC/mass spectrometry" EXACT []
is_a: OBI:0001478 ! mass spectrometry assay measuring MHC ligand processing and presentation

[Term]
id: OBI:0001511
name: disposition to be a product of antigen processing and presentation
def: "A disposition of a material entity to be presented by MHC molecules on the cell surface as a result of antigen processing by an antigen presenting cell." []
is_a: BFO:0000016 ! disposition

[Term]
id: OBI:0001512
name: cytometric bead array assay measuring epitope specific interleukin-17A production by T cells
def: "A cytometric bead array assay that detects interleukin-17A production by T cells." []
synonym: "IL-17A release|cytometric bead array" EXACT []
is_a: OBI:0001296 ! cytometric bead array assay measuring epitope specific interleukin-17 production by T cells
is_a: OBI:0001773 ! assay measuring epitope specific interleukin-17A production by T cells

[Term]
id: OBI:0001513
name: radioactivity detection assay measuring competitive binding of a purified-MHC:ligand complex
def: "A radioactivity detection assay that detects loss of binding of a known reference ligand to purified-MHC due to competition by the ligand under investigation." []
synonym: "qualitative binding|purified MHC/competitive/radioactivity" EXACT []
is_a: OBI:0001491 ! binding assay using radioactivity detection
is_a: OBI:0001555 ! assay measuring binding of a purified-MHC:ligand complex

[Term]
id: OBI:0001514
name: minimal inhibitory concentration
def: "A scalar measurement datum that indicates the lowest concentration at which a specific compound significantly inhibits a process from occurring compared to in the absence of the compound." []
is_a: IAO:0000032 ! scalar measurement datum

[Term]
id: OBI:0001515
name: material maintenance service
def: "A material processing service in which a service provider makes physical modifications to a specified input material, such that at least one of the specified outputs of this process is a modified version of a specified input material." []
comment: Here we need to go back to the defintoin of storage process. It has object specification which is material maintenance. Not necessareley a material maintenance is needed in a storage process.
is_a: OBI:0001528 ! material service

[Term]
id: OBI:0001516
name: radioactivity detection assay measuring half maximal effective concentration [EC50] to determine direct binding of a cell-lysate-MHC:ligand complex
def: "A radioactivity detection assay that measures half maximal effective concentration (EC50) to detect the direct binding of a cell-lysate-MHC molecule with a ligand." []
synonym: "half maximal effective concentration (EC50)|lysate MHC/direct/radioactivity|nM" EXACT []
is_a: OBI:0001491 ! binding assay using radioactivity detection
is_a: OBI:0001991 ! assay measuring the half maximal effective concentration [EC50] of a MHC:ligand complex

[Term]
id: OBI:0001517
name: radioactivity detection assay measuring half maximal inhibitory concentration [IC50] to determine competitive binding of a cell-bound-MHC:ligand complex
def: "A radioactivity detection assay that measures half maximal inhibitory concentration (IC50) to detect the loss of binding of a known reference ligand to cell-bound-MHC due to competition by the ligand under investigation." []
synonym: "half maximal inhibitory concentration (IC50)|cellular MHC/competitive/radioactivity|nM" EXACT []
is_a: OBI:0001491 ! binding assay using radioactivity detection
is_a: OBI:0001992 ! assay measuring the half maximal inhibitory concentration [IC50] of a MHC:ligand complex

[Term]
id: OBI:0001518
name: epitope specific tumor necrosis factor (ligand) superfamily member 11 production by T cells
def: "A process of tumor necrosis factor (ligand) superfamily member 11 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0072535 ! tumor necrosis factor (ligand) superfamily member 11 production
is_a: OBI:0001351 ! epitope specific tumor necrosis factor superfamily cytokine production by T cells

[Term]
id: OBI:0001519
name: fluorescence detection assay measuring direct binding of a cell-lysate-MHC:ligand complex
def: "A fluorescence detection assay that detects direct binding of a cell-lysate-MHC molecule with a ligand." []
synonym: "qualitative binding|lysate MHC/direct/fluorescence" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0001579 ! assay measuring binding of a cell-lysate-MHC:ligand complex

[Term]
id: OBI:0001520
name: fluorescence detection assay measuring half maximal inhibitory concentration [IC50] to determine competitive binding of a cell-bound-MHC:ligand complex
def: "A fluorescence detection assay that measures half maximal inhibitory concentration (IC50) to detect the loss of binding of a known reference ligand to cell-bound-MHC due to competition by the ligand under investigation." []
synonym: "half maximal inhibitory concentration (IC50)|cellular MHC/competitive/fluorescence|nM" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0001992 ! assay measuring the half maximal inhibitory concentration [IC50] of a MHC:ligand complex

[Term]
id: OBI:0001521
name: ELISA measuring epitope specific granulocyte colony stimulating factor production by T cells
def: "An enzyme-linked immunosorbent assay that detects granulocyte colony stimulating factor production by T cells." []
synonym: "G-CSF release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001600 ! assay measuring epitope specific granulocyte colony stimulating factor production by T cells

[Term]
id: OBI:0001522
name: sequence assembly algorithm
def: "An algorithm used to assemble individual sequence reads into larger contiguous sequences (contigs).  Assembly details include but are not limited to assembler type (overlap-layout-consensus, deBruijn), assembler version, and any relevant quality control information such as per cent known genes/ESTs captured." []
synonym: "Assembly Algorithm" EXACT []
is_a: IAO:0000064 ! algorithm

[Term]
id: OBI:0001523
name: cytometric bead array assay measuring epitope specific interleukin-17F production by T cells
def: "A cytometric bead array assay that detects interleukin-17F production by T cells." []
synonym: "IL-17F release|cytometric bead array" EXACT []
is_a: OBI:0001296 ! cytometric bead array assay measuring epitope specific interleukin-17 production by T cells
is_a: OBI:0001772 ! assay measuring epitope specific interleukin-17F production by T cells

[Term]
id: OBI:0001524
name: fluorescence detection assay measuring equilibrium association constant [KA] to determine direct binding of a cell-bound-MHC:ligand complex
def: "A fluorescence detection assay that measures equilibrium association constant (KA) to detect the direct binding of a cell-bound-MHC molecule with a ligand." []
synonym: "association constant KA|cellular MHC/direct/fluorescence|1/M" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0001987 ! assay measuring the association constant [KA] of a MHC:ligand complex

[Term]
id: OBI:0001525
name: PDB file
def: "A 3d structural organization datum capturing the results of X-ray crystallography or NMR experiment that is formatted as specified by the Protein Databank (http://www.wwpdb.org/docs.html). A PDB file can describe the structure of multiple molecules, each of which has a different chain identifier assigned." []
is_a: OBI:0001155 ! 3D structural organization datum

[Term]
id: OBI:0001526
name: epitope specific interleukin-17A production by T cells
def: "A process of interleukin-17A production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0097087 ! interleukin-17A production
is_a: OBI:1110193 ! epitope specific IL-17 release by T cells

[Term]
id: OBI:0001527
name: support service
def: "A service  in which the service provider assists the consumer in activities directly or indirectly associated with the production and analysis of experimental research data." []
is_a: OBI:0001173 ! service

[Term]
id: OBI:0001528
name: material service
def: "A service which has a material entity as specified input and/or specified output." []
is_a: OBI:0001173 ! service

[Term]
id: OBI:0001529
name: data analysis service
def: "A service in which a service consumer provides some input data and a service provider transforms, models, or interprets the input data and returns this generated data as output." []
is_a: OBI:0001530 ! data service

[Term]
id: OBI:0001530
name: data service
def: "A service that has some information content entity as input and output." []
comment: Information content entity was used as specified input and output since it was more appropriate then data item or dataset.
is_a: OBI:0001173 ! service

[Term]
id: OBI:0001531
name: fluorescence detection assay measuring half life to determine direct binding of a purified-MHC:ligand complex
def: "A fluorescence detection assay that measures half life to detect the direct binding of a purified-MHC molecule with a ligand." []
synonym: "half life|purified MHC/direct/fluorescence|min" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0001990 ! assay measuring the half life of a MHC:ligand complex

[Term]
id: OBI:0001532
name: cytometric bead array assay measuring epitope specific interleukin-9 production by T cells
def: "A cytometric bead array assay that detects interleukin-9 production by T cells." []
synonym: "IL-9 release|cytometric bead array" EXACT []
is_a: OBI:0001253 ! assay measuring interleukin-9 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001533
name: data storage service
def: "A storage service in which a service consumer provides data as input which a service provider stores and returns as output in its original form." []
is_a: OBI:0001530 ! data service

[Term]
id: OBI:0001534
name: fluorescence detection assay measuring competitive binding of a purified-MHC:ligand complex
def: "A fluorescence detection assay that detects loss of binding of a known reference ligand to purified-MHC due to competition by the ligand under investigation." []
synonym: "qualitative binding|purified MHC/competitive/fluorescence" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0001555 ! assay measuring binding of a purified-MHC:ligand complex

[Term]
id: OBI:0001535
name: epitope specific interleukin-7 production by T cells
def: "A process of interleukin-7 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0032636 ! interleukin-7 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001536
name: equilibrium dissociation constant (KD)
def: "A binding constant defined as the ratio of kon over koff (on-rate of binding divided by off-rate)" []
is_a: OBI:0001144 ! binding constant

[Term]
id: OBI:0001537
name: fluorescence detection assay measuring equilibrium dissociation constant [KD] to determine competitive binding of a purified-MHC:ligand complex
def: "A fluorescence detection assay that measures equilibrium dissociation constant (KD) to detect the loss of binding of a known reference ligand to purified-MHC due to competition by the ligand under investigation." []
synonym: "dissociation constant KD|purified MHC/competitive/fluorescence|nM" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0001988 ! assay measuring the dissociation constant [KD] of a MHC:ligand complex

[Term]
id: OBI:0001538
name: training service
def: "A service  in which the service provider offers educational materials or events, such as courses, workshops or graduate programs, to the service consumer." []
is_a: OBI:0001173 ! service

[Term]
id: OBI:0001539
name: fluorescence detection assay measuring equilibrium dissociation constant [KD] to determine competitive binding of a cell-bound-MHC:ligand complex
def: "A fluorescence detection assay that measures equilibrium dissociation constant (KD) to detect the loss of binding of a known reference ligand to cell-bound-MHC due to competition by the ligand under investigation." []
synonym: "dissociation constant KD|cellular MHC/competitive/fluorescence|nM" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0001988 ! assay measuring the dissociation constant [KD] of a MHC:ligand complex

[Term]
id: OBI:0001540
name: obsolete T cell recognition of eluted MHC ligand assay
def: "An assay that identifies an MHC ligand using a T cell response assay as a readout" []
synonym: "T cell recognition" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: OBI:0001469

[Term]
id: OBI:0001541
name: fluorescence detection assay measuring binding on rate [kon] to determine direct binding of a purified-MHC:ligand complex
def: "A fluorescence detection assay measuring binding on rate (kon) to detect direct binding of a purified-MHC:ligand complex." []
synonym: "on rate|purified MHC/direct/fluorescence|nM^-1s^-1" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0001994 ! assay measuring the MHC ligand binding on rate [kon] of a MHC:ligand complex

[Term]
id: OBI:0001542
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-13 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-13 production by T cells." []
synonym: "IL-13 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001251 ! assay measuring epitope specific interleukin-13 production by T cells

[Term]
id: OBI:0001543
name: fluorescence detection assay measuring equilibrium dissociation constant [KD] to determine direct binding of a purified-MHC:ligand complex approximated by EC50
def: "A fluorescence detection assay that measures equilibrium dissociation constant (KD) to detect direct binding of a purified-MHC molecule with a ligand and provides EC50 values determined under assay conditions where the EC50 approximates a KD value." []
synonym: "dissociation constant KD (~EC50)|purified MHC/direct/fluorescence|nM" EXACT []
is_a: OBI:0001592 ! fluorescence detection assay measuring half maximal effective concentration [EC50] to determine direct binding of a purified-MHC:ligand complex
is_a: OBI:0001988 ! assay measuring the dissociation constant [KD] of a MHC:ligand complex

[Term]
id: OBI:0001544
name: radioactivity detection assay measuring equilibrium dissociation constant [KD] to determine competitive binding of a cell-lysate-MHC:ligand complex
def: "A radioactivity detection assay that measures equilibrium dissociation constant (KD) to detect the loss of binding of a known reference ligand to cell-lysate-MHC due to competition by the ligand under investigation." []
synonym: "dissociation constant KD|lysate MHC/competitive/radioactivity|nM" EXACT []
is_a: OBI:0001491 ! binding assay using radioactivity detection
is_a: OBI:0001988 ! assay measuring the dissociation constant [KD] of a MHC:ligand complex

[Term]
id: OBI:0001545
name: intracellular cytokine staining assay measuring epitope specific macrophage inflammatory protein-1 alpha production by T cells
def: "A flow cytometry assay that detects macrophage inflammatory protein-1 alpha production by T cells." []
synonym: "CCL3/MIP-1a release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001333 ! assay measuring epitope specific macrophage inflammatory protein-1 alpha production by T cells

[Term]
id: OBI:0001546
name: comparative phenotypic assessment
def: "Interpreting data from assays that evaluate the qualities or dispositions inhering in an organism or organism part and comparing it to data from other organisms to make a conclusion about a phenotypic difference" []
is_a: OBI:0000338 ! drawing a conclusion based on data
is_a: OBI:0001834 ! drawing a conclusion

[Term]
id: OBI:0001547
name: material analysis service
def: "A service in which a service consumer provides some input material and a service provider performs some analysis of this material to generate data that is returned to the service consumer." []
is_a: OBI:0001528 ! material service

[Term]
id: OBI:0001548
name: equilibrium association constant (KA)
def: "A binding constant defined as the ratio of koff over kon (off-rate of binding divided by on-rate)" []
is_a: OBI:0001144 ! binding constant

[Term]
id: OBI:0001549
name: radioactivity detection assay measuring equilibrium dissociation constant [KD] to determine competitive binding of a cell-bound-MHC:ligand complex
def: "A radioactivity detection assay that measures equilibrium dissociation constant (KD) to detect the loss of binding of a known reference ligand to cell-bound-MHC due to competition by the ligand under investigation." []
synonym: "dissociation constant KD|cellular MHC/competitive/radioactivity|nM" EXACT []
is_a: OBI:0001491 ! binding assay using radioactivity detection
is_a: OBI:0001988 ! assay measuring the dissociation constant [KD] of a MHC:ligand complex

[Term]
id: OBI:0001550
name: assay measuring binding of a cell-bound-MHC:ligand complex
def: "A qualitative binding assay that detects the binding of a cell-bound-MHC molecule with a ligand." []
synonym: "qualitative binding|cellular MHC" EXACT []
is_a: OBI:0002072 ! assay measuring qualitative binding of a MHC:ligand complex

[Term]
id: OBI:0001551
name: access service
def: "A service in which a service consumer receives the right to use a resource (instrument, database, software, etc) that is owned or managed by a service provider.  Ownership of the accessed resource remains with the service provider during and after provision of service." []
is_a: OBI:0001173 ! service

[Term]
id: OBI:0001552
name: intracellular cytokine staining assay measuring epitope specific tumor necrosis factor (ligand) superfamily member 11 production by T cells
def: "A flow cytometry assay that detects tumor necrosis factor (ligand) superfamily member 11 production by T cells." []
synonym: "TNFSF11/RANKL release|ICS" EXACT []
is_a: OBI:0001385 ! intracellular cytokine staining assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells
is_a: OBI:0001607 ! assay measuring epitope specific tumor necrosis factor (ligand) superfamily member 11 production by T cells

[Term]
id: OBI:0001553
name: assay measuring a binding constant of a MHC:ligand complex
def: "A MHC:ligand binding assay that measures a binding constant." []
synonym: "binding constant|binding assay" EXACT []
is_a: OBI:0003145 ! assay measuring quantitative binding of a MHC:ligand complex

[Term]
id: OBI:0001554
name: rate measurement datum
def: "A scalar measurement datum that represents the number of events occuring over a time interval" []
is_a: IAO:0000032 ! scalar measurement datum

[Term]
id: OBI:0001555
name: assay measuring binding of a purified-MHC:ligand complex
def: "A qualitative binding assay that detects the binding of a purified-MHC molecule with a ligand." []
synonym: "qualitative binding|purified MHC" EXACT []
is_a: OBI:0002072 ! assay measuring qualitative binding of a MHC:ligand complex

[Term]
id: OBI:0001556
name: radioactivity detection assay measuring direct binding of a cell-lysate-MHC:ligand complex
def: "A radioactivity detection assay that detects direct binding of a cell-lysate-MHC molecule with a ligand." []
synonym: "qualitative binding|lysate MHC/direct/radioactivity" EXACT []
is_a: OBI:0001491 ! binding assay using radioactivity detection
is_a: OBI:0001579 ! assay measuring binding of a cell-lysate-MHC:ligand complex

[Term]
id: OBI:0001557
name: material storage service
def: "A storage service in which a service consumer provides some material as input which a service provider stores and returns as output." []
is_a: OBI:0001515 ! material maintenance service

[Term]
id: OBI:0001558
name: radioactivity detection assay measuring half life to determine direct binding of a cell-bound-MHC:ligand complex
def: "A radioactivity detection assay that measures half life to detect the direct binding of a cell-bound-MHC molecule with a ligand." []
synonym: "half life|cellular MHC/direct/radioactivity|min" EXACT []
is_a: OBI:0001491 ! binding assay using radioactivity detection
is_a: OBI:0001990 ! assay measuring the half life of a MHC:ligand complex

[Term]
id: OBI:0001559
name: fluorescence detection assay measuring half life to determine direct binding of a cell-bound-MHC:ligand complex
def: "A fluorescence detection assay that measures half life to detect the direct binding of a cell-bound-MHC molecule with a ligand." []
synonym: "half life|cellular MHC/direct/fluorescence|min" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0001990 ! assay measuring the half life of a MHC:ligand complex

[Term]
id: OBI:0001560
name: obsolete cell lysate MHC binding constant determination assay
def: "An assay that measures the affinity of a ligand to a MHC in a cell lysate preparation and that quantifies the affinity with a binding constant." []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0001561
name: fluorescence detection assay measuring half maximal effective concentration [EC50] to determine direct binding of a cell-bound-MHC:ligand complex
def: "A fluorescence detection assay that measures half maximal effective concentration (EC50) to detect direct binding of a cell-bound-MHC molecule with a ligand." []
synonym: "half maximal effective concentration (EC50)|cellular MHC/direct/fluorescence|nM" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0001991 ! assay measuring the half maximal effective concentration [EC50] of a MHC:ligand complex

[Term]
id: OBI:0001562
name: intracellular cytokine staining assay measuring epitope specific interleukin-17F production by T cells
def: "A flow cytometry assay that detects interleukin-17F production by T cells." []
synonym: "IL-17F release|ICS" EXACT []
is_a: OBI:0001772 ! assay measuring epitope specific interleukin-17F production by T cells
is_a: OBI:1110178 ! intracellular cytokine staining assay measuring epitope specific interleukin-17 production by T cells

[Term]
id: OBI:0001563
name: material processing service
def: "A service in which a service provider makes physical changes to a specified input material entity with the objective of producing a new material entity form input materials, or modifying the input material entity, and returning this as output to the service consumer." []
is_a: OBI:0001528 ! material service

[Term]
id: OBI:0001564
name: radioactivity detection assay measuring equilibrium dissociation constant [KD] to determine competitive binding of a purified-MHC:ligand complex approximated by IC50
def: "A radioactivity detection assay that measures equilibrium dissociation constant (KD) to detect the loss of binding of a known reference ligand to purified-MHC due to competition by the ligand under investigation and provides IC50 values determined under assay conditions where the IC50 approximates a KD value." []
synonym: "dissociation constant KD (~IC50)|purified MHC/competitive/radioactivity|nM" EXACT []
is_a: OBI:0001568 ! radioactivity detection assay measuring half maximal inhibitory concentration [IC50] to determine competitive binding of a purified-MHC:ligand complex
is_a: OBI:0001989 ! radioactivity detection assay measuring equilibrium dissociation constant [KD] to determine competitive binding of a purified-MHC:ligand complex

[Term]
id: OBI:0001565
name: radioactivity detection assay measuring half life to determine direct binding of a cell-lysate-MHC:ligand complex
def: "A radioactivity detection assay that measures half life to detect the direct binding of a cell-lysate-MHC molecule with a ligand." []
synonym: "half life|lysate MHC/direct/radioactivity|min" EXACT []
is_a: OBI:0001491 ! binding assay using radioactivity detection
is_a: OBI:0001990 ! assay measuring the half life of a MHC:ligand complex

[Term]
id: OBI:0001566
name: 50% dissociation of binding temperature (Tm)
def: "A quantitative binding datum that specifies the temperature at which half of the binding partners are forming a complex and the other half are unbound." []
synonym: "melting temperature (Tm)" EXACT []
is_a: OBI:0003142 ! quantitative binding datum

[Term]
id: OBI:0001567
name: radioactivity detection assay measuring binding off rate [koff] to determine direct binding of a cell-lysate-MHC:ligand complex
def: "A radioactivity detection assay that measures binding off rate [koff] to detect direct binding of a cell-lysate-MHC molecule with a ligand." []
synonym: "off rate|lysate MHC/direct/radioactivity|1/s" EXACT []
is_a: OBI:0001491 ! binding assay using radioactivity detection
is_a: OBI:0001993 ! assay measuring the off rate measurement [koff] of a MHC:ligand complex

[Term]
id: OBI:0001568
name: radioactivity detection assay measuring half maximal inhibitory concentration [IC50] to determine competitive binding of a purified-MHC:ligand complex
def: "A radioactivity detection assay that measures half maximal inhibitory concentration (IC50) to detect the loss of binding of a known reference ligand to purified-MHC due to competition by the ligand under investigation." []
synonym: "half maximal inhibitory concentration (IC50)|purified MHC/competitive/radioactivity|nM" EXACT []
is_a: OBI:0001491 ! binding assay using radioactivity detection
is_a: OBI:0001992 ! assay measuring the half maximal inhibitory concentration [IC50] of a MHC:ligand complex

[Term]
id: OBI:0001569
name: fluorescence detection assay measuring binding off rate [koff] to determine direct binding of a purified-MHC:ligand complex
def: "A fluorescence detection assay that measures binding off rate [koff] to detect direct binding of a purified-MHC molecule with a ligand." []
synonym: "off rate|purified MHC/direct/fluorescence|1/s" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0001993 ! assay measuring the off rate measurement [koff] of a MHC:ligand complex

[Term]
id: OBI:0001570
name: assay measuring epitope specific vascular endothelial growth factor production by T cells
def: "A T cell epitope specific cytokine production assay that detects vascular endothelial growth factor production by T cells." []
synonym: "VEGF release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001571
name: equilibrium dissociation constant (KD) approximated by IC50
def: "A measurement of an IC50 value under specific assay conditions approximates KD, namely the binding reaction is at an equilibrium, there is a single population of sites on the receptor that competitor and ligand are binding to, and the concentration of the receptor must be much less than the KD for the competitor and the ligand.  In this case, according to Cheng and Prussoff, KD = IC50 / (1 + Lstot / KDs), in which Lstot is the total concentration of the labeled competitor and KDs is the KD value of that competitor." []
is_a: OBI:0001536 ! equilibrium dissociation constant (KD)
is_a: OBI:0003144 ! IC50 binding datum

[Term]
id: OBI:0001572
name: obsolete cell bound MHC binding constant determination assay
def: "An assay that measures the affinity of a ligand to MHC moleculs bound to the cell surface and that quantifies the affinity with a binding constant." []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0001573
name: DNA sequence data
def: "A sequence data item that is about the primary structure of DNA" []
is_a: OBI:0000973 ! sequence data

[Term]
id: OBI:0001574
name: obsolete cell lysate MHC competitive binding assay using radioactivity detection
def: "competitive inhibition of binding assay measuring MHC ligand binding by radioactivity detection using MHC derived from a cell lysate" []
synonym: "cell lysate MHC competitive binding using radioactivity" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: OBI:0001544

[Term]
id: OBI:0001575
name: assigning gene property based on phenotypic assessment
def: "Interpreting data from assays that evaluate the qualities or dispositions inhering in an organism or organism part and comparing it to data from other organisms that have a defined genetic difference, and assigning a property to the product of the targeted gene as a result." []
is_a: OBI:0000338 ! drawing a conclusion based on data

[Term]
id: OBI:0001576
name: obsolete purified MHC binding constant determination assay
def: "An assay that measures the affinity of a ligand to a purified MHC complex preparation and that quantifies the affinity with a binding constant." []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0001577
name: cytometric bead array assay measuring epitope specific intracellular cytokine staining (ICS) IL-22 production by T cells
def: "A cytometric bead array assay that detects interleukin-22 production by T cells." []
synonym: "IL-22 release|cytometric bead array" EXACT []
is_a: OBI:0001217 ! assay measuring epitope specific interleukin-22 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001578
name: ELISA measuring epitope specific vascular endothelial growth factor production by T cells
def: "An enzyme-linked immunosorbent assay that detects vascular endothelial growth factor production by T cells." []
synonym: "VEGF release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001570 ! assay measuring epitope specific vascular endothelial growth factor production by T cells

[Term]
id: OBI:0001579
name: assay measuring binding of a cell-lysate-MHC:ligand complex
def: "A qualitative binding assay that detects the binding of a cell-lysate-MHC molecule with a ligand." []
synonym: "qualitative binding|lysate MHC" EXACT []
is_a: OBI:0002072 ! assay measuring qualitative binding of a MHC:ligand complex

[Term]
id: OBI:0001580
name: material transport service
def: "A service in which a service provider facilitates the transport of some material entity to a specified destination for the service consumer." []
is_a: OBI:0001528 ! material service

[Term]
id: OBI:0001581
name: equilibrium dissociation constant (KD) approximated by EC50
def: "A measurement of an EC50 value under specific assay conditions approximates KD, namely the binding reaction is at an equilibrium,  and the concentration of the receptor must be much less than the KD for the ligand." []
is_a: OBI:0001536 ! equilibrium dissociation constant (KD)
is_a: OBI:0003143 ! EC50 binding datum

[Term]
id: OBI:0001582
name: obsolete cell bound MHC direct binding assay
def: "direct binding assay measuring MHC ligand binding using MHC derived from a cell" []
synonym: "cell bound MHC direct binding" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0001583
name: half life of binding datum
def: "A half life datum of the time it takes for 50% of bound complexes in an ensemble to disassociate in absence of re-association." []
is_a: OBI:0001144 ! binding constant
is_a: OBI:0001171 ! half life datum (t 1/2)

[Term]
id: OBI:0001584
name: phage display binding assay measuring binding of a purified-MHC:ligand complex
def: "A phage display binding assay that detects direct binding of a purified-MHC molecule with a ligand." []
synonym: "qualitative binding|purified MHC/direct/phage display" EXACT []
is_a: OBI:0001476 ! phage display binding assay
is_a: OBI:0001555 ! assay measuring binding of a purified-MHC:ligand complex

[Term]
id: OBI:0001585
name: cytometric bead array assay measuring epitope specific interleukin-7 production by T cells
def: "A cytometric bead array assay that detects interleukin-7 production by T cells." []
synonym: "IL-7 release|cytometric bead array" EXACT []
is_a: OBI:0001587 ! assay measuring epitope specific interleukin-7 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001586
name: radioactivity detection assay measuring half life to determine direct binding of a purified-MHC:ligand complex
def: "A radioactivity detection assay that measures half life to detect the direct binding of a purified-MHC molecule with a ligand." []
synonym: "half life|purified MHC/direct/radioactivity|min" EXACT []
is_a: OBI:0001491 ! binding assay using radioactivity detection
is_a: OBI:0001990 ! assay measuring the half life of a MHC:ligand complex

[Term]
id: OBI:0001587
name: assay measuring epitope specific interleukin-7 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-7 production by T cells." []
synonym: "IL-7 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001588
name: binding
def: "The process of material entities forming complexes." []
is_a: GO:0008150 ! biological_process

[Term]
id: OBI:0001589
name: intracellular cytokine staining assay measuring epitope specific interleukin-17A production by T cells
def: "A flow cytometry assay that detects interleukin-17A production by T cells." []
synonym: "IL-17A release|ICS" EXACT []
is_a: OBI:0001773 ! assay measuring epitope specific interleukin-17A production by T cells
is_a: OBI:1110178 ! intracellular cytokine staining assay measuring epitope specific interleukin-17 production by T cells

[Term]
id: OBI:0001590
name: fluorescence detection assay measuring direct binding of a purified-MHC:ligand complex
def: "A fluorescence detection assay that detects direct binding of a purified-MHC molecule with a ligand." []
synonym: "qualitative binding|purified MHC/direct/fluorescence" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0001555 ! assay measuring binding of a purified-MHC:ligand complex

[Term]
id: OBI:0001591
name: direct binding assay
def: "A binding assay that measures the formation or disassociation of a complex of 2 material entities directly without use of a competitve ligand." []
is_a: OBI:0001146 ! binding assay

[Term]
id: OBI:0001592
name: fluorescence detection assay measuring half maximal effective concentration [EC50] to determine direct binding of a purified-MHC:ligand complex
def: "A fluorescence detection assay that measures half maximal effective concentration (EC50) to detect direct binding of a purified-MHC molecule with a ligand." []
synonym: "half maximal effective concentration (EC50)|purified MHC/direct/fluorescence|nM" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0001991 ! assay measuring the half maximal effective concentration [EC50] of a MHC:ligand complex

[Term]
id: OBI:0001593
name: competitive inhibition of binding assay
def: "A binding assay that detects the inhibition of binding between 2 material entities known to form a complex by the addition of a third material entity of interest. Inhibition of binding between the 2 materials reflects binding by the third material." []
is_a: OBI:0001146 ! binding assay

[Term]
id: OBI:0001594
name: fluorescence detection assay measuring competitive binding of a cell-bound-MHC:ligand complex
def: "A fluorescence detection assay that detects loss of binding of a known reference ligand to cell-bound-MHC due to competition by the ligand under investigation." []
synonym: "qualitative binding|cellular MHC/competitive/fluorescence" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0001550 ! assay measuring binding of a cell-bound-MHC:ligand complex

[Term]
id: OBI:0001595
name: X-ray crystallography assay determining the 3D structure of a MHC:ligand complex
def: "A X-ray crystallography 3D molecular structure determination assay that characterizes the 3-dimensional molecular structure of a MHC:ligand complex." []
synonym: "3D structure|x-ray crystallography|angstroms" EXACT []
is_a: OBI:0000912 ! X-ray crystallography 3D molecular structure determination assay
is_a: OBI:0002050 ! 3D molecular structure determination assay of a MHC:ligand complex

[Term]
id: OBI:0001596
name: PDB file chain
def: "A 3D structural organization datum that is part of a PDB file and has a specific chain identifier that identifies the entire information on a subset of the material entities." []
is_a: OBI:0001155 ! 3D structural organization datum

[Term]
id: OBI:0001597
name: cell bound MHC competitive binding assay measuring half maximal inhibitory concentration [IC50] of a MHC:ligand complex using T cell epitope recognition
def: "A cell bound MHC ligand binding half maximal inhibitory concentration (IC50) determination assay that uses a T cell epitope recognition assay to measure ligand binding." []
synonym: "half maximal inhibitory concentration (IC50)|cellular MHC/T cell inhibition|nM" EXACT []
is_a: OBI:0001992 ! assay measuring the half maximal inhibitory concentration [IC50] of a MHC:ligand complex

[Term]
id: OBI:0001598
name: data maintenance service
def: "A maintenance service in which a service provider actively manages or maintains data or a database for the service consumer.  Maintenance of the data is performed to maintain its integrity or enhance its quality or utility for the consumer, but new data is not generated as a result of the maintenance." []
is_a: OBI:0001530 ! data service

[Term]
id: OBI:0001599
name: radioactivity detection assay measuring competitive binding of a cell-bound-MHC:ligand complex
def: "A radioactivity detection assay that detects loss of binding of a known reference ligand to cell-bound-MHC due to competition by the ligand under investigation." []
synonym: "qualitative binding|cellular MHC/competitive/radioactivity" EXACT []
is_a: OBI:0001491 ! binding assay using radioactivity detection
is_a: OBI:0001550 ! assay measuring binding of a cell-bound-MHC:ligand complex

[Term]
id: OBI:0001600
name: assay measuring epitope specific granulocyte colony stimulating factor production by T cells
def: "A T cell epitope specific cytokine production assay that detects granulocyte colony stimulating factor production by T cells." []
synonym: "G-CSF release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001601
name: cytometric bead array assay measuring epitope specific intracellular cytokine staining (ICS) IL-21 production by T cells
def: "A cytometric bead array assay that detects interleukin-21 production by T cells." []
synonym: "IL-21 release|cytometric bead array" EXACT []
is_a: OBI:0001237 ! assay measuring epitope specific interleukin-21 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001602
name: radioactivity detection assay measuring direct binding of a cell-bound-MHC:ligand complex
def: "A radioactivity detection assay that detects direct binding of a cell-bound-MHC molecule with a ligand." []
synonym: "qualitative binding|cellular MHC/direct/radioactivity" EXACT []
is_a: OBI:0001491 ! binding assay using radioactivity detection
is_a: OBI:0001550 ! assay measuring binding of a cell-bound-MHC:ligand complex

[Term]
id: OBI:0001603
name: binding off rate measurement datum (koff)
def: "A rate measurement datum of how quickly bound complexes disassociate" []
is_a: OBI:0001144 ! binding constant
is_a: OBI:0001554 ! rate measurement datum

[Term]
id: OBI:0001604
name: fluorescence detection assay measuring 50% dissociation of binding temperature [Tm] of a purified-MHC:ligand complex
def: "A fluorescence detection assay that measures the 50% dissociation of binding temperature of a purified-MHC molecule with a ligand." []
synonym: "50% dissociation temperature|purified MHC/direct/fluorescence|°C" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0003145 ! assay measuring quantitative binding of a MHC:ligand complex

[Term]
id: OBI:0001605
name: binding on rate measurement datum (kon)
def: "A rate measurement datum of how quickly bound complexes form" []
is_a: OBI:0001144 ! binding constant
is_a: OBI:0001554 ! rate measurement datum

[Term]
id: OBI:0001606
name: fluorescence detection assay measuring direct binding of a cell-bound-MHC:ligand complex
def: "A fluorescence detection assay that detects direct binding of a cell-bound-MHC molecule with a ligand." []
synonym: "qualitative binding|cellular MHC/direct/fluorescence" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0001550 ! assay measuring binding of a cell-bound-MHC:ligand complex

[Term]
id: OBI:0001607
name: assay measuring epitope specific tumor necrosis factor (ligand) superfamily member 11 production by T cells
def: "An assay of epitope specific tumor necrosis factor (ligand) superfamily member 11 production by T cells that detects tumor necrosis factor production." []
synonym: "TNFSF11/RANKL release|biological activity" EXACT []
is_a: OBI:0001400 ! assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells

[Term]
id: OBI:0001608
name: radioactivity detection assay measuring direct binding of a purified-MHC:ligand complex
def: "A radioactivity detection assay that detects direct binding of a purified-MHC molecule with a ligand." []
synonym: "qualitative binding|purified MHC/direct/radioactivity" EXACT []
is_a: OBI:0001491 ! binding assay using radioactivity detection
is_a: OBI:0001555 ! assay measuring binding of a purified-MHC:ligand complex

[Term]
id: OBI:0001609
name: intracellular cytokine staining assay measuring epitope specific interleukin-8 production by T cells
def: "A flow cytometry assay that detects interleukin-8 production by T cells." []
synonym: "IL-8 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001218 ! assay measuring epitope specific interleukin-8 production by T cells

[Term]
id: OBI:0001610
name: cytometric bead array assay measuring epitope specific intracellular cytokine staining (ICS) IL-23 production by T cells
def: "A cytometric bead array assay that detects interleukin-23 production by T cells." []
synonym: "IL-23 release|cytometric bead array" EXACT []
is_a: OBI:0001363 ! assay measuring epitope specific interleukin-23 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001611
name: obsolete purified MHC direct binding assay
def: "direct binding assay measuring MHC ligand binding using MHC derived from a purified MHC molecule preparation" []
synonym: "purified MHC direct binding" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0001612
name: epitope specific vascular endothelial growth factor production by T cells
def: "A process of vascular endothelial growth factor production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0010573 ! vascular endothelial growth factor production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001613
name: fluorescence detection assay measuring half maximal inhibitory concentration [IC50] to determine competitive binding of a purified-MHC:ligand complex
def: "A fluorescence detection assay that measures half maximal inhibitory concentration (IC50) to detect the loss of binding of a known reference ligand to purified-MHC due to competition by the ligand under investigation." []
synonym: "half maximal inhibitory concentration (IC50)|purified MHC/competitive/fluorescence|nM" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0001992 ! assay measuring the half maximal inhibitory concentration [IC50] of a MHC:ligand complex

[Term]
id: OBI:0001614
name: GenBank ID
def: "A CRID symbol uniquely indentifies the submitted GeneBank sequence record." []
synonym: "GenBank Record ID" EXACT []
is_a: IAO:0000577 ! centrally registered identifier symbol

[Term]
id: OBI:0001615
name: investigation description
def: "A textual entity that describes an investigation." []
synonym: "project description" EXACT []
synonym: "study description" EXACT []
is_a: OBI:0001898 ! comment on investigation

[Term]
id: OBI:0001616
name: specimen identifier
def: "A CRID symbol denotes a specimen and used to distinguish one specimen from another in an investigation." []
synonym: "Specimen ID" EXACT []
synonym: "specimen ID" EXACT []
is_a: IAO:0000577 ! centrally registered identifier symbol

[Term]
id: OBI:0001617
name: PubMed ID
def: "A CRID symbol that is sufficient to look up a citation from the PubMed, a literature database of life sciences and biomedical information." []
synonym: "PMID" EXACT []
synonym: "Publication Citation" EXACT []
synonym: "PubMed Identifier" EXACT []
is_a: IAO:0000577 ! centrally registered identifier symbol

[Term]
id: OBI:0001618
name: average depth of sequence coverage
def: "An average value of the depth of sequence coverage based both on external (e.g. Cot-based size estimates) and internal (average coverage in the assembly) measures of genome size." []
synonym: "Depth of Coverage - Average" EXACT []
is_a: OBI:0000679 ! average value

[Term]
id: OBI:0001619
name: specimen collection time measurement datum
def: "A time measurement datum that is the measure of the time when the specimens are collected." []
synonym: "collection date" EXACT []
synonym: "Specimen Collection Date" EXACT []
is_a: IAO:0000416 ! time measurement datum

[Term]
id: OBI:0001620
name: latitude coordinate measurement datum
def: "A measurement datum that is the measure of the latitude coordinate of a site." []
synonym: "latitude" EXACT []
synonym: "Specimen Collection Location - Latitude" EXACT []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0001621
name: longitude coordinate measurement datum
def: "A measurement datum that is the measure of the longitude coordinate of a site." []
synonym: "longitude" EXACT []
synonym: "Specimen Collection Location - Longitude" EXACT []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0001622
name: investigation title
def: "A textual entity that denotes an investigation." []
synonym: "project title" EXACT []
synonym: "study title" EXACT []
is_a: OBI:0001898 ! comment on investigation

[Term]
id: OBI:0001623
name: organism species detection objective
def: "A biological feature identification objective to identify the organism species in a specimen." []
is_a: OBI:0000015 ! biological feature identification objective

[Term]
id: OBI:0001624
name: organism species detection assay
def: "An organism detection assay that identifies the organism species in a specimen." []
synonym: "organism identification assay" EXACT []
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0001625
name: sequence annotation algorithm
def: "An algorithm used to identify sequence features (e.g. protein coding regions) in the assembled contig sequence.  This may also include a description of any manual curation that may have generated or validated the annotation." []
synonym: "Annotation Algorithm" EXACT []
is_a: IAO:0000064 ! algorithm

[Term]
id: OBI:0001626
name: Bioinformatics Resource Center
def: "An organization that  is one of the Internet-based research centers established and funded by NIAID (the National Institute of Allergy and Infectious Diseases). The Bioinformatics Resource Centers (BRCs) were formed in response to the threats posed by emerging and re-emerging pathogens, particularly CDC Category A, B, and C pathogens, and their potential use in bioterrorism. The intention of NIAID in funding these bioinformatics centers is to assist researchers involved in the experimental characterization of such pathogens and the formation of drugs, vaccines, or diagnostic tools to combat them." []
synonym: "BRC" EXACT []
is_a: OBI:0000245 ! organization

[Term]
id: OBI:0001627
name: country name
def: "A textual entity that denotes a geographic location that is a site or part of a site that is identified as a country in the political geography." []
synonym: "Specimen Collection Location - Country" EXACT []
is_a: IAO:0000300 ! textual entity

[Term]
id: OBI:0001628
name: investigation identifier
def: "A CRID symbol used to identify an investigation." []
synonym: "project ID" EXACT []
is_a: IAO:0000577 ! centrally registered identifier symbol

[Term]
id: OBI:0001629
name: grant identifier
def: "A CRID symbol used to identify a grant." []
synonym: "grant ID" EXACT []
is_a: IAO:0000577 ! centrally registered identifier symbol

[Term]
id: OBI:0001630
name: analytical chromatography
def: "An analyte assay that uses a biomaterial's preferential affinity for either the mobile phase or the stationary phase to separate it from other materials and thereby detect its presence in an input material." []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0001631
name: electron microscopy imaging assay
def: "An imaging assay in which an electrons are used to probe the density, shape and composition of an input material which are detected in an electron microscope and utilized to produce an image of the material." []
is_a: OBI:0002119 ! microscopy assay

[Term]
id: OBI:0001632
name: immuno staining assay
def: "A assay detecting a molecular label assay in which the label is attached to an antibody so that substances are marked based on the antibody's binding specificity." []
is_a: OBI:0600017 ! assay detecting a molecular label

[Term]
id: OBI:0001633
name: purified material
def: "A material entity that is generated by a purification process in which an input material is separated to obtain a fraction with a higher concentration of a desired component" []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0001634
name: calorimetric binding assay
def: "A binding assay in which the heat generated or absorbed during a binding event is measured, which allows determination of binding constants, reaction stoichiometry, enthalpy and entropy." []
is_a: OBI:0001146 ! binding assay

[Term]
id: OBI:0001635
name: antibody binding detection by fluorescence quenching
def: "A binding assay in which affinity is measured by detecting a change in fluorescence (usually quenching) that occurs upon binding of the antibody to the ligand. The fluorescent signal that is affected by binding is either from an exogenous fluorophore attached to the ligand, or is the intrisic fluorescence of aromatic (tryptophan) residues on the binding site of the antibody (no conjugated fluorophore necessary) or, less commonly, on the ligand binding region (epitope)." []
is_a: OBI:0001979 ! fluorescence quenching binding assay

[Term]
id: OBI:0001636
name: grant
def: "A plan specification of organization A to give money to organization B so that B conducts investigations. Organization A has funder role and Organization B has research organization role." []
is_a: IAO:0000104 ! plan specification

[Term]
id: OBI:0001638
name: antigen inhibition assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex approximated by IC50
def: "A B cell epitope equilibrium dissociation constant (KD) assay that provides IC50 values determined under assay conditions where the IC50 approximates a KD value using a B cell epitope antigen inhibition of binding assay." []
synonym: "dissociation constant KD|inhibition by antigen (~ IC50)|nM" EXACT []
is_a: OBI:0001708 ! assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex

[Term]
id: OBI:0001639
name: assay measuring epitope specific Ig-mediated histamine release
def: "A B cell epitope specific activation of additional immune response assay that detects histamine release in vitro." []
synonym: "histamine release|biological activity" EXACT []
is_a: OBI:0001704 ! assay measuring epitope specific activation of additional immune response in vitro

[Term]
id: OBI:0001640
name: assay measuring epitope specific immunoglobulin-mediated antigen activation
def: "A B cell epitope dependent biological activity determination assay that detects antigen activation." []
synonym: "antigen activation|biological activity" EXACT []
is_a: OBI:0001706 ! assay measuring biological activity resulting from B cell epitope:antibody binding

[Term]
id: OBI:0001641
name: assay measuring epitope specific complement-dependent cytotoxicity
def: "A B cell epitope specific activation of additional immune response assay that detects complement-dependent cytotoxicity in vitro ." []
synonym: "complement-dependent cytotoxicity|biological activity" EXACT []
is_a: OBI:0001704 ! assay measuring epitope specific activation of additional immune response in vitro

[Term]
id: OBI:0001642
name: assay measuring epitope specific antibody-dependent cellular cytotoxicity
def: "A B cell epitope specific activation of additional immune response assay that detects antibody-dependent cellular cytotoxicity in vitro." []
synonym: "antibody-dependent cellular cytotoxicity|biological activity" EXACT []
is_a: OBI:0001704 ! assay measuring epitope specific activation of additional immune response in vitro

[Term]
id: OBI:0001643
name: assay measuring epitope specific immunoglobulin-mediated neutralization
def: "A B cell epitope dependent biological activity determination assay that detects neutralization of the antigen." []
synonym: "neutralization |biological activity" EXACT []
is_a: OBI:0001706 ! assay measuring biological activity resulting from B cell epitope:antibody binding

[Term]
id: OBI:0001644
name: assay measuring epitope specific opsonization
def: "A B cell epitope specific activation of additional immune response assay that detects opsonization in vitro ." []
synonym: "opsonization|biological activity" EXACT []
is_a: OBI:0001704 ! assay measuring epitope specific activation of additional immune response in vitro

[Term]
id: OBI:0001645
name: calorimetry assay measuring binding of a B cell epitope:antibody complex
def: "A calorimetric binding assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|calorimetry" EXACT []
is_a: OBI:0001634 ! calorimetric binding assay
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex

[Term]
id: OBI:0001646
name: electron microscopy assay determining the 3D structure of a B cell epitope:antibody complex
def: "An electron-microscopy 3D molecular structure determination assay that characterizes the 3-dimensional molecular structrue of a B cell epitope:antibody complex" []
synonym: "3D structure|electron microscopy" EXACT []
is_a: OBI:0001721 ! 3D molecular structure determination assay of an antigen:antibody complex
is_a: OBI:0003118 ! electron-microscopy 3D molecular structure determination assay

[Term]
id: OBI:0001647
name: NMR assay determining the 3D structure of a B cell epitope:antibody complex
def: "A nuclear magnetic resonance 3D molecular structure determination assay that characterizes the 3-dimensional structure of a B cell epitope:antibody complex." []
synonym: "3D structure|nuclear magnetic resonance (NMR)" EXACT []
is_a: OBI:0000182 ! NMR 3D molecular structure determination assay
is_a: OBI:0001721 ! 3D molecular structure determination assay of an antigen:antibody complex

[Term]
id: OBI:0001648
name: cross blocking assay measuring binding of a B cell epitope:antibody complex
def: "A cross-blocking assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|cross blocking" EXACT []
is_a: OBI:0001699 ! antibody cross-blocking assay
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex

[Term]
id: OBI:0001649
name: RIA measuring binding of a B cell epitope:antibody complex
def: "A radio immuno assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|radio immuno assay (RIA)" EXACT []
is_a: OBI:0000910 ! radio immuno assay
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex

[Term]
id: OBI:0001650
name: immunoblot assay measuring binding of a B cell epitope:antibody complex
def: "An immunoblot assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|western blot" EXACT []
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex
is_a: OBI:0001978 ! immunoblot assay

[Term]
id: OBI:0001651
name: plasmon resonance assay measuring binding of a B cell epitope:antibody complex
def: "A surface plasmon resonance binding assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|surface plasmon resonance (SPR)" EXACT []
is_a: OBI:0000923 ! surface plasmon resonance binding assay
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex

[Term]
id: OBI:0001652
name: immuno staining assay measuring binding of a B cell epitope:antibody complex
def: "An immuno staining assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|immuno staining" EXACT []
is_a: OBI:0001632 ! immuno staining assay
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex

[Term]
id: OBI:0001653
name: immunoprecipitation assay measuring binding of a B cell epitope:antibody complex
def: "An immunoprecipitation assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|immunoprecipitation" EXACT []
is_a: OBI:0001700 ! immunoprecipitation assay
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex

[Term]
id: OBI:0001654
name: mass spectrometry assay measuring binding of a B cell epitope:antibody complex
def: "A mass spectrometry assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|mass spectrometry" EXACT []
is_a: OBI:0000470 ! mass spectrometry assay
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex

[Term]
id: OBI:0001655
name: phage display assay measuring binding of a B cell epitope:antibody complex
def: "A phage display binding assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|phage display" EXACT []
is_a: OBI:0001476 ! phage display binding assay
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex

[Term]
id: OBI:0001656
name: electron microscopy assay measuring binding of a B cell epitope:antibody complex
def: "An electron microscopy imaging assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|electron microscopy" EXACT []
is_a: OBI:0001631 ! electron microscopy imaging assay
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex

[Term]
id: OBI:0001657
name: ELISA measuring binding of a B cell epitope:antibody complex
def: "An enzyme-linked immunosorbent assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex

[Term]
id: OBI:0001658
name: ELISPOT assay measuring binding of a B cell epitope:antibody complex
def: "An enzyme-linked immunospot assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|ELISPOT" EXACT []
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001659
name: flow cytometry assay measuring binding of a B cell epitope:antibody complex
def: "A flow cytometry assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|flow cytometry" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex

[Term]
id: OBI:0001660
name: intracellular material detection assay measuring epitope specific granzyme A release by T cells
def: "A flow cytometry assay that detects epitope specific granzyme A release by T cells." []
synonym: "granzyme A release|intracellular staining" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001809 ! assay measuring epitope specific granzyme A release by T cells

[Term]
id: OBI:0001661
name: chromatography assay measuring binding of a B cell epitope:antibody complex
def: "An analytical chromatography assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|chromatography" EXACT []
is_a: OBI:0001630 ! analytical chromatography
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex

[Term]
id: OBI:0001662
name: NMR assay measuring binding of a B cell epitope:antibody complex
def: "A B cell epitope qualitative binding to antibody assay that uses a nuclear magnetic resonance assay." []
synonym: "qualitative binding|nuclear magnetic resonance (NMR)" EXACT []
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex

[Term]
id: OBI:0001663
name: ELISA measuring epitope specific granulysin release by T cells
def: "An enzyme-linked immunosorbent assay that detects epitope specific granulysin release by T cells." []
synonym: "granulysin release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001810 ! assay measuring epitope specific granulysin release by T cells

[Term]
id: OBI:0001664
name: intracellular material detection assay measuring epitope specific granulysin release by T cells
def: "A flow cytometry assay that detects epitope specific granulysin release by T cells." []
synonym: "granulysin release|intracellular staining" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001810 ! assay measuring epitope specific granulysin release by T cells

[Term]
id: OBI:0001665
name: fluorescence detection assay measuring binding off rate [koff] to determine direct binding of a cell-bound-MHC:ligand complex
def: "A fluorescence detection assay that measures binding off rate [koff] to detect direct binding of a cell-bound-MHC molecule with a ligand." []
synonym: "off rate|cellular MHC/direct/fluorescence|1/s" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0001993 ! assay measuring the off rate measurement [koff] of a MHC:ligand complex

[Term]
id: OBI:0001666
name: fluorescence detection assay measuring binding on rate [kon] to determine direct binding of a cell-bound-MHC:ligand complex
def: "A fluorescence detection assay that measures binding on rate (kon) to detect direct binding of a cell-bound-MHC molecule with a ligand." []
synonym: "on rate|cellular MHC/direct/fluorescence|nM^-1s^-1" EXACT []
is_a: OBI:0001499 ! binding assay using fluorescence detection
is_a: OBI:0001994 ! assay measuring the MHC ligand binding on rate [kon] of a MHC:ligand complex

[Term]
id: OBI:0001667
name: fluorescence detection assay measuring equilibrium dissociation constant [KD] to determine competitive binding of a purified-MHC:ligand complex approximated by IC50
def: "A fluorescence detection assay that measures equilibrium dissociation constant (KD) to detect the loss of binding of a known reference ligand to purified-MHC due to competition by the ligand under investigation and provides IC50 values determined under assay conditions where the IC50 approximates a KD value." []
synonym: "dissociation constant KD (~IC50)|purified MHC/competitive/fluorescence|nM" EXACT []
is_a: OBI:0001537 ! fluorescence detection assay measuring equilibrium dissociation constant [KD] to determine competitive binding of a purified-MHC:ligand complex
is_a: OBI:0001613 ! fluorescence detection assay measuring half maximal inhibitory concentration [IC50] to determine competitive binding of a purified-MHC:ligand complex

[Term]
id: OBI:0001668
name: split-ubiquitin assay
def: "A binding assay that screens membrane soluble proteins by fusion of two integral membrane proteins (bait and prey) to two different ubiquitin moieties. One moiety is also fused to a transcription factor (TF) that can be cleaved off by ubiquitin specific proteases. Upon bait and prey interaction, Nub and Cub-moieties assemble, reconstituting the split-ubiquitin. The reconstituted split-ubiquitin molecule is recognized by ubiquitin specific proteases, which cleave off the reporter protein, allowing it to induce the transcription of reporter genes." []
is_a: OBI:0001146 ! binding assay

[Term]
id: OBI:0001669
name: far-western blot assay
def: "An assay that measures protein-protein interactions by separating target proteins on an SDS-PAGE gel, transfering them to a solid substrate, hybridizing with a protein probe and visualizing bound proteins using a probe-directed antibody. This is a adaptation on the western blot assay." []
is_a: OBI:0001146 ! binding assay

[Term]
id: OBI:0001670
name: RNA protection assay
def: "An assay that determines the presence and estimates abundance of transcript species by first creating an homo or heteroduplex by adding a specific, complementary sequence to the sequence of interest and then exposing the mixture of ribonuclease, which will degrade only single stranded molecules. A detection step will reveal if the sample contained a sequence of interest." []
synonym: "RNAse protection assay" EXACT []
synonym: "RPA" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0001671
name: electrophoretic mobility shift assay
def: "An assay that measures information about Protein-DNA or Protein-RNA interactions using gel electrophoresis and relying on the fact the molecular interactions will cause the heterodimer to be retarded on the gel when compared to controls corresponding to protein extract alone and protein extract + neutral nucleic acid." []
synonym: "band shift assay" EXACT []
synonym: "EMSA" EXACT []
synonym: "gel mobility shift assay" EXACT []
synonym: "gel retardation assay" EXACT []
synonym: "gel shift assay" EXACT []
is_a: OBI:0001146 ! binding assay

[Term]
id: OBI:0001672
name: gene knock-down assay
def: "An assay which transiently disrupts gene transcripts by expressing antisense RNA constructs or delivering RNA interfering molecules in cells." []
is_a: OBI:0003587 ! cell culture assay

[Term]
id: OBI:0001673
name: nano-cap analysis of gene expression assay
def: "A transcription profiling assay that is performed using a very low amount (nanogram scale) of mRNA samples using Cap analysis gene expression (CAGE)." []
synonym: "nano-CAGE" EXACT []
is_a: OBI:0000424 ! transcription profiling assay

[Term]
id: OBI:0001674
name: cap analysis of gene expression assay
def: "A transcription profiling assay which measures RNA transcript abundances in biological samples by extracting 5' ends of capped transcripts, RTPCR and sequence those. Copy numbers of CAGE tags provide a way of quantification and provide a measure of expression of the transcriptome" []
synonym: "CAGE" EXACT []
is_a: OBI:0000424 ! transcription profiling assay
is_a: OBI:0002692 ! polymerase chain reaction assay
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0001675
name: ELISA measuring epitope specific interleukin-17A production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-17A production by T cells." []
synonym: "IL-17A release|ELISA" EXACT []
is_a: OBI:0001773 ! assay measuring epitope specific interleukin-17A production by T cells
is_a: OBI:1110162 ! ELISA measuring epitope specific interleukin-17 production by T cells

[Term]
id: OBI:0001676
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-7 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-7 production by T cells." []
synonym: "IL-7 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001587 ! assay measuring epitope specific interleukin-7 production by T cells

[Term]
id: OBI:0001677
name: epitope specific granulysin production by T cells
def: "A process of granulysin production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0036262 ! granulysin production

[Term]
id: OBI:0001678
name: epitope specific granzyme A production by T cells
def: "A process of granzyme A production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0035746 ! granzyme A production

[Term]
id: OBI:0001679
name: yeast 2-hybrid assay
def: "An assay that detects protein protein interactions and protein DNA interactions by testing for physical interactions (such as binding) between two proteins or a single protein and a DNA molecule, respectively. The premise behind the test is the activation of downstream reporter gene(s) by the binding of a transcription factor onto an upstream activating sequence (UAS). For two-hybrid screening, the transcription factor is split into two separate fragments, called the binding domain (BD) and activating domain (AD). The BD is the domain responsible for binding to the UAS and the AD is the domain responsible for the activation of transcription. The Y2H is thus a protein-fragment complementation assay." []
synonym: "Y2H" EXACT []
is_a: OBI:0001146 ! binding assay

[Term]
id: OBI:0001680
name: Sos-recruitment assay
def: "A binding assay that detects interacting proteins for a targeted domain where mammalian guanyl nucleotide exchange factor (GEF) Sos is recruited to the Saccharomyces cerevisiae plasma membrane harboring a temperature-sensitive Ras GEF, Cdc25-2, allowing growth at the nonpermissive temperature using the Sos recruitment system, a kind of yeast 2 hybrid system." []
synonym: "SRS" EXACT []
is_a: OBI:0001146 ! binding assay

[Term]
id: OBI:0001681
name: yeast one-hybrid assay
def: "An assay that determines protein DNA interactions using a single fusion protein in which the activating domain is linked directly to the binding domain." []
synonym: "Y1H" EXACT []
is_a: OBI:0001146 ! binding assay

[Term]
id: OBI:0001682
name: bacterial one-hybrid assay
def: "An assay that identifies the sequence-specific target site of a DNA-binding domain. In this system, a given transcription factor (TF) is expressed as a fusion to a subunit of RNA polymerase. In parallel, a library of randomized oligonucleotides representing potential TF target sequences, is cloned into a separate vector containing the selectable genes HIS3 and URA3. If the DNA-binding domain (bait) binds a potential DNA target site (prey) in vivo, it will recruit RNA polymerase to the promoter and activate transcription of the reporter genes in that clone. The two reporter genes, HIS3 and URA3, allow for positive and negative selections, respectively. At the end of the process, positive clones are sequenced and examined with motif-finding tools in order to resolve the favoured DNA target sequence" []
synonym: "B1H" EXACT []
is_a: OBI:0001681 ! yeast one-hybrid assay

[Term]
id: OBI:0001683
name: chromosome organization assay by fluorescence in-situ hybridization
def: "An in-situ hybridization assay that uses fluorescence to detect chromosomal integrity" []
is_a: OBI:0001686 ! in-situ hybridization assay

[Term]
id: OBI:0001684
name: methylation-specific polymerase chain reaction assay
def: "An assay that uses initial modification of DNA by sodium bisulfite, converting all unmethylated, but not methylated, cytosines to uracil, and subsequent amplification with primers specific for methylated versus unmethylated DNA." []
synonym: "MSP" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0001685
name: amplification of intermethylated sites assay
def: "An assay that estimates genome-wide DNA methylation and measures methylation of DNA sequences. AIMS is based on the differential enzymatic digestion of genomic DNA with methylation-sensitive and methylation-insensitive isoschizomers followed by restrained PCR amplification of methylated sequences." []
synonym: "AIMS assay" EXACT []
synonym: "intermethylated site amplification" EXACT []
is_a: OBI:0000634 ! DNA methylation profiling assay

[Term]
id: OBI:0001686
name: in-situ hybridization assay
def: "An assay that localizes a specific DNA or RNA sequence within a portion or section of tissue using artificially induced nucleic hybridization." []
synonym: "in situ hybridization" EXACT []
synonym: "ISH" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0001687
name: contact representative role
def: "A role inhering in a person who represents an institution, organization, or service provider and realized when communication is directed at them about the entity they represent." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0001689
name: cytochalasin-induced inhibition of actin polymerization assay
def: "An assay which uses compound cytochalasin (CHEBI: 23528) to block actin polymerization-dependent cell motility (GO:0070358) and actin filament polymerization (GO:0030041)." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0001690
name: molecular function identification objective
def: "is an objective specification which aims to discover molecular function realized by a molecular entity" []
is_a: OBI:0000015 ! biological feature identification objective

[Term]
id: OBI:0001691
name: cellular structure feature identification objective
def: "is an objective specification which aims to discover cellular structure properties" []
is_a: OBI:0000015 ! biological feature identification objective

[Term]
id: OBI:0001692
name: in vivo assay measuring B cell epitope specific protection from fertility
def: "An efficacy of B cell epitope intervention experiment that uses a epitope protection experiment based on reduction of fertility." []
synonym: "protection from fertility|in vivo assay" EXACT []
is_a: OBI:0001178 ! efficacy of epitope intervention experiment
is_a: OBI:0001698 ! assay measuring B cell epitope specific in vivo activity

[Term]
id: OBI:0001693
name: in vivo assay measuring B cell epitope specific tolerance induction
def: "An efficacy of B cell epitope intervention experiment that uses a tolerance induction intervention experiment." []
synonym: "tolerance|in vivo assay" EXACT []
is_a: OBI:0001488 ! epitope tolerance induction experiment
is_a: OBI:0001698 ! assay measuring B cell epitope specific in vivo activity

[Term]
id: OBI:0001694
name: in vivo assay measuring B cell epitope specific induction of hypersensitivity
def: "An efficacy of B cell epitope intervention experiment that detects a hypersensitivity response by monitoring skin reactions." []
synonym: "hypersensitivity|in vivo assay" EXACT []
is_a: OBI:0001178 ! efficacy of epitope intervention experiment
is_a: OBI:0001698 ! assay measuring B cell epitope specific in vivo activity

[Term]
id: OBI:0001695
name: assay measuring epitope specific immune complex formation
def: "A B cell epitope specific activation of additional immune response assay that detects agglutination in vitro." []
synonym: "agglutination|biological activity" EXACT []
is_a: OBI:0001704 ! assay measuring epitope specific activation of additional immune response in vitro

[Term]
id: OBI:0001696
name: in vivo assay measuring B cell epitope specific protection based on survival
def: "An in vivo assay measuring B cell epitope specific protection from other challenge using survival." []
synonym: "survival from challenge|in vivo assay" EXACT []
is_a: OBI:0001189 ! epitope protection experiment based on survival
is_a: OBI:0003467 ! in vivo assay measuring B cell epitope specific protection from other challenge

[Term]
id: OBI:0001697
name: in vivo assay measuring B cell epitope specific treatment of disease
def: "An efficacy of B cell epitope intervention experiment that detects a decrease in disease." []
synonym: "decreased disease|in vivo assay" EXACT []
is_a: OBI:0001190 ! epitope treatment experiment
is_a: OBI:0001698 ! assay measuring B cell epitope specific in vivo activity

[Term]
id: OBI:0001698
name: assay measuring B cell epitope specific in vivo activity
def: "A B cell epitope dependent biological activity determination assay that uses an in vivo intervention experiment." []
synonym: "in vivo activity|biological activity" EXACT []
is_a: OBI:0001706 ! assay measuring biological activity resulting from B cell epitope:antibody binding

[Term]
id: OBI:0001699
name: antibody cross-blocking assay
def: "A competitive inhibition of binding assay in which two antibodies that are known to bind the same antigen are tested for the ability of one antibody to inhibit binding of the other antibody to the antigen, thereby determining if they have overlapping binding sites." []
synonym: "antibody inhibition of antibody binding" EXACT []
is_a: OBI:0001593 ! competitive inhibition of binding assay

[Term]
id: OBI:0001700
name: immunoprecipitation assay
def: "An analyte assay in which an input material is mixed with antibodies and bound antigen:antibody complexes are separated out using immunoprecipitation. Either the antibody has known specificy, and the antigen mixture is tested for the presence of a specific antigen, or the antigen solution is well defined and the antibody solution is tested for the presence of antigen specific antibodies." []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0001701
name: antigen inhibition assay measuring binding of a B cell epitope:antibody complex
def: "A B cell epitope qualitative binding to antibody assay that measures the ability of an antigen to inhibit antibody binding to a known ligand." []
synonym: "qualitative binding|inhibition by antigen" EXACT []
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex

[Term]
id: OBI:0001702
name: immunoglobulin binding to epitope
def: "a process of an immunoglobulin complex binding to a material entity at the immunoglobulin complementarity determining region (CDR)." []
is_a: OBI:0001588 ! binding
is_a: OBI:1110014 ! epitope binding by adaptive immune receptor

[Term]
id: OBI:0001703
name: assay measuring qualitative binding of a B cell epitope:antibody complex
def: "An assay that detects the binding of an antigen with an antibody, and produces a qualitative measurement of the binding as an output." []
synonym: "qualitative binding|binding assay" EXACT []
is_a: OBI:1110127 ! assay measuring binding of a B cell epitope:antibody complex

[Term]
id: OBI:0001704
name: assay measuring epitope specific activation of additional immune response in vitro
def: "A B cell epitope dependent biological activity determination assay that detects secondary in vitro activity." []
synonym: "secondary in vitro activity|biological activity" EXACT []
is_a: OBI:0001706 ! assay measuring biological activity resulting from B cell epitope:antibody binding

[Term]
id: OBI:0001705
name: assay measuring epitope specific antigen inhibition of antibody activity
def: "A B cell epitope dependent biological activity determination assay that detects inhibition of the antibody's activity by the antigen." []
synonym: "antibody activity inhibition|biological activity" EXACT []
is_a: OBI:0001706 ! assay measuring biological activity resulting from B cell epitope:antibody binding

[Term]
id: OBI:0001706
name: assay measuring biological activity resulting from B cell epitope:antibody binding
def: "A B cell epitope assay that measures the immune response process resulting from the binding of an antibody receptor to epitope or recognition of the epitope." []
synonym: "biological activity|any method" EXACT []
is_a: OBI:0003127 ! B cell epitope assay

[Term]
id: OBI:0001707
name: immunoglobulin mediated histamine release
def: "The release of histamine by cells stimulated through their Fc receptors which are loaded with immunoglobulins." []
is_a: GO:0008150 ! biological_process

[Term]
id: OBI:0001708
name: assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex
def: "A B cell epitope binding constant determination assay that measures the dissociation constant KD." []
synonym: "dissociation constant KD|binding assay|nM" EXACT []
is_a: OBI:0001709 ! assay measuring a binding constant of a B cell epitope:antibody complex

[Term]
id: OBI:0001709
name: assay measuring a binding constant of a B cell epitope:antibody complex
def: "A B cell epitope recognition assay that quantitavely characterizes the binding of an antibody / BCR with a ligand by determining a binding constant." []
synonym: "binding constant|binding assay" EXACT []
is_a: OBI:0003146 ! assay measuring quantitative binding of an antigen:antibody complex

[Term]
id: OBI:0001710
name: in vivo assay measuring B cell epitope specific protection from challenge
def: "An efficacy of B cell epitope intervention experiment that uses a epitope protection experiment." []
synonym: "protection from challenge|in vivo assay" EXACT []
is_a: OBI:0001184 ! epitope protection experiment
is_a: OBI:0001698 ! assay measuring B cell epitope specific in vivo activity

[Term]
id: OBI:0001711
name: in vivo assay measuring B cell epitope specific disease exacerbation
def: "An efficacy of B cell epitope intervention experiment that uses a disease exacerbation in vivo intervention experiment." []
synonym: "disease exacerbation|in vivo assay" EXACT []
is_a: OBI:0001188 ! epitope disease exacerbation experiment
is_a: OBI:0001698 ! assay measuring B cell epitope specific in vivo activity

[Term]
id: OBI:0001712
name: obsolete B cell epitope direct binding assay
def: "A direct binding assay using a assay" []
synonym: "direct binding assay" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0001713
name: B cell epitope specific opsonization
def: "opsonization resulting from antibody binding to epitope" []
is_a: GO:0008228 ! opsonization

[Term]
id: OBI:0001714
name: B cell epitope specific immunoglobulin-mediated neutralization
def: "immunoglobulin-mediated neutralization resulting from antibody binding to epitope" []
is_a: GO:0097282 ! immunoglobulin-mediated neutralization

[Term]
id: OBI:0001715
name: obsolete B cell epitope competitive binding assay
def: "A competitive inhibition of binding assay using a assay" []
synonym: "competitive binding assay" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0001716
name: B cell epitope specific complement-dependent cytotoxicity
def: "complement-dependent cytotoxicity resulting from antibody binding to epitope" []
is_a: GO:0097278 ! complement-dependent cytotoxicity

[Term]
id: OBI:0001717
name: B cell epitope specific antibody-dependent cellular cytotoxicity
def: "antibody-dependent cellular cytotoxicity resulting from antibody binding to epitope" []
is_a: GO:0001788 ! antibody-dependent cellular cytotoxicity

[Term]
id: OBI:0001718
name: assay measuring the on rate [kon] of a B cell epitope:antibody complex
def: "A B cell epitope binding constant determination assay that measures the on rate." []
synonym: "on rate|binding assay|M^-1s^-1" EXACT []
is_a: OBI:0001709 ! assay measuring a binding constant of a B cell epitope:antibody complex

[Term]
id: OBI:0001719
name: assay measuring the association constant [KA] of a B cell epitope:antibody complex
def: "A B cell epitope binding constant determination assay that measures the association constant KA." []
synonym: "association constant KA|binding assay|1/nM" EXACT []
is_a: OBI:0001709 ! assay measuring a binding constant of a B cell epitope:antibody complex

[Term]
id: OBI:0001720
name: B cell epitope specific immune complex formation
def: "immune complex formation resulting from antibody binding to epitope" []
is_a: GO:0097281 ! immune complex formation
is_a: OBI:0001702 ! immunoglobulin binding to epitope

[Term]
id: OBI:0001721
name: 3D molecular structure determination assay of an antigen:antibody complex
def: "A 3D structure determination of bound molecular complex assay that characterizes the 3-dimensional structure of an antigen:antobody complex." []
synonym: "3D structure|any method" EXACT []
is_a: OBI:0001145 ! 3D structure determination of bound molecular complex assay
is_a: OBI:0003127 ! B cell epitope assay

[Term]
id: OBI:0001722
name: B cell epitope specific hypersensitivity
def: "hypersensitivity resulting from antibody binding to epitope" []
is_a: GO:0002524 ! hypersensitivity

[Term]
id: OBI:0001723
name: assay measuring the off rate [koff] of a B cell epitope:antibody complex
def: "A B cell epitope binding constant determination assay that measures the off rate." []
synonym: "off rate|binding assay|1/s" EXACT []
is_a: OBI:0001709 ! assay measuring a binding constant of a B cell epitope:antibody complex

[Term]
id: OBI:0001724
name: viral hemagglutination inhibition assay measuring binding of a B cell epitope:antibody complex
def: "A viral hemagglutination inhibition assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding| hemagglutination inhibition" EXACT []
is_a: OBI:0000875 ! viral hemagglutination inhibition assay
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex

[Term]
id: OBI:0001725
name: B cell epitope specific histamine secretion mediated by immunoglobulin
def: "histamine secretion mediated by immunoglobulin resulting from antibody binding to epitope" []
is_a: GO:0097280 ! histamine secretion mediated by immunoglobulin

[Term]
id: OBI:0001726
name: quenching assay measuring binding of a B cell epitope:antibody complex
def: "A fluorescence quenching assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|quenching" EXACT []
is_a: OBI:0001635 ! antibody binding detection by fluorescence quenching
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex

[Term]
id: OBI:0001727
name: RIA measuring the dissociation constant [KD] of a B cell epitope:antibody complex
def: "A radio immuno assay that measures the dissociation constant [KD] of an antigen binding with an antibody." []
synonym: "dissociation constant KD|radio immuno assay (RIA)|nM" EXACT []
is_a: OBI:0000910 ! radio immuno assay
is_a: OBI:0001708 ! assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex

[Term]
id: OBI:0001728
name: ELISA measuring the dissociation constant [KD] of a B cell epitope:antibody complex
def: "An enzyme-linked immunosorbent assay that measures the dissociation constant [KD] of an antigen binding with an antibody." []
synonym: "dissociation constant KD|ELISA|nM" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001708 ! assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex

[Term]
id: OBI:0001729
name: quenching assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex
def: "A fluorescence quenching assay that measures the dissociation constant [KD] of an antigen binding with an antibody." []
synonym: "dissociation constant KD|quenching|nM" EXACT []
is_a: OBI:0001635 ! antibody binding detection by fluorescence quenching
is_a: OBI:0001708 ! assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex

[Term]
id: OBI:0001730
name: surface plasmon resonance assay measuring the association constant [KA] of a B cell epitope:antibody complex
def: "A surface plasmon resonance binding assay that measures the association constant [KA] of an antigen binding with an antibody." []
synonym: "association constant KA|surface plasmon resonance (SPR)|1/nM" EXACT []
is_a: OBI:0000923 ! surface plasmon resonance binding assay
is_a: OBI:0001719 ! assay measuring the association constant [KA] of a B cell epitope:antibody complex

[Term]
id: OBI:0001731
name: surface plasmon resonance assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex
def: "A surface plasmon resonance binding assay that measures the dissociation constant [KD] of an antigen binding with an antibody." []
synonym: "dissociation constant KD|surface plasmon resonance (SPR)|nM" EXACT []
is_a: OBI:0000923 ! surface plasmon resonance binding assay
is_a: OBI:0001708 ! assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex

[Term]
id: OBI:0001732
name: quenching assay measuring the association constant [KA] of a B cell epitope:antibody complex
def: "A fluorescence quenching assay that measures the association constant [KA] of an antigen binding with an antibody." []
synonym: "association constant KA|quenching|1/nM" EXACT []
is_a: OBI:0001635 ! antibody binding detection by fluorescence quenching
is_a: OBI:0001719 ! assay measuring the association constant [KA] of a B cell epitope:antibody complex

[Term]
id: OBI:0001733
name: calorimetry assay measuring the association constant [KA] of a B cell epitope:antibody complex
def: "A calorimetric binding assay that measures the association constant [KA] of an antigen binding with an antibody." []
synonym: "association constant KA|calorimetry|1/nM" EXACT []
is_a: OBI:0001634 ! calorimetric binding assay
is_a: OBI:0001719 ! assay measuring the association constant [KA] of a B cell epitope:antibody complex

[Term]
id: OBI:0001734
name: calorimetry assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex
def: "A calorimetric binding assay that measures the dissociation constant [KD] of an antigen binding with an antibody." []
synonym: "dissociation constant KD|calorimetry|nM" EXACT []
is_a: OBI:0001634 ! calorimetric binding assay
is_a: OBI:0001708 ! assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex

[Term]
id: OBI:0001735
name: ELISA measuring the association constant [KA] of a B cell epitope:antibody complex
def: "An enzyme-linked immunosorbent assay that measures the association constant [KA] of an antigen binding with an antibody." []
synonym: "association constant KA|ELISA|1/nM" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001719 ! assay measuring the association constant [KA] of a B cell epitope:antibody complex

[Term]
id: OBI:0001736
name: RIA measuring the association constant [KA] of a B cell epitope:antibody complex
def: "A radio immuno assay that measures the association constant [KA] of an antigen binding with an antibody." []
synonym: "association constant KA|radio immuno assay (RIA)|1/nM" EXACT []
is_a: OBI:0000910 ! radio immuno assay
is_a: OBI:0001719 ! assay measuring the association constant [KA] of a B cell epitope:antibody complex

[Term]
id: OBI:0001737
name: obsolete B cell epitope specific X-ray crystallography assay
def: "A X-ray crystallography assay measuring epitope specfic antibody binding event in angstroms" []
synonym: "X-ray crystallography [Ã…]" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: OBI:0001738

[Term]
id: OBI:0001738
name: X-ray crystallography assay determining the 3D structure of a B cell epitope:antibody complex
def: "A X-ray crystallography 3D molecular structure determination assay that characterizes the 3-dimensional molecular structrue of a B cell epitope:antibody complex." []
synonym: "3D structure|x-ray crystallography|angstroms" EXACT []
is_a: OBI:0000912 ! X-ray crystallography 3D molecular structure determination assay
is_a: OBI:0001721 ! 3D molecular structure determination assay of an antigen:antibody complex

[Term]
id: OBI:0001739
name: surface plasmon resonance assay measuring the off rate [koff] of a B cell epitope:antibody complex
def: "A surface plasmon resonance binding assay that measures the off rate [koff] of an antigen binding with an antibody." []
synonym: "off rate|surface plasmon resonance (SPR)|1/s" EXACT []
is_a: OBI:0000923 ! surface plasmon resonance binding assay
is_a: OBI:0001723 ! assay measuring the off rate [koff] of a B cell epitope:antibody complex

[Term]
id: OBI:0001740
name: quenching assay measuring the off rate [koff] of a B cell epitope:antibody complex
def: "A fluorescence quenching assay that measures the off rate [koff] of an antigen binding with an antibody." []
synonym: "off rate|quenching|1/s" EXACT []
is_a: OBI:0001635 ! antibody binding detection by fluorescence quenching
is_a: OBI:0001723 ! assay measuring the off rate [koff] of a B cell epitope:antibody complex

[Term]
id: OBI:0001741
name: surface plasmon resonance assay measuring the on rate [kon] of a B cell epitope:antibody complex
def: "A surface plasmon resonance binding assay that measures the on rate [kon] of an antigen binding with an antibody." []
synonym: "on rate|surface plasmon resonance (SPR)|M^-1s^-1" EXACT []
is_a: OBI:0000923 ! surface plasmon resonance binding assay
is_a: OBI:0001718 ! assay measuring the on rate [kon] of a B cell epitope:antibody complex

[Term]
id: OBI:0001742
name: quenching assay measuring the on rate [kon] of a B cell epitope:antibody complex
def: "A fluorescence quenching assay that measures the on rate [kon] of an antigen binding with an antibody." []
synonym: "on rate|quenching|M^-1s^-1" EXACT []
is_a: OBI:0001635 ! antibody binding detection by fluorescence quenching
is_a: OBI:0001718 ! assay measuring the on rate [kon] of a B cell epitope:antibody complex

[Term]
id: OBI:0001743
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-1 beta production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-1 beta production by T cells." []
synonym: "IL-1b release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001449 ! assay measuring epitope specific interleukin-1 beta production by T cells

[Term]
id: OBI:0001744
name: intracellular cytokine staining assay measuring epitope specific interleukin-1 alpha production by T cells
def: "A flow cytometry assay that detects interleukin-1 alpha production by T cells." []
synonym: "IL-1a release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001388 ! assay measuring epitope specific interleukin-1 alpha production by T cells

[Term]
id: OBI:0001745
name: ELISPOT assay measuring epitope specific interleukin-1 alpha production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-1 alpha production by T cells." []
synonym: "IL-1a release|ELISPOT" EXACT []
is_a: OBI:0001388 ! assay measuring epitope specific interleukin-1 alpha production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001746
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-1 alpha production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-1 alpha production by T cells." []
synonym: "IL-1a release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001388 ! assay measuring epitope specific interleukin-1 alpha production by T cells

[Term]
id: OBI:0001747
name: cytometric bead array assay measuring epitope specific interleukin-1 alpha production by T cells
def: "A cytometric bead array assay that detects interleukin-1 alpha production by T cells." []
synonym: "IL-1a release|cytometric bead array" EXACT []
is_a: OBI:0001388 ! assay measuring epitope specific interleukin-1 alpha production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001748
name: ELISPOT assay measuring epitope specific interferon-beta production by T cells
def: "An enzyme-linked immunospot assay that detects interferon-beta production by T cells." []
synonym: "IFNb release|ELISPOT" EXACT []
is_a: OBI:0001390 ! assay measuring epitope specific interferon-beta production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001749
name: intracellular cytokine staining assay measuring epitope specific interferon-beta production by T cells
def: "A flow cytometry assay that detects interferon-beta production by T cells." []
synonym: "IFNb release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001390 ! assay measuring epitope specific interferon-beta production by T cells

[Term]
id: OBI:0001750
name: intracellular cytokine staining assay measuring epitope specific granulocyte colony stimulating factor production by T cells
def: "A flow cytometry assay that detects granulocyte colony stimulating factor production by T cells." []
synonym: "G-CSF release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001600 ! assay measuring epitope specific granulocyte colony stimulating factor production by T cells

[Term]
id: OBI:0001751
name: ELISA measuring epitope specific interferon-beta production by T cells
def: "An enzyme-linked immunosorbent assay that detects interferon-beta production by T cells." []
synonym: "IFNb release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001390 ! assay measuring epitope specific interferon-beta production by T cells

[Term]
id: OBI:0001752
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific granulocyte colony stimulating factor production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects granulocyte colony stimulating factor production by T cells." []
synonym: "G-CSF release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001600 ! assay measuring epitope specific granulocyte colony stimulating factor production by T cells

[Term]
id: OBI:0001753
name: ELISPOT assay measuring epitope specific granulocyte colony stimulating factor production by T cells
def: "An enzyme-linked immunospot assay that detects granulocyte colony stimulating factor production by T cells." []
synonym: "G-CSF release|ELISPOT" EXACT []
is_a: OBI:0001600 ! assay measuring epitope specific granulocyte colony stimulating factor production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001754
name: cytometric bead array assay measuring epitope specific chemokine (C-X-C motif) ligand 9 production by T cells
def: "A cytometric bead array assay that detects chemokine (C-X-C motif) ligand 9 production by T cells." []
synonym: "CXCL9/MIG release|cytometric bead array" EXACT []
is_a: OBI:0001459 ! assay measuring epitope specific chemokine (C-X-C motif) ligand 9 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001755
name: selection criterion
def: "A directive information entity which defines and states a principle of standard by which selection process may take place." []
synonym: "selection rule" EXACT []
is_a: IAO:0000033 ! directive information entity

[Term]
id: OBI:0001756
name: ELISPOT assay measuring epitope specific chemokine (C-X-C motif) ligand 9 production by T cells
def: "An enzyme-linked immunospot assay that detects chemokine (C-X-C motif) ligand 9 production by T cells." []
synonym: "CXCL9/MIG release|ELISPOT" EXACT []
is_a: OBI:0001459 ! assay measuring epitope specific chemokine (C-X-C motif) ligand 9 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001757
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific chemokine (C-X-C motif) ligand 9 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects chemokine (C-X-C motif) ligand 9 production by T cells." []
synonym: "CXCL9/MIG release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001459 ! assay measuring epitope specific chemokine (C-X-C motif) ligand 9 production by T cells

[Term]
id: OBI:0001758
name: ELISPOT assay measuring epitope specific chemokine (C-C motif) ligand 4 production by T cells
def: "An enzyme-linked immunospot assay that detects chemokine (C-C motif) ligand 4 production by T cells." []
synonym: "CCL4/MIP-1b release|ELISPOT" EXACT []
is_a: OBI:0001345 ! assay measuring epitope specific chemokine (C-C motif) ligand 4 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001759
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific chemokine (C-X-C motif) ligand 12 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects chemokine (C-X-C motif) ligand 12 production by T cells." []
synonym: "CXCL12/SDF-1 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001776 ! assay measuring epitope specific chemokine (C-X-C motif) ligand 12 production by T cells

[Term]
id: OBI:0001760
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific chemokine (C-X-C motif) ligand 13 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects chemokine (C-X-C motif) ligand 13 production by T cells." []
synonym: "CXCL13/BLC release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001779 ! assay measuring epitope specific chemokine (C-X-C motif) ligand 13 production by T cells

[Term]
id: OBI:0001761
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific chemokine (C-X-C motif) ligand 16 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects chemokine (C-X-C motif) ligand 16 production by T cells." []
synonym: "CXCL16 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001778 ! assay measuring epitope specific chemokine (C-X-C motif) ligand 16 production by T cells

[Term]
id: OBI:0001762
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific chemokine (C-C motif) ligand 21 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects chemokine (C-C motif) ligand 21 production by T cells." []
synonym: "CCL21/SLC release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001774 ! assay measuring epitope specific chemokine (C-C motif) ligand 21 production by T cells

[Term]
id: OBI:0001763
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific chemokine (C-C motif) ligand 22 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects chemokine (C-C motif) ligand 22 production by T cells." []
synonym: "CCL22/MDC release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001777 ! assay measuring epitope specific chemokine (C-C motif) ligand 22 production by T cells

[Term]
id: OBI:0001764
name: cytometric bead array assay measuring epitope specific chemokine (C-C motif) ligand 4 production by T cells
def: "A cytometric bead array assay that detects chemokine (C-C motif) ligand 4 production by T cells." []
synonym: "CCL4/MIP-1b release|cytometric bead array" EXACT []
is_a: OBI:0001345 ! assay measuring epitope specific chemokine (C-C motif) ligand 4 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001765
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific chemokine (C-C motif) ligand 4 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects chemokine (C-C motif) ligand 4 production by T cells." []
synonym: "CCL4/MIP-1b release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001345 ! assay measuring epitope specific chemokine (C-C motif) ligand 4 production by T cells

[Term]
id: OBI:0001766
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific vascular endothelial growth factor production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects vascular endothelial growth factor production by T cells." []
synonym: "VEGF release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001570 ! assay measuring epitope specific vascular endothelial growth factor production by T cells

[Term]
id: OBI:0001767
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific chemokine (C-C motif) ligand 19 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects chemokine (C-C motif) ligand 19 production by T cells." []
synonym: "CCL19/MIP-3b release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001775 ! assay measuring epitope specific chemokine (C-C motif) ligand 19 production by T cells

[Term]
id: OBI:0001768
name: intracellular cytokine staining assay measuring epitope specific chemokine (C-C motif) ligand 1 production by T cells
def: "A flow cytometry assay that detects chemokine (C-C motif) ligand 1 production by T cells." []
synonym: "CCL1/TCA-3 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001276 ! assay measuring epitope specific chemokine (C-C motif) ligand 1 production by T cells

[Term]
id: OBI:0001769
name: specimen collector role
def: "An Investigation agent role borne by a person or organization which \nis realized in a specimen collection process." []
is_a: OBI:0000202 ! investigation agent role

[Term]
id: OBI:0001770
name: intracellular cytokine staining assay measuring epitope specific vascular endothelial growth factor production by T cells
def: "A flow cytometry assay that detects vascular endothelial growth factor production by T cells." []
synonym: "VEGF release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001570 ! assay measuring epitope specific vascular endothelial growth factor production by T cells

[Term]
id: OBI:0001771
name: ELISPOT assay measuring epitope specific vascular endothelial growth factor production by T cells
def: "An enzyme-linked immunospot assay that detects vascular endothelial growth factor production by T cells." []
synonym: "VEGF release|ELISPOT" EXACT []
is_a: OBI:0001570 ! assay measuring epitope specific vascular endothelial growth factor production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001772
name: assay measuring epitope specific interleukin-17F production by T cells
def: "An assay of epitope specific interleukin-17 production by T cells that detects interleukin-17F production." []
synonym: "IL-17F release|biological activity" EXACT []
is_a: OBI:0001295 ! assay measuring epitope specific interleukin-17 production by T cells

[Term]
id: OBI:0001773
name: assay measuring epitope specific interleukin-17A production by T cells
def: "An assay of epitope specific interleukin-17 production by T cells that detects interleukin-17A production." []
synonym: "IL-17A release|biological activity" EXACT []
is_a: OBI:0001295 ! assay measuring epitope specific interleukin-17 production by T cells

[Term]
id: OBI:0001774
name: assay measuring epitope specific chemokine (C-C motif) ligand 21 production by T cells
def: "A T cell epitope specific cytokine production assay that detects chemokine (C-C motif) ligand 21 production by T cells." []
synonym: "CCL21/SLC release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001775
name: assay measuring epitope specific chemokine (C-C motif) ligand 19 production by T cells
def: "A T cell epitope specific cytokine production assay that detects chemokine (C-C motif) ligand 19 production by T cells." []
synonym: "CCL19/MIP-3b release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001776
name: assay measuring epitope specific chemokine (C-X-C motif) ligand 12 production by T cells
def: "A T cell epitope specific cytokine production assay that detects chemokine (C-X-C motif) ligand 12 production by T cells." []
synonym: "CXCL12/SDF-1 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001777
name: assay measuring epitope specific chemokine (C-C motif) ligand 22 production by T cells
def: "A T cell epitope specific cytokine production assay that detects chemokine (C-C motif) ligand 22 production by T cells." []
synonym: "CCL22/MDC release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001778
name: assay measuring epitope specific chemokine (C-X-C motif) ligand 16 production by T cells
def: "A T cell epitope specific cytokine production assay that detects chemokine (C-X-C motif) ligand 16 production by T cells." []
synonym: "CXCL16 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001779
name: assay measuring epitope specific chemokine (C-X-C motif) ligand 13 production by T cells
def: "A T cell epitope specific cytokine production assay that detects chemokine (C-X-C motif) ligand 13 production by T cells." []
synonym: "CXCL13/BLC release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0001780
name: ELISPOT assay measuring epitope specific macrophage inflammatory protein-1 alpha production by T cells
def: "An enzyme-linked immunospot assay that detects macrophage inflammatory protein-1 alpha production by T cells." []
synonym: "CCL3/MIP-1a release|ELISPOT" EXACT []
is_a: OBI:0001333 ! assay measuring epitope specific macrophage inflammatory protein-1 alpha production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001781
name: cytometric bead array assay measuring epitope specific macrophage inflammatory protein-1 gamma production by T cells
def: "A cytometric bead array assay that detects macrophage inflammatory protein-1 gamma production by T cells." []
synonym: "CCL9/MIP-1g release|cytometric bead array" EXACT []
is_a: OBI:0001456 ! assay measuring epitope specific macrophage inflammatory protein-1 gamma production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001782
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific macrophage inflammatory protein-1 gamma production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects macrophage inflammatory protein-1 gamma production by T cells." []
synonym: "CCL9/MIP-1g release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001456 ! assay measuring epitope specific macrophage inflammatory protein-1 gamma production by T cells

[Term]
id: OBI:0001783
name: intracellular cytokine staining assay measuring epitope specific monocyte chemotactic protein-1 production by T cells
def: "A flow cytometry assay that detects monocyte chemotactic protein-1 production by T cells." []
synonym: "CCL2/MCP-1 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001465 ! assay measuring epitope specific monocyte chemotactic protein-1 production by T cells

[Term]
id: OBI:0001784
name: ELISPOT assay measuring epitope specific monocyte chemotactic protein-1 production by T cells
def: "An enzyme-linked immunospot assay that detects monocyte chemotactic protein-1 production by T cells." []
synonym: "CCL2/MCP-1 release|ELISPOT" EXACT []
is_a: OBI:0001465 ! assay measuring epitope specific monocyte chemotactic protein-1 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001785
name: intracellular cytokine staining assay measuring epitope specific macrophage inflammatory protein-1 gamma production by T cells
def: "A flow cytometry assay that detects macrophage inflammatory protein-1 gamma production by T cells." []
synonym: "CCL9/MIP-1g release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001456 ! assay measuring epitope specific macrophage inflammatory protein-1 gamma production by T cells

[Term]
id: OBI:0001786
name: ELISPOT assay measuring epitope specific macrophage inflammatory protein-1 gamma production by T cells
def: "An enzyme-linked immunospot assay that detects inflammatory protein-1 gamma production by T cells." []
synonym: "CCL9/MIP-1g release|ELISPOT" EXACT []
is_a: OBI:0001456 ! assay measuring epitope specific macrophage inflammatory protein-1 gamma production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001787
name: cytometric bead array assay measuring epitope specific vascular endothelial growth factor production by T cells
def: "A cytometric bead array assay that detects vascular endothelial growth factor production by T cells." []
synonym: "VEGF release|cytometric bead array" EXACT []
is_a: OBI:0001570 ! assay measuring epitope specific vascular endothelial growth factor production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001788
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects tumor necrosis factor superfamily cytokine production by T cells." []
synonym: "TNF release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001400 ! assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells

[Term]
id: OBI:0001789
name: intracellular cytokine staining assay measuring epitope specific RANTES production by T cells
def: "A flow cytometry assay that detects RANTES production by T cells." []
synonym: "CCL5/RANTES release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001232 ! assay measuring epitope specific RANTES production by T cells

[Term]
id: OBI:0001790
name: ELISPOT assay measuring epitope specific RANTES production by T cells
def: "An enzyme-linked immunospot assay that detects RANTES production by T cells." []
synonym: "CCL5/RANTES release|ELISPOT" EXACT []
is_a: OBI:0001232 ! assay measuring epitope specific RANTES production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001791
name: ELISPOT assay measuring epitope specific lymphotoxin A production by T cells
def: "An enzyme-linked immunospot assay that detects lymphotoxin A production by T cells." []
synonym: "lymphotoxin A/TNFb release|ELISPOT" EXACT []
is_a: OBI:0001272 ! ELISPOT assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells
is_a: OBI:0001327 ! assay measuring epitope specific lymphotoxin A production by T cells

[Term]
id: OBI:0001792
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific macrophage inflammatory protein-1 alpha production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects macrophage inflammatory protein-1 alpha production by T cells." []
synonym: "CCL3/MIP-1a release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001333 ! assay measuring epitope specific macrophage inflammatory protein-1 alpha production by T cells

[Term]
id: OBI:0001793
name: cytometric bead array assay measuring epitope specific lymphotoxin A production by T cells
def: "A cytometric bead array assay that detects lymphotoxin A production by T cells." []
synonym: "lymphotoxin A/TNFb release|cytometric bead array" EXACT []
is_a: OBI:0001327 ! assay measuring epitope specific lymphotoxin A production by T cells
is_a: OBI:0001368 ! cytometric bead array assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells

[Term]
id: OBI:0001794
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific lymphotoxin A production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects lymphotoxin A production by T cells." []
synonym: "lymphotoxin A/TNFb release|RNA/DNA detection" EXACT []
is_a: OBI:0001327 ! assay measuring epitope specific lymphotoxin A production by T cells
is_a: OBI:0001788 ! detection of specific nucleic acids with complementary probes assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells

[Term]
id: OBI:0001795
name: ELISPOT assay measuring epitope specific IP-10 production by T cells
def: "An enzyme-linked immunospot assay that detects IP-10 production by T cells." []
synonym: "CXCL10/IP-10 release|ELISPOT" EXACT []
is_a: OBI:0001308 ! assay measuring epitope specific IP-10 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001796
name: intracellular cytokine staining assay measuring epitope specific IP-10 production by T cells
def: "A flow cytometry assay that detects IP-10 production by T cells." []
synonym: "CXCL10/IP-10 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001308 ! assay measuring epitope specific IP-10 production by T cells

[Term]
id: OBI:0001797
name: ELISPOT assay measuring epitope specific interleukin-9 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-9 production by T cells." []
synonym: "IL-9 release|ELISPOT" EXACT []
is_a: OBI:0001253 ! assay measuring interleukin-9 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001798
name: intracellular cytokine staining assay measuring epitope specific interleukin-9 production by T cells
def: "A flow cytometry assay that detects interleukin-9 production by T cells." []
synonym: "IL-9 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001253 ! assay measuring interleukin-9 production by T cells

[Term]
id: OBI:0001799
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-9 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-9 production by T cells." []
synonym: "IL-9 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001253 ! assay measuring interleukin-9 production by T cells

[Term]
id: OBI:0001800
name: ELISPOT assay measuring epitope specific interleukin-8 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-8 production by T cells." []
synonym: "IL-8 release|ELISPOT" EXACT []
is_a: OBI:0001218 ! assay measuring epitope specific interleukin-8 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001801
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-8 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-8 production by T cells." []
synonym: "IL-8 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001218 ! assay measuring epitope specific interleukin-8 production by T cells

[Term]
id: OBI:0001802
name: ELISPOT assay measuring epitope specific interleukin-3 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-3 production by T cells." []
synonym: "IL-3 release|ELISPOT" EXACT []
is_a: OBI:0001406 ! assay measuring epitope specific interleukin-3 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001803
name: ELISA measuring epitope specific interleukin-7 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-7 production by T cells." []
synonym: "IL-7 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001587 ! assay measuring epitope specific interleukin-7 production by T cells

[Term]
id: OBI:0001804
name: ELISPOT assay measuring epitope specific interleukin-7 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-7 production by T cells." []
synonym: "IL-7 release|ELISPOT" EXACT []
is_a: OBI:0001587 ! assay measuring epitope specific interleukin-7 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001805
name: intracellular cytokine staining assay measuring epitope specific interleukin-7 production by T cells
def: "A flow cytometry assay that detects interleukin-7 production by T cells." []
synonym: "IL-7 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001587 ! assay measuring epitope specific interleukin-7 production by T cells

[Term]
id: OBI:0001806
name: intracellular cytokine staining assay measuring epitope specific interleukin-27 production by T cells
def: "A flow cytometry assay that detects interleukin-27 production by T cells." []
synonym: "IL-27 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001198 ! assay measuring epitope specific interleukin-27 production by T cells

[Term]
id: OBI:0001807
name: cytometric bead array assay measuring epitope specific interleukin-3 production by T cells
def: "A cytometric bead array assay that detects interleukin-3 production by T cells." []
synonym: "IL-3 release|cytometric bead array" EXACT []
is_a: OBI:0001406 ! assay measuring epitope specific interleukin-3 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001808
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-3 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-3 production by T cells." []
synonym: "IL-3 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001406 ! assay measuring epitope specific interleukin-3 production by T cells

[Term]
id: OBI:0001809
name: assay measuring epitope specific granzyme A release by T cells
def: "A T cell epitope specific cytotoxic T cell degranulation assay that detects granzyme A release by T cells." []
synonym: "granzyme A release|biological activity" EXACT []
is_a: OBI:0001269 ! assay measuring epitope specific cytotoxic T cell degranulation

[Term]
id: OBI:0001810
name: assay measuring epitope specific granulysin release by T cells
def: "A T cell epitope specific cytotoxic T cell degranulation assay that detects granulysin release by T cells." []
synonym: "granulysin release|biological activity" EXACT []
is_a: OBI:0001269 ! assay measuring epitope specific cytotoxic T cell degranulation

[Term]
id: OBI:0001811
name: cytometric bead array assay measuring epitope specific interleukin-27 production by T cells
def: "A cytometric bead array assay that detects interleukin-27 production by T cells." []
synonym: "IL-27 release|cytometric bead array" EXACT []
is_a: OBI:0001198 ! assay measuring epitope specific interleukin-27 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001812
name: intracellular cytokine staining assay measuring epitope specific interleukin-23 production by T cells
def: "A flow cytometry assay that detects interleukin-23 production by T cells." []
synonym: "IL-23 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001363 ! assay measuring epitope specific interleukin-23 production by T cells

[Term]
id: OBI:0001813
name: ELISPOT assay measuring epitope specific interleukin-27 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-27 production by T cells." []
synonym: "IL-27 release|ELISPOT" EXACT []
is_a: OBI:0001198 ! assay measuring epitope specific interleukin-27 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001814
name: ELISA measuring epitope specific interleukin-27 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-27 production by T cells." []
synonym: "IL-27 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001198 ! assay measuring epitope specific interleukin-27 production by T cells

[Term]
id: OBI:0001815
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-18 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-18 production by T cells." []
synonym: "IL-18 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001380 ! assay measuring epitope specific interleukin-18 production by T cells

[Term]
id: OBI:0001816
name: epitope specific chemokine (C-X-C motif) ligand 13 production by T cells
def: "A process of chemokine (C-X-C motif) ligand 13 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0097391 ! chemokine (C-X-C motif) ligand 13 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001817
name: ELISPOT assay measuring epitope specific interleukin-18 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-18 production by T cells." []
synonym: "IL-18 release|ELISPOT" EXACT []
is_a: OBI:0001380 ! assay measuring epitope specific interleukin-18 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001818
name: epitope specific chemokine (C-X-C motif) ligand 12 production by T cells
def: "A process of chemokine (C-X-C motif) ligand 12 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0097390 ! chemokine (C-X-C motif) ligand 12 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001819
name: epitope specific chemokine (C-C motif) ligand 22 production by T cells
def: "A process of chemokine (C-C motif) ligand 22 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0071924 ! chemokine (C-C motif) ligand 22 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001820
name: epitope specific chemokine (C-X-C motif) ligand 16 production by T cells
def: "A process of chemokine (C-X-C motif) ligand 16 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0097392 ! chemokine (C-X-C motif) ligand 16 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001821
name: ELISPOT assay measuring epitope specific interleukin-22 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-22 production by T cells." []
synonym: "IL-22 release|ELISPOT" EXACT []
is_a: OBI:0001217 ! assay measuring epitope specific interleukin-22 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001822
name: ELISPOT assay measuring epitope specific interleukin-23 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-23 production by T cells." []
synonym: "IL-23 release|ELISPOT" EXACT []
is_a: OBI:0001363 ! assay measuring epitope specific interleukin-23 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001823
name: epitope specific chemokine (C-C motif) ligand 21 production by T cells
def: "A process of chemokine (C-C motif) ligand 21 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0097389 ! chemokine (C-C motif) ligand 21 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001824
name: intracellular cytokine staining assay measuring epitope specific interleukin-18 production by T cells
def: "A flow cytometry assay that detects interleukin-18 production by T cells." []
synonym: "IL-18 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001380 ! assay measuring epitope specific interleukin-18 production by T cells

[Term]
id: OBI:0001825
name: epitope specific chemokine (C-C motif) ligand 19 production by T cells
def: "A process of chemokine (C-C motif) ligand 19 production by T cells resulting from the recognition of a T cell epitope." []
is_a: GO:0097388 ! chemokine (C-C motif) ligand 19 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0001826
name: ELISPOT assay measuring epitope specific interleukin-21 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-21 production by T cells." []
synonym: "IL-21 release|ELISPOT" EXACT []
is_a: OBI:0001237 ! assay measuring epitope specific interleukin-21 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001827
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific chemokine (C-C motif) ligand 1 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects chemokine (C-C motif) ligand 1 production by T cells." []
synonym: "CCL1/TCA-3 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001276 ! assay measuring epitope specific chemokine (C-C motif) ligand 1 production by T cells

[Term]
id: OBI:0001828
name: cytometric bead array assay measuring epitope specific chemokine (C-C motif) ligand 1 production by T cells
def: "A cytometric bead array assay that detects chemokine (C-C motif) ligand 1 production by T cells." []
synonym: "CCL1/TCA-3 release|cytometric bead array" EXACT []
is_a: OBI:0001276 ! assay measuring epitope specific chemokine (C-C motif) ligand 1 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001829
name: ELISPOT assay measuring epitope specific chemokine (C-C motif) ligand 1 production by T cells
def: "An enzyme-linked immunospot assay that detects chemokine (C-C motif) ligand 1 production by T cells." []
synonym: "CCL1/TCA-3 release|ELISPOT" EXACT []
is_a: OBI:0001276 ! assay measuring epitope specific chemokine (C-C motif) ligand 1 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001830
name: ELISPOT assay measuring epitope specific interleukin-17F production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-17F production by T cells." []
synonym: "IL-17F release|ELISPOT" EXACT []
is_a: OBI:0001354 ! ELISPOT assay measuring epitope specific interleukin-17 production by T cells
is_a: OBI:0001772 ! assay measuring epitope specific interleukin-17F production by T cells

[Term]
id: OBI:0001831
name: ELISA measuring epitope specific interleukin-17F production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-17F production by T cells." []
synonym: "IL-17F release|ELISA" EXACT []
is_a: OBI:0001772 ! assay measuring epitope specific interleukin-17F production by T cells
is_a: OBI:1110162 ! ELISA measuring epitope specific interleukin-17 production by T cells

[Term]
id: OBI:0001832
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-17F production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-17F production by T cells." []
synonym: "IL-17F release|RNA/DNA detection" EXACT []
is_a: OBI:0001291 ! detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-17 production by T cells
is_a: OBI:0001772 ! assay measuring epitope specific interleukin-17F production by T cells

[Term]
id: OBI:0001833
name: ELISPOT assay measuring epitope specific interleukin-17A production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-17A production by T cells." []
synonym: "IL-17A release|ELISPOT" EXACT []
is_a: OBI:0001354 ! ELISPOT assay measuring epitope specific interleukin-17 production by T cells
is_a: OBI:0001773 ! assay measuring epitope specific interleukin-17A production by T cells

[Term]
id: OBI:0001834
name: drawing a conclusion
def: "A planned process in which new information is inferred from existing information." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0001835
name: cytometric bead array assay measuring epitope specific interleukin-18 production by T cells
def: "A cytometric bead array assay that detects interleukin-18 production by T cells." []
synonym: "IL-18 release|cytometric bead array" EXACT []
is_a: OBI:0001380 ! assay measuring epitope specific interleukin-18 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0001836
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-16 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-16 production by T cells." []
synonym: "IL-16 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001280 ! assay measuring epitope specific interleukin-16 production by T cells

[Term]
id: OBI:0001837
name: ELISA measuring epitope specific interleukin-16 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-16 production by T cells." []
synonym: "IL-16 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001280 ! assay measuring epitope specific interleukin-16 production by T cells

[Term]
id: OBI:0001838
name: ELISPOT assay measuring epitope specific interleukin-16 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-16 production by T cells." []
synonym: "IL-16 release|ELISPOT" EXACT []
is_a: OBI:0001280 ! assay measuring epitope specific interleukin-16 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001839
name: intracellular cytokine staining assay measuring epitope specific interleukin-16 production by T cells
def: "A flow cytometry assay that detects interleukin-16 production by T cells." []
synonym: "IL-16 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001280 ! assay measuring epitope specific interleukin-16 production by T cells

[Term]
id: OBI:0001840
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-17A production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-17A production by T cells." []
synonym: "IL-17A release|RNA/DNA detection" EXACT []
is_a: OBI:0001291 ! detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-17 production by T cells
is_a: OBI:0001773 ! assay measuring epitope specific interleukin-17A production by T cells

[Term]
id: OBI:0001841
name: intracellular cytokine staining assay measuring epitope specific interleukin-1 beta production by T cells
def: "A flow cytometry assay that detects interleukin-1 beta production by T cells." []
synonym: "IL-1b release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001449 ! assay measuring epitope specific interleukin-1 beta production by T cells

[Term]
id: OBI:0001842
name: ELISPOT assay measuring epitope specific interleukin-1 beta production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-1 beta production by T cells." []
synonym: "IL-1b release|ELISPOT" EXACT []
is_a: OBI:0001449 ! assay measuring epitope specific interleukin-1 beta production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001843
name: detection of specific nucleic acids with complementary probes measuring epitope specific interleukin-15 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-15 production by T cells." []
synonym: "IL-15 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001292 ! assay measuring epitope specific interleukin-15 production by T cells

[Term]
id: OBI:0001844
name: ELISPOT assay measuring epitope specific interleukin-12 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-12 production by T cells." []
synonym: "IL-12 release|ELISPOT" EXACT []
is_a: OBI:0001391 ! assay measuring epitope specific interleukin-12 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001845
name: intracellular cytokine staining assay measuring epitope specific interleukin-15 production by T cells
def: "A flow cytometry assay that detects interleukin-15 production by T cells." []
synonym: "IL-15 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001292 ! assay measuring epitope specific interleukin-15 production by T cells

[Term]
id: OBI:0001846
name: ELISPOT assay measuring epitope specific interleukin-15 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-15 production by T cells." []
synonym: "IL-15 release|ELISPOT" EXACT []
is_a: OBI:0001292 ! assay measuring epitope specific interleukin-15 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0001848
name: chromatin interaction analysis by paired-end tag sequencing assay
def: "An assay that incorporates chromatin immunoprecipitation (ChIP)-based enrichment, chromatin proximity ligation, Paired-End Tags, and high-throughput sequencing to determine de novo long-range chromatin interactions genome-wide." []
synonym: "ChIA-PET" EXACT []
synonym: "ChIA-PET assay" EXACT []
is_a: OBI:0002438 ! nuclear ligation assay
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0001849
name: structural analysis by paired-end tag sequencing assay
def: "An assay that incorporates Paired-End Tags and sequencing technology to determine structural variants." []
synonym: "DNA-PET" EXACT []
synonym: "DNA-PET assay" EXACT []
is_a: OBI:0000626 ! DNA sequencing assay

[Term]
id: OBI:0001850
name: transcript analysis by paired-end tag sequencing assay
def: "A transcription profiling assay that determines transcripts, gene structures, and gene expressions using Paired-End Tags and sequencing technology." []
synonym: "RNA-PET" EXACT []
synonym: "RNA-PET assay" EXACT []
is_a: OBI:0000424 ! transcription profiling assay
is_a: OBI:0001177 ! RNA sequencing assay

[Term]
id: OBI:0001851
name: transcription start site identification objective
def: "A transcription profiling identification objective that aims to characterize the transcription start sites of genes." []
is_a: OBI:0001331 ! transcription profiling identification objective

[Term]
id: OBI:0001852
name: paired-end library preparation
def: "A library preparation that results in the creation of a library of the 5' and 3' ends of DNA or cDNA fragments using adaptors and endonucleases. The preparation may or may not include cloning process." []
is_a: OBI:0000711 ! library preparation

[Term]
id: OBI:0001853
name: DNase I hypersensitive sites sequencing assay
def: "An assay that identifies the location of regulatory regions, based on the genome-wide sequencing of regions super sensitive to cleavage by DNase I." []
is_a: OBI:0000626 ! DNA sequencing assay

[Term]
id: OBI:0001854
name: protein and RNA interaction identification objective
def: "A sequence feature identification objective that aims to characterize the interactions between protein and RNA." []
is_a: OBI:0000113 ! sequence feature identification objective

[Term]
id: OBI:0001857
name: RNP (ribonuclear particle) immunoprecipitation high- throughput sequencing assay
def: "An analyte assay that combines immunoprecipitation of an RNA-binding protein and RNA-seq to identify mRNAs associated with selected RNA binding proteins (RBPs)." []
synonym: "RIP-seq" EXACT []
synonym: "RIP-seq assay" EXACT []
is_a: OBI:0000443 ! analyte assay
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0001858
name: cross-linking immunoprecipitation high-throughput sequencing assay
def: "An analyte assay that employs UV-crosslinking between RNA and a protein, followed by immunoprecipitation with antibodies for the protein, fragmentation, and high-throughput screening for RNA sequences that interact with a particular RNA-binding protein." []
synonym: "CLIP-seq" EXACT []
synonym: "CLIP-seq assay" EXACT []
synonym: "HITS-CLIP" EXACT []
is_a: OBI:0000443 ! analyte assay
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0001859
name: formaldehyde-assisted isolation of regulatory elements assay
def: "An assay to determine the sequences of those DNA regions in the genome associated with regulatory activity." []
synonym: "FAIRE-seq" EXACT []
synonym: "FAIRE-seq assay" EXACT []
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0001861
name: methylation-sensitive restriction enzyme sequencing assay
def: "An assay that identifies unmethylated CpGs using methylation sensitive restriction enzymes to fragment DNA." []
synonym: "MRE-seq" EXACT []
synonym: "MRE-seq assay" EXACT []
is_a: OBI:0000626 ! DNA sequencing assay
is_a: OBI:0001266 ! DNA methylation profiling by high throughput sequencing assay

[Term]
id: OBI:0001862
name: reduced representation bisulfite sequencing assay
def: "A bisulfite sequencing assay that identifies genomic methylation patterns using a bisulfite based protocol that enriches CG-rich parts of the genome." []
synonym: "reduced representation bisulfite-seq" EXACT []
synonym: "RRBS" EXACT []
synonym: "RRBS assay" EXACT []
is_a: OBI:0000748 ! bisulfite sequencing assay

[Term]
id: OBI:0001863
name: shotgun bisulfite-seq assay
def: "A bisulfite sequencing assay that identifies methylated cytosines across the genome using high throughput sequencing." []
synonym: "Shotgun bisulfite sequencing" EXACT []
synonym: "WGBS" EXACT []
synonym: "WGSBS" EXACT []
synonym: "whole genome bisulfite sequencing" EXACT []
synonym: "whole-genome shotgun bisulfite sequencing" EXACT []
is_a: OBI:0000748 ! bisulfite sequencing assay

[Term]
id: OBI:0001864
name: RNA Annotation and Mapping of Promoters for the Analysis of Gene Expression assay
def: "An transcription profiling assay that identifies transcription start sites (TSS), the quantification of their expression and the characterization of their transcripts using high throughput sequencing." []
synonym: "RAMPAGE" EXACT []
is_a: OBI:0000424 ! transcription profiling assay
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0001865
name: assay array
def: "A device made to be used in an analyte assay for immobilization of substances that bind the analyte at regular spatial positions on a surface." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0001866
name: secondary cultured cell
def: "A cultured cell that has been passaged or derives from a cell that has been passaged in culture." []
comment: A secondary cultured cell has been passaged in culture or is a descendant of such a cell that is derived through propagation in culture.
is_a: CL:0000010 ! cultured cell

[Term]
id: OBI:0001867
name: establishing cell line
def: "a process whereby a new type of cell line is created, either through passaging of a primary cell culture to relative genetic stability and compositional homogeneity, or through some experimental modification of an existing cell line to produce a new line with novel characteristics  (e.g. immortalization or some other stable genetic modification, or selection of some defined subset)." []
is_a: OBI:0600036 ! establishing cell culture

[Term]
id: OBI:0001868
name: genetic material
def: "A nucleic acid macromolecule that is part of a cell or virion and is inherited from an immediate ancestor, or incorporated in a manner that it has the disposition to be replicated and inherited by descendants." []
comment: Naturally occurring or experimentally incorporated nucleic acids that meet these criteria can qualify as genetic/genomic material.\n\nQualifying examples include: (1) inherited chromosomal DNA in germ cells, stem cells, fully differentiated cells, or cell line cells, or the DNA/RNA content of a virion; (2) natural replicons exchanged through horizontal gene transfer mechanisms such as bacterial conjugation, which are capable of replication and inheritance by progeny; (3) a chromosomally integrated  gene targeting DNA construct transfected into a cell; or (4) a stable extra-chromosomal replicon delivered into cells, such as a plasmid in bacterial host with ori allowing indefinite propagation.  \n\nNon-qualifying examples include a transiently transfected plasmid or siRNA oligo (as these are not able to be replicated and inherited by progeny cells).
synonym: "genomic material" EXACT []
synonym: "hereditary genetic material" EXACT []
is_a: CHEBI:33696 ! nucleic acid

[Term]
id: OBI:0001869
name: Illumina BeadChip
def: "An array that consists of 3-micron silica beads that self assemble in microwells on either of two materials: fiber optic bundles or planar silica slides." []
is_a: OBI:0001865 ! assay array

[Term]
id: OBI:0001870
name: Illumina methylation BeadChip
def: "A BeadChip made for an analyte assay that generates information about DNA methylation." []
is_a: OBI:0001869 ! Illumina BeadChip

[Term]
id: OBI:0001871
name: LSRFortessa X-20
def: "A flow cytometer analyzer manifactured by Becton ans Dickinson. Can be configured with up to 5 lasers, 488nm, 532 or 561 nm, 640 nm, 405 nm, 355 nm for measuring up to 20 parameters simultaneously." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0001872
name: sequence assembly process
def: "A data transformation that assembles two or more individual sequence reads into contiguous sequences (i.e., contigs)." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0001873
name: number of errors
def: "a data item that is the number of times that a given process failed, as an integer" []
is_a: IAO:0000027 ! data item
is_a: OBI:0001933 ! value specification

[Term]
id: OBI:0001874
name: random access memory size
def: "random access memory size is a scalar measurement datum which denotes the amount of physical memory know as random access memory present of a computer or required by a computational process or data transformation" []
is_a: IAO:0000032 ! scalar measurement datum

[Term]
id: OBI:0001875
name: cultured immune cell population
def: "a cultured cell population comprised of a single type of immune system cell" []
synonym: "immune cell culture sample" EXACT []
is_a: OBI:0100060 ! cultured cell population

[Term]
id: OBI:0001876
name: cell culture
def: "A material entity comprised of cultured cells and the media in which they are being propagated or stored." []
comment: A cell culture includes the cells in culture, as well as the media and all additives in which the cells are being grown or in which they are stored.
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0001877
name: random access memory
def: "Random-access memory (RAM) is a form of computer data storage. A random-access device allows stored data to be accessed directly in any random order. In contrast, other data storage media such as hard disks, CDs, DVDs and magnetic tape, as well as early primary memory types such as drum memory, read and write data only in a predetermined order, consecutively, because of mechanical design limitations. Therefore, the time to access a given data location varies significantly depending on its physical location" []
synonym: "RAM" EXACT []
is_a: IAO:0000178 ! material information bearer

[Term]
id: OBI:0001878
name: establishing primary cell culture
def: "an establishing cell culture process whereby cells explanted directly from an organismal source or specimen, and placed in culture for maintenance or propagation as a primary cell culture" []
comment: Cells are originally plated at a certain concentration referred to as seeding density. Upon a first passage this primary culture becomes a secondary cell culture that can be propagated to become a stable and homogneous cell line. This class covers establishment of primary cultures from any native cell - 'in vivo' cells isolated from some multicellular organism, or 'in environment' unicellular organisms isolated from some natural environment.
is_a: OBI:0600036 ! establishing cell culture

[Term]
id: OBI:0001879
name: reagent
def: "A biological or chemical entity that bears a reagent role in virtue of it being intended for application in a scientific technique  to participate in (or have molecular parts that participate in) a chemical reaction that facilitates the generation of data about some distinct entity, or the generation of some distinct material specified output." []
comment: (copied from ReO)\nReagents are distinguished from devices/instruments that also serve as facilitators in scientific techniques by the fact that reagents are chemical or biological in nature and necessarily participate in or have parts that participate in some chemical interaction or reaction during their intended participation in some technique.  By contrast, devices do not participate in a chemical reaction/interaction during the technique.\n\nReagents are distinguished from study subjects/evaluants in that study subjects and evaluants are that about which conclusions are drawn and knowledge is sought in an investigation - while reagents, by definition, are not.  It should be noted, however, that reagent and study subject/evaluant roles can be borne by instances of the same type of material entity - but a given instance can only realize one of these roles in the execution of a given  assay. For example, taq polymerase can bear a reagent role or an evaluant role.  In a DNA sequencing assay aimed at generating sequence data about some plasmid, the reagent role of the taq polymerase is realized. In an assay to evaluate the quality of the taq polymerase itself, the evaluant/study subject role of the taq is realized, but not the reagent role since the taq is the subject about which data is generated.\n\nIn regard to the statement that reagents are 'distinct' from the specified outputs of a technique:  note that a reagent may be incorporated into a material output of a technique, as long as the IDENTITY of this output is distinct from that of the bearer of the reagent role.  For example, dNTPs input into a PCR are reagents that become part of the material output of this technique, but this output has a new identity (ie that of a 'nucleic acid molecule') that is distinct from the identity of the dNTPs that comprise it.  Similarly, a biotin molecule input into a cell labeling technique are reagents that become part of the specified output, but the identity of the output is that of some modified cell specimen which shares identity with the input unmodified cell specimen, and not with the biotin label. Thus, we see that an important criteria of 'reagent-ness' is that it is a facilitator, and not the primary focus of an investigation or material processing technique (ie not the specified subject/evaluant about which knowledge is sought, or the specified output material of the technique).
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0001880
name: organization of specimen provider principal investigator
def: "An organization that is the affiliation of the principal investigator providing the specimens for the investigation" []
synonym: "Sample Provider PI's Institution" EXACT []
is_a: OBI:0000245 ! organization

[Term]
id: OBI:0001881
name: organization of Bioinformatics Resource Center contact person
def: "An organization that is the affiliation of the person who is contact representative of a Bioinformatics Resource Center" []
synonym: "Bioinformatics Resource Center Contact's Institution" EXACT []
is_a: OBI:0000245 ! organization

[Term]
id: OBI:0001882
name: target material in specimen specification
def: "A plan specification which specifies the type of material that will be assayed in an investigation." []
synonym: "Target Material" EXACT []
is_a: IAO:0000104 ! plan specification

[Term]
id: OBI:0001883
name: Bioinformatics Resource Center contact person
def: "A person who is the contact representative of a Bioinformatics Resource Center" []
synonym: "Bioinformatics Resource Center Contact Name" EXACT []
is_a: NCBITaxon:9606 ! Homo sapiens

[Term]
id: OBI:0001884
name: specimen-based scope of investigation specification
def: "A plan specification which specifies the scope of an investigation based on the heterogeneity of organisms or type of material that are the specified input of specimen collection." []
synonym: "Sample Scope" EXACT []
is_a: IAO:0000104 ! plan specification

[Term]
id: OBI:0001885
name: specimen repository organization
def: "An organization that provides a service to store and distribute specimens" []
synonym: "Specimen Repository" EXACT []
is_a: OBI:0000245 ! organization

[Term]
id: OBI:0001887
name: email address of Bioinformatics Resource Center contact person
def: "An email address of the person who is contact representative of a Bioinformatics Resource Center" []
synonym: "Bioinformatics Resource Center Contact's email" EXACT []
is_a: IAO:0000429 ! email address

[Term]
id: OBI:0001888
name: sequencing facility contact person
def: "A person who is the contact representative at the sequencing facility" []
synonym: "Sequencing Facility Contact Name" EXACT []
is_a: NCBITaxon:9606 ! Homo sapiens

[Term]
id: OBI:0001889
name: specimen provider principal investigator
def: "A person who is a principal investigator and provides the specimen" []
synonym: "Sample Provider Principal Investigator (PI) Name" EXACT []
is_a: NCBITaxon:9606 ! Homo sapiens

[Term]
id: OBI:0001890
name: email address of specimen collector
def: "An email address of the person collecting the specimen" []
synonym: "Specimen Collector's email" EXACT []
is_a: IAO:0000429 ! email address

[Term]
id: OBI:0001891
name: sequencing facility organization
def: "An organization that provides sequence determination service" []
synonym: "Sequencing Facility" EXACT []
is_a: OBI:0002198 ! molecular analysis facility organization

[Term]
id: OBI:0001892
name: specification of data to be generated in an investigation
def: "An objective specification which indicates the type of data that will be generated and submitted to a database." []
synonym: "Project Objectives" EXACT []
is_a: IAO:0000005 ! objective specification

[Term]
id: OBI:0001893
name: organization of specimen collector
def: "An organization that is the affiliation of the person collecting the specimen" []
synonym: "Specimen Collector's Institution" EXACT []
is_a: OBI:0000245 ! organization

[Term]
id: OBI:0001894
name: email address of sequencing facility contact person
def: "An email address of the contact representative at the sequencing facility" []
synonym: "Sequencing Facility Contact's email" EXACT []
is_a: IAO:0000429 ! email address

[Term]
id: OBI:0001895
name: specimen collector
def: "A person who collects the specimen" []
synonym: "Specimen Collector Name" EXACT []
is_a: NCBITaxon:9606 ! Homo sapiens

[Term]
id: OBI:0001896
name: investigation assay specification
def: "A plan specification which indicates the assay type used to obtain data." []
synonym: "Project Method" EXACT []
is_a: IAO:0000104 ! plan specification

[Term]
id: OBI:0001897
name: organization of sequencing facility contact person
def: "An organization that is the affiliation of the contact representative at the sequencing facility" []
synonym: "Sequencing Facility Contact's Institution" EXACT []
is_a: OBI:0000245 ! organization

[Term]
id: OBI:0001898
name: comment on investigation
def: "A textual entity that is about any of the aspects of an investigation worth noting" []
synonym: "Comments" EXACT []
is_a: IAO:0000300 ! textual entity

[Term]
id: OBI:0001899
name: target capture specification
def: "A plan specification which specifies how the material enrichment procedure will influence the scale, or type of material that will be assayed in the specimen." []
synonym: "Target Capture" EXACT []
is_a: IAO:0000104 ! plan specification

[Term]
id: OBI:0001900
name: specimen identifier assigned by specimen repository
def: "A specimen identifier which is assigned by a specimen repository" []
synonym: "Specimen Repository Sample ID" EXACT []
is_a: OBI:0001616 ! specimen identifier

[Term]
id: OBI:0001901
name: specimen identifier assigned by sequencing facility
def: "A specimen identifier which is assigned by a sequencing facility" []
synonym: "Sample ID - Sequencing Facility" EXACT []
is_a: OBI:0001616 ! specimen identifier

[Term]
id: OBI:0001902
name: sample preparation for sequencing assay
def: "A sample preparation for assay that preparation of nucleic acids for a sequencing assay" []
synonym: "Nucleic Acid Preparation Method" EXACT []
is_a: OBI:0000073 ! sample preparation for assay

[Term]
id: OBI:0001903
name: email address of specimen provider principal investigator
def: "An email address of the principal investigator providing the specimens for the investigation" []
synonym: "Sample Provider PI's email" EXACT []
is_a: IAO:0000429 ! email address

[Term]
id: OBI:0001904
name: sequencing service
def: "A service provides sequencing service which is the realization of some sequencing such as RNA and DNA sequencing in which the service provider role is realized." []
is_a: OBI:0001547 ! material analysis service

[Term]
id: OBI:0001905
name: secondary cultured cell population
def: "A cultured cell population that is derived through one or more passages in culture." []
comment: The concept of a 'secondary cultured cell population' covers cell lines as well as cultured cell populations more immediately derived from a primary culture which have yet to achieve adequate genetic stability and compositional homogeneity to be considered a cell line. The extent of the collection of cells in a 'secondary cultured cell population' is restricted only in that all cell members must share a propagation history (ie be derived through a common lineage of passages from an initial culture).  Secondary cultured cell populations can be under active culture, stored in a quiescent state for future use, or applied experimentally.
synonym: "secondary cell culture sample" EXACT []
is_a: OBI:0100060 ! cultured cell population

[Term]
id: OBI:0001906
name: cancer cell line
def: "An immortal cell line derived from a transformed cell that was part of a malignant tumor." []
is_a: CLO:0009828 ! immortal cell line

[Term]
id: OBI:0001907
name: immortalizing cell line transformation
def: "a genetic transformation of a cell line cell with transgenic constructs intended to confer the capability for indefinite propagation in culture" []
is_a: OBI:0600043 ! genetic transformation

[Term]
id: OBI:0001908
name: testable hypothesis
def: "An information content entity that expresses an assertion that is intended to be tested." []
synonym: "hypothesis" EXACT []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0001909
name: conclusion based on data
def: "An information content entity that is inferred from data." []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0001910
name: primary cell culture
def: "A cell culture comprised of primary cultured cells and the media in which they are being actively propaged or quiescently stored." []
is_a: OBI:0001876 ! cell culture

[Term]
id: OBI:0001911
name: cell line culture
def: "A cell culture comprised of cell line cells and the media in which they are being actively propagated or quiescently stored." []
comment: A cell line culture includes the cells in culture, as well as the media and all additives/reagents in which the cells are being grown or in which they are stored.
is_a: OBI:0001876 ! cell culture

[Term]
id: OBI:0001912
name: cell freezing medium
def: "A processed material that serves as a liquid vehicle for freezing cells for long term quiescent stroage, which contains chemicls needed to sustain cell viability across freeze-thaw cycles." []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0001913
name: computation run time
def: "computation run time is a time measurement datum which corresponds the time expressed in second, minute, hour necessary for a computer program to complete a process execution, for example genome assembly. It is an important metrics as it indicates the resource occupancy and computer program efficiency." []
synonym: "computation run time datum" EXACT []
is_a: IAO:0000416 ! time measurement datum

[Term]
id: OBI:0001914
name: multiplex ligation-mediated amplification
def: "A polymerase chain reaction that amplifies multiple targets with a single primer pair mediated by hybridization of a primer with its target sequence using ligation." []
synonym: "LMA" EXACT []
synonym: "MLPA" EXACT []
synonym: "Multiplex ligation-dependent probe amplification" EXACT []
is_a: OBI:0000415 ! polymerase chain reaction

[Term]
id: OBI:0001915
name: DNA replication timing by array assay
def: "An assay which quantifies the timing of DNA replication as a function of genome position using array technology." []
synonym: "Repli-chip" EXACT []
synonym: "Repli-chip assay" EXACT []
is_a: OBI:0002692 ! polymerase chain reaction assay

[Term]
id: OBI:0001916
name: DNA replication identification objective
def: "A molecular feature identification objective that aims to examine charateristics of DNA replication, such as replication time." []
is_a: OBI:0000131 ! molecular feature identification objective

[Term]
id: OBI:0001917
name: chromosome conformation identification objective
def: "A molecular feature identification objective that aims to determine spatial organization of chromatin." []
is_a: OBI:0000131 ! molecular feature identification objective

[Term]
id: OBI:0001918
name: RNA-binding protein immunoprecipitation array profiling assay
def: "An assay that combines immunoprecipitation of an RNA-binding protein and array technology to identify mRNAs associated with selected RNA binding proteins (RBPs)." []
synonym: "RIP-chip" EXACT []
synonym: "RIP-chip assay" EXACT []
is_a: OBI:0001985 ! microarray assay

[Term]
id: OBI:0001919
name: Carbon-copy chromosome conformation capture assay
def: "An assay that measures the organization of chromosomes at the genome-wide scale." []
synonym: "5C" EXACT []
synonym: "5C assay" EXACT []
is_a: OBI:0000626 ! DNA sequencing assay
is_a: OBI:0002692 ! polymerase chain reaction assay

[Term]
id: OBI:0001920
name: DNA replication timing by sequencing assay
def: "An assay in which timing of DNA replication is quantified as a function of genome position based on genome-wide sequencing." []
synonym: "Repli-seq" EXACT []
synonym: "Repli-seq assay" EXACT []
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0001921
name: RNA-binding protein immunoprecipitation tiling array profiling assay
def: "An RNA-binding protein immunoprecipitation array profiling assay that combines immunoprecipitation of an RNA-binding protein and RNA tiling array to identify mRNAs associated with selected RNA binding proteins (RBPs)." []
is_a: OBI:0001918 ! RNA-binding protein immunoprecipitation array profiling assay

[Term]
id: OBI:0001922
name: microRNA profiling by high throughput sequencing assay
def: "A microRNA profiling assay that analyzes the microRNA component of the transcriptome using high throughput sequencing technology." []
synonym: "microRNA-seq" EXACT []
synonym: "microRNA-seq assay" EXACT []
synonym: "miRNA-HTS" EXACT []
synonym: "miRNA-seq" EXACT []
is_a: OBI:0001926 ! microRNA profiling assay

[Term]
id: OBI:0001923
name: protein sequencing by tandem mass spectrometry assay
def: "A sequencing assay that detremines amino acid sequences of proteins using multiple rounds of mass spectrometry and molecule fragmentation." []
is_a: OBI:0000470 ! mass spectrometry assay
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0001924
name: micrococcal nuclease digestion followed by high throughput sequencing assay
def: "An assay that identifies nucleosome positioning by genome wide sequencing of regions sensitive to digestion by micrococal nuclease" []
synonym: "MNase-seq" EXACT []
synonym: "MNase-seq assay" EXACT []
is_a: OBI:0000626 ! DNA sequencing assay

[Term]
id: OBI:0001925
name: chromatin immunoprecipitation with exonuclease sequencing assay
def: "A ChIP-seq assay which uses immunoprecipitation to isolate protein bound DNA followed by an exonuclease step to degrade DNA that is not protein bound to provide greater resolution of the DNA binding site" []
synonym: "ChIP-exo assay" EXACT []
is_a: OBI:0000716 ! ChIP-seq assay

[Term]
id: OBI:0001926
name: microRNA profiling assay
def: "A transcription profiling assay that quantifies the microRNA species within a biological sample." []
synonym: "microRNA expression assay" EXACT []
synonym: "miRNA expression assay" EXACT []
is_a: OBI:0000424 ! transcription profiling assay

[Term]
id: OBI:0001928
name: selection
def: "A planned process with the objective to create a group of entities by applying a predefined criteria to a larger group of entities." []
synonym: "selection process" EXACT []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0001929
name: mass value specification
def: "A value specification that specifies the mass of some thing." []
is_a: OBI:0001931 ! scalar value specification

[Term]
id: OBI:0001930
name: categorical value specification
def: "A value specification that is specifies one category out of a fixed number of nominal categories" []
is_a: OBI:0001933 ! value specification

[Term]
id: OBI:0001931
name: scalar value specification
def: "A value specification that consists of two parts: a numeral and a unit label" []
is_a: OBI:0001933 ! value specification

[Term]
id: OBI:0001932
name: comparing prediction to measurement
def: "A planned process in which predicted values for some thing are compared to measured values for that thing." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0001933
name: value specification
def: "An information content entity that specifies a value within a classification scheme or on a quantitative scale." []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0001934
name: predicted value
def: "an information content entity that has been generated by a prediction process in which an estimate of a value of an entity is made which can be measured but without performing such a measurement. The value specification is intended to be close to the value a measurement process would produce modulo a prediction error." []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0001935
name: predicted mass value
def: "A predicted value where the prediction specifies the mass of some thing." []
is_a: OBI:0001934 ! predicted value

[Term]
id: OBI:0001936
name: molecular-labeled material
def: "a material entity that is the specified output of an addition of molecular label process that aims to label some molecular target to allow for its detection in a detection of molecular label assay" []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0001939
name: genome coverage
def: "A data item that is the total number of bases in reads, divided by genome size, assumed to be the reference size (for instance of 3.10 Gb for human and 2.73 Gb for mouse) and refers to the percentage of the genome that is contained in the assembly based on size estimates; these are usually based on cytological techniques. Genome coverage of 90–95% is generally considered to be good, as most genomes contain a considerable fraction of repetitive regions that are difficult to sequence. So it is not a cause for concern if the genome coverage of an assembly is a bit less than 100%." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0001940
name: N50
def: "the weighted median item size or N50 is a weighted median of the lengths of items, equal to the length of the longest item i such that the sum of the lengths of items greater than or equal in length to i is greater than or equal to half the length of all of the items. With regard to assemblies the items are typically contigs or scaffolds. It therefore denotes the ability of the software to create contigs and provides information about the resulting sequence assembly" []
synonym: "weighted median item size" EXACT []
is_a: IAO:0000032 ! scalar measurement datum

[Term]
id: OBI:0001941
name: contig N50
def: "N50 statistic computed for the contigs produced by the assembly process. A contig N50 is calculated by first ordering every contig by length from longest to shortest. Next, starting from the longest contig, the lengths of each contig are summed, until this running sum equals one-half of the total length of all contigs in the assembly. The contig N50 of the assembly is the length of the shortest contig in this list." []
is_a: OBI:0001940 ! N50

[Term]
id: OBI:0001942
name: grant agency
def: "An organization that provides funding support for projects such as investigations." []
synonym: "funding organization" EXACT []
is_a: OBI:0000245 ! organization

[Term]
id: OBI:0001943
name: software pipeline
def: "A plan specification that specifies a chain encoded in software of processing elements (processes, threads, coroutines, etc.), arranged so that the output of each element is the input of the next. Usually some amount of buffering is provided between consecutive elements." []
is_a: IAO:0000104 ! plan specification

[Term]
id: OBI:0001944
name: sequence annotation
def: "A planned process that identifies and reports sequence features (e.g. protein coding regions) in sequence data." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0001945
name: scaffold N50
def: "N50 statistic computed for the scaffold produced by the assembly process. The method for computing the value is similar to that of contig N50 but uses scaffold information instead of contig information" []
is_a: OBI:0001940 ! N50

[Term]
id: OBI:0001946
name: forward PCR primer
def: "A short oligonucleotide complementary to target DNA (5'->3' on plus strand) that acts as the leader for DNA extension in a PCR reaction. The polymerase starts replication at the 3'-end of the primer, and copies the opposite strand. A primer is characterized by its 'melting temperature' (Tm) and pairs of primers should have similar Tm." []
synonym: "5' primer" EXACT []
synonym: "forward primer" EXACT []
synonym: "sense primer" EXACT []
is_a: CHEBI:16991 ! deoxyribonucleic acid
is_a: OBI:0001879 ! reagent

[Term]
id: OBI:0001947
name: sequence annotation provider
def: "A person or organization reporting the feature annotation results from the analysis of a macromolecular sequence." []
synonym: "annotation provider" EXACT []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0001948
name: sequence assembly name
def: "A textual entity that is used to denote a sequence assembly." []
synonym: "assembly name" EXACT []
is_a: IAO:0000300 ! textual entity

[Term]
id: OBI:0001949
name: sequence annotation reporting role
def: "A reporting party role that is realized by a person or organization who reports the feature annotation results from the analysis of a macromolecular sequence." []
is_a: OBI:0000068 ! reporting party role

[Term]
id: OBI:0001951
name: reverse PCR primer
def: "A short oligonucleotide complementary to target DNA (5'->3' on minus strand) that acts as the leader for DNA extension in a PCR reaction. The polymerase starts replication at the 3'-end of the primer, and copies the opposite strand. A primer is characterized by its 'melting temperature' (Tm) and pairs of primers should have similar Tm." []
synonym: "3' primer" EXACT []
synonym: "antisense primer" EXACT []
synonym: "reverse primer" EXACT []
is_a: CHEBI:16991 ! deoxyribonucleic acid
is_a: OBI:0001879 ! reagent

[Term]
id: OBI:0001952
name: flash freezing
def: "A freezing process by which material entities are quickly frozen by subjecting them to cryogenic temperatures, or in direct contact with Liquid nitrogen at -320.8F or -196°C." []
is_a: OBI:0001953 ! freezing

[Term]
id: OBI:0001953
name: freezing
def: "A planned process with the objective to bring some material entity to a temperature below its freezing point." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0001954
name: ChIP assay
def: "An assay in which portions of chromatin, the ordered and organized complex of DNA and its interaction partners that make up a chormosome, is extracted and purified by immunoprecipitation with antibodies or tags, and subsequently analyzed" []
synonym: "chromatin immunoprecipitation assay" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0001955
name: competitive binding reference ligand role
def: "A positive reference substance role that inheres in a material entity that is known to bind to a target entity, and that is realized in a competitive binding assay that has as specified input the target entity, an evaluant and the positive reference substance, where the binding of the evaluant to the target is measured based on the evaluant's ability to compete with the positive reference substance for binding to the target." []
is_a: OBI:0000064 ! positive reference substance role

[Term]
id: OBI:0001956
name: assay using chromatin immunoprecipitation
def: "An assay that produces data about protein-DNA interaction or DNA epigenetic modification using immunoprecipitation" []
is_a: OBI:0001700 ! immunoprecipitation assay

[Term]
id: OBI:0001957
name: hardware testing design
def: "A study design that aims to compare different types of hardware for performance, reproducibility, accuracy and precision." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001958
name: systematic review study design
def: "A study design for identifying in the literature prior studies of a pre-determined phenomenon or set of related phenomena according to certain criteria, extracting findings from these studies, and summarizing these findings and/or attempting to draw new conclusions from them which were not justified by any of the individual, prior studies. Many systematic reviews also assess the quality of the studies so reviewed." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001959
name: multiplexed nucleotide library sequencing
def: "A planned process which consists in running a set of samples as a pool on a sequencing instrument, while retaining the ability to associate individual results to each of the individual input samples through the use of a ligated oligonucleotide (the \"multiplex identifier sequence\"). This oligonucleotide is  introduced during the sequence library preparation, and is unique to and specific for all library fragments derived from each sample in a sample pool." []
is_a: COB:0000110 ! material processing

[Term]
id: OBI:0001960
name: taxonomic diversity assessment by targeted gene survey
def: "An assay that dteremines taxonomic and community diversity information by sequencing specific genomic regions used as marker of identity or diversity." []
synonym: "environmental gene survey" EXACT []
synonym: "targeted gene survey" EXACT []
synonym: "targeted gene survey DNA barcoding" EXACT []
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0001961
name: PCR program
def: "a PCR program is a plan specification which is executed during a polymerase chain reaction (PCR) by a thermocycler instrument that will iterate through the changes in temperature and duration of each of the annealing, denaturation, elongation steps for as many times as specified by the program." []
is_a: IAO:0000104 ! plan specification

[Term]
id: OBI:0001962
name: target gene specification
def: "is a directive information specifying a coding genomic region which is the focus of a planned process such as an assay, for instance in a environmental gene survey" []
synonym: "target gene" EXACT []
is_a: IAO:0000033 ! directive information entity

[Term]
id: OBI:0001963
name: target subfragment specification
def: "is a directive information specifying a genomic region, possibly located in a coding genomic region, which is the focus of a planned process such as an assay, for instance in a environmental gene survey" []
synonym: "target subfragment" EXACT []
is_a: IAO:0000033 ! directive information entity

[Term]
id: OBI:0001964
name: decision-theoretic analysis objective
def: "An objective specification which what includes a description of two or more alternative actions to take in a particular situation and a metric that enables comparisons of the two actions. The objective specified is achieved in a planned process which includes a data transformation, the output of which is an identification of the 'best' choice according to the metric." []
synonym: "decision analysis objective" EXACT []
is_a: IAO:0000005 ! objective specification

[Term]
id: OBI:0001965
name: decision analysis study design
def: "a study design that has a decision analysis objective specification as part" []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0001966
name: sequence library data demultiplexing
def: "is a data transformation which uses sequence alignment and  'multiplex identifier sequence' information to separate all reads belonging to a given single sample following the sequencing of a multiplexed library" []
is_a: OBI:0200187 ! sequence analysis data transformation

[Term]
id: OBI:0001967
name: multiplexing sequence identifier
def: "A multiplexing sequence identifier is a nucleic acid sequence which is used in a ligation step of library preparation process to allow pooling of samples while maintaining ability to identify individual source material and creation of a multiplexed library" []
is_a: CHEBI:16991 ! deoxyribonucleic acid

[Term]
id: OBI:0001968
name: operational taxonomic unit matrix
def: "Operational Taxonomic Unit matrix  is a data item, organized as a table, where organismal taxonomic units, computed by sequence analysis and genetic distance calculation, are counted in a set of biological or environmental samples. The table is  used to appraise biodiversity of a population or community of living organism." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0001969
name: biodiversity assessment objective
def: "biodiversity assessment objective is an objective of a planned process aimed at producing data item whose interpretation should provide insight about variety of biological species found in a biological sample at macroscopic or microscopic level" []
is_a: OBI:0000015 ! biological feature identification objective

[Term]
id: OBI:0001970
name: multiplexed sequencing library
def: "a multiplexed library is a material entity which is the output of a library preparation process that uses a ligation step to attach a unique multiplexing sequence identifier to a specific sample, then mixes several such tagged samples prior to the library amplification process proper. A multiplexed library allows the sequencing of several samples in one sequencing run." []
synonym: "DNA-barcoded sequencing library" EXACT []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0001971
name: Ion 316 Chip v2
def: "An ion semiconductor chip manufactured by Life Technologies which detects polymerase-driven base incorporation to translate into digital form. The 316 chip is compatible with the Ion Torrent PGM and has a run time of: 3.0 hours for 200 bp reads with an output of 30-50 Mb, 4.9 hours for 400 bp reads with an output of 60 Mb-1 Gb." []
synonym: "Ion 316 Chip" EXACT []
synonym: "Ion PGM 316 Chip" EXACT []
synonym: "Ion PGM 316 Chip v2" EXACT []
is_a: OBI:0001973 ! ion semiconductor chip

[Term]
id: OBI:0001972
name: Ion 318 Chip v2
def: "An ion semiconductor chip manufactured by Life Technologies which detects polymerase-driven base incorporation to translate into digital form. The 318 chip is compatible with the Ion Torrent PGM and has a run time of: 4.4 hours for 200 bp reads with an output of 60 Mb-1 Gb, 7.3 hours for 400 bp reads with an output of 1.2 Gb-2 Gb." []
synonym: "Ion 318 Chip" EXACT []
synonym: "Ion PGM 318 Chip" EXACT []
synonym: "Ion PGM 318 Chip v2" EXACT []
is_a: OBI:0001973 ! ion semiconductor chip

[Term]
id: OBI:0001973
name: ion semiconductor chip
def: "An ion detector that is organized as an electronic circuit whose components, such as transistors and resistors, are etched or deposited on a single slice of semiconductor material to produce a chip. The specific chip detects ion charge induced when an ion passes by or hits a surface." []
synonym: "ion chip" EXACT []
synonym: "ion integrated circuit" EXACT []
synonym: "ion semiconductor" EXACT []
is_a: OBI:0000364 ! ion detector

[Term]
id: OBI:0001974
name: Ion 314 Chip v2
def: "An ion semiconductor chip manufactured by Life Technologies which detects polymerase-driven base incorporation to translate into digital form. The 314 chip is compatible with the Ion Torrent PGM and has a run time of: 2.3 hours for 200 bp reads with an output of 30-50 Mb, 3.7 hours for 400 bp reads with an output of 60-100 Mb." []
synonym: "Ion 314 Chip" EXACT []
synonym: "Ion PGM 314 Chip" EXACT []
synonym: "Ion PGM 314 Chip v2" EXACT []
is_a: OBI:0001973 ! ion semiconductor chip

[Term]
id: OBI:0001976
name: hydrogen/deuterium exchange footprinting assay
def: "A footprinting assay that uses a chemical reaction whereby a covalently bonded hydrogen atom is replaced by a deuterium atom, or vice versa in order to gather information about the solvent accessibility of parts of a molecule and thus its tertiary structure." []
is_a: OBI:0002162 ! footprinting assay

[Term]
id: OBI:0001977
name: cytometry assay
def: "An assay that counts and/or measures characteristics of cells." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0001978
name: immunoblot assay
def: "An analyte assay that detects specific molecules in an input material by separating it using gel electrophoresis, transfering the separated molecules to a membrane, and staining them with_ antibodies specific to the analyte molecules." []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0001979
name: fluorescence quenching binding assay
def: "A binding assay in which the proximity of two entities is monitored by measuring a fluorescent signal of one of the entities that gets reduced if the two entities are cliose to each other." []
is_a: OBI:0001499 ! binding assay using fluorescence detection

[Term]
id: OBI:0001980
name: in vivo intervention experiment
def: "An assay in which the effect of a targeted process (the intervention) on an organism is tested." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0001981
name: disease exacerbation in vivo intervention experiment
def: "An in vivo intervention experiment that tests the ability of the intervention to increase the severity of a disease in the host." []
is_a: OBI:0001980 ! in vivo intervention experiment

[Term]
id: OBI:0001982
name: protection from challenge in vivo intervention experiment
def: "An in vivo intervention experiment that tests the ability of the intervention to prevent occurrence of a disease in a host." []
is_a: OBI:0001980 ! in vivo intervention experiment

[Term]
id: OBI:0001983
name: tolerance induction intervention experiment
def: "An in vivo intervention experiment that tests the ability of the intervention to decrease an immune response." []
is_a: OBI:0001980 ! in vivo intervention experiment

[Term]
id: OBI:0001984
name: treatment intervention experiment
def: "An in vivo intervention experiment in which the ability of the intervention to reduce or cure the effects of a disease are tested." []
is_a: OBI:0001980 ! in vivo intervention experiment

[Term]
id: OBI:0001985
name: microarray assay
def: "An analyte assay where binding of the analyte to immobilized matrix is measured." []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0001986
name: immunohistochemistry
def: "An immunostaining assay to detect and potentially localize antigens within the cells of a tissue section." []
is_a: OBI:0001632 ! immuno staining assay

[Term]
id: OBI:0001987
name: assay measuring the association constant [KA] of a MHC:ligand complex
def: "A MHC binding constant determination assay measuring equilibrium association constant (KA)." []
synonym: "association constant KA|binding assay|1/M" EXACT []
is_a: OBI:0001553 ! assay measuring a binding constant of a MHC:ligand complex

[Term]
id: OBI:0001988
name: assay measuring the dissociation constant [KD] of a MHC:ligand complex
def: "A MHC binding constant determination assay measuring equilibrium dissociation constant (KD)." []
synonym: "dissociation constant KD|binding assay|nM" EXACT []
is_a: OBI:0001553 ! assay measuring a binding constant of a MHC:ligand complex

[Term]
id: OBI:0001989
name: radioactivity detection assay measuring equilibrium dissociation constant [KD] to determine competitive binding of a purified-MHC:ligand complex
def: "A radioactivity detection assay that measures equilibrium dissociation constant (KD) to detect the loss of binding of a known reference ligand to purified-MHC due to competition by the ligand under investigation." []
synonym: "dissociation constant KD|purified MHC/direct/radioactivity|nM" EXACT []
is_a: OBI:0001491 ! binding assay using radioactivity detection
is_a: OBI:0001988 ! assay measuring the dissociation constant [KD] of a MHC:ligand complex

[Term]
id: OBI:0001990
name: assay measuring the half life of a MHC:ligand complex
def: "A MHC binding constant determination assay measuring half life of binding." []
synonym: "half life|binding assay|min" EXACT []
is_a: OBI:0001553 ! assay measuring a binding constant of a MHC:ligand complex

[Term]
id: OBI:0001991
name: assay measuring the half maximal effective concentration [EC50] of a MHC:ligand complex
def: "A MHC binding constant determination assay measuring half maximal effective concentration (EC50)." []
synonym: "half maximal effective concentration (EC50)|binding assay|nM" EXACT []
is_a: OBI:0003145 ! assay measuring quantitative binding of a MHC:ligand complex

[Term]
id: OBI:0001992
name: assay measuring the half maximal inhibitory concentration [IC50] of a MHC:ligand complex
def: "A MHC binding constant determination assay measuring half maximal inhibitory concentration (IC50)." []
synonym: "half maximal inhibitory concentration (IC50)|binding assay|nM" EXACT []
is_a: OBI:0003145 ! assay measuring quantitative binding of a MHC:ligand complex

[Term]
id: OBI:0001993
name: assay measuring the off rate measurement [koff] of a MHC:ligand complex
def: "A MHC binding constant determination assay measuring binding off rate measurement data item (koff)." []
synonym: "off rate|binding assay|1/s" EXACT []
is_a: OBI:0001553 ! assay measuring a binding constant of a MHC:ligand complex

[Term]
id: OBI:0001994
name: assay measuring the MHC ligand binding on rate [kon] of a MHC:ligand complex
def: "A MHC binding constant determination assay measuring binding on rate (kon)." []
synonym: "on rate|binding assay|nM^-1s^-1" EXACT []
is_a: OBI:0001553 ! assay measuring a binding constant of a MHC:ligand complex

[Term]
id: OBI:0001995
name: chromatography assay measuring the association constant [KA] of a B cell epitope:antibody complex
def: "An analytical chromatography assay that measures the association constant [KA] of an antigen binding with an antibody." []
synonym: "association constant KA|chromatography|1/nM" EXACT []
is_a: OBI:0001630 ! analytical chromatography
is_a: OBI:0001719 ! assay measuring the association constant [KA] of a B cell epitope:antibody complex

[Term]
id: OBI:0001996
name: chromatography assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex
def: "An analytical chromatography assay that measures the dissociation constant [KD] of an antigen binding with an antibody." []
synonym: "dissociation constant KD|chromatography|nM" EXACT []
is_a: OBI:0001630 ! analytical chromatography
is_a: OBI:0001708 ! assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex

[Term]
id: OBI:0001997
name: hydrogen/deuterium exchange footprinting assay measuring binding of a B cell epitope:antibody complex
def: "A hydrogen/deuterium exchange footprinting assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|hydrogen/deuterium exchange footprinting assay" EXACT []
is_a: OBI:0001976 ! hydrogen/deuterium exchange footprinting assay
is_a: OBI:0002449 ! footprinting assay measuring binding of a B cell epitope:antibody complex

[Term]
id: OBI:0001998
name: immunohistochemistry assay measuring binding of a B cell epitope:antibody complex
def: "A immunohistochemistry assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|immunohistochemistry" EXACT []
is_a: OBI:0001652 ! immuno staining assay measuring binding of a B cell epitope:antibody complex
is_a: OBI:0001986 ! immunohistochemistry

[Term]
id: OBI:0001999
name: 3D molecular structure determination assay of a T cell epitope:MHC:TCR complex
def: "A 3D structure determination of bound molecular complex assay that characterizes the 3-dimensional structure of a T cell epitope:MHC:TCR complex." []
synonym: "3D structure|any method" EXACT []
is_a: OBI:0001145 ! 3D structure determination of bound molecular complex assay
is_a: OBI:0003128 ! T cell epitope assay

[Term]
id: OBI:0002000
name: Illumina Genome Analyzer IIx
def: "An Illumina Genome Analyzer II which is manufactured by the Illumina corporation. It supports sequencing of single, long or short insert paired end clone libraries relying on sequencing by synthesis technology. The Genome Analyzer IIx is the most widely adopted next-generation sequencing platform and proven and published across the broadest range of research applications." []
synonym: "Genome Analyzer IIx" EXACT []
synonym: "Illumina GA IIx" EXACT []
is_a: OBI:0000703 ! Illumina Genome Analyzer II

[Term]
id: OBI:0002001
name: Illumina HiSeq 2000
def: "A DNA sequencer which is manufactured by the Illumina corporation, with two flow cells and a throughput of up to 55 Gb per day. Built upon sequencing by synthesis technology, the machine is optimized for generation of data for multiple samples in a single run." []
synonym: "HiSeq 2000" EXACT []
is_a: OBI:0003683 ! Illumina HiSeq series instrument

[Term]
id: OBI:0002002
name: Illumina HiSeq 2500
def: "A DNA sequencer which is manufactured by the Illumina corporation, with two flow cells and a throughput of up to 160 Gb per day. Built upon sequencing by synthesis technology, the machine is optimized for generation of data for batching multiple samples or rapid results on a few samples." []
synonym: "HiSeq 2500" EXACT []
is_a: OBI:0003683 ! Illumina HiSeq series instrument

[Term]
id: OBI:0002003
name: Illumina MiSeq
def: "A DNA sequencer which is manufactured by the Illumina corporation. Built upon sequencing by synthesis technology, the machine provides an end-to-end solution (cluster generation, amplification, sequencing, and data analysis) in a single machine." []
synonym: "MiSeq" EXACT []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0002004
name: Methylation 450K BeadChip
def: "A methylation BeadChip which is manufactured by the Illumina corporation. Built upon BeadChip tehcnology, the array interrogates ~ 485,000 methylation sites per sample at single-nucleotide resolution." []
synonym: "Illumina Infinium Human Methylation 450K BeadChip" EXACT []
is_a: OBI:0001870 ! Illumina methylation BeadChip

[Term]
id: OBI:0002005
name: Methylation 27K BeadChip
def: "A methylation BeadChip which is manufactured by the Illumina corporation. Built upon BeadChip tehcnology, the array interrogates ~ 27,000 CpG sites per sample at single-nucleotide resolution." []
synonym: "Illumina Infinium Human Methylation 27K BeadChip" EXACT []
is_a: OBI:0001870 ! Illumina methylation BeadChip

[Term]
id: OBI:0002006
name: 1M-Duo Infinium HD BeadChip
def: "A BeadChip which is manufactured by the Illumina corporation. Built upon BeadChip tehcnology, the array integrates ~ 1 million markers per sample for genotyping, and copy number variation (CNV) and Cytogenetic analysis." []
synonym: "Illumina Human 1M-Duo Infinium HD BeadChip" EXACT []
is_a: OBI:0001869 ! Illumina BeadChip

[Term]
id: OBI:0002007
name: SOLiD 3 Plus System
def: "A DNA sequencer which is manufacted by the Applied Biosystems corporation. Built upon SOLiD sequencing technology, the machine generates greater than 1 billion mappable reads per run." []
synonym: "Applied Biosystems SOLiD 3 Plus System" EXACT []
is_a: OBI:0000696 ! AB SOLiD System

[Term]
id: OBI:0002008
name: Mouse 385K Whole Genome CGH Tiling Array
def: "A tiling array which is manufactured by the Nimblegen corporation. Built to analyze DNA sequence copy number by comparative genomic hybridization for mouse DNA against 385,000 features." []
synonym: "Nimblegen Mouse 385K Whole Genome CGH Tiling Array" EXACT []
is_a: OBI:0001307 ! tiling microarray

[Term]
id: OBI:0002009
name: Mouse 3x720K Whole Genome CGH Tiling Array
def: "A tiling array which is manufactured by the Nimblegen corporation. Built to analyze DNA sequence copy number by comparative genomic hybridization for mouse DNA against 3x720,000 features." []
synonym: "Nimblegen Mouse 3x720K Whole Genome CGH Tiling Array" EXACT []
is_a: OBI:0001307 ! tiling microarray

[Term]
id: OBI:0002010
name: Human 3x720K Whole Genome CGH Tiling Array
def: "A tiling array which is manufactured by the Nimblegen corporation. Built to analyze DNA sequence copy number by comparative genomic hybridization for human DNA against 3x720,000 features." []
synonym: "Nimblegen Human 3x720K Whole Genome CGH Tiling Array" EXACT []
is_a: OBI:0001307 ! tiling microarray

[Term]
id: OBI:0002011
name: Human 2.1M Whole-Genome CGH Tiling Array v2.0
def: "A tiling array which is manufactured by the Nimblegen corporation. Built to analyze DNA sequence copy number by comparative genomic hybridization for human DNA against 2.1 million features." []
synonym: "Nimblegen Human 2.1M Whole-Genome CGH Tiling Array v2.0" EXACT []
is_a: OBI:0001307 ! tiling microarray

[Term]
id: OBI:0002012
name: PacBio RS II
def: "A DNA sequencer which is manufactured by the Pacific Biosciences corporation. Built upon single molecule real-time sequencing technology, the machine is optimized for generation with long reads and high consensus accuracy." []
synonym: "Pacific Biosciences RS II" EXACT []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0002013
name: nCounter Human miRNA Expression array
def: "A human array which is manufacutred by NanoString Technologies. Built upon color-coded molecular barcodes technology, the array profiles miRNA with increased specificity and sensitivty than microarrays." []
is_a: OBI:0001865 ! assay array

[Term]
id: OBI:0002014
name: DNA methylation profiling by ChIP-chip assay
def: "An epigenetic modification assay that identifies sites of DNA methylation using ChIP-chip technologies." []
synonym: "DNA methylation ChIP-chip" EXACT []
is_a: OBI:0001248 ! ChIP-chip assay
is_a: OBI:0002020 ! epigenetic modification assay

[Term]
id: OBI:0002015
name: transcription profiling by MPSS assay
def: "A transcription profiling assay that uses Massive Parallel Signature Sequencing (MPSS)." []
synonym: "expression MPSS" EXACT []
is_a: OBI:0000424 ! transcription profiling assay

[Term]
id: OBI:0002016
name: histone modification identification by ChIP-chip assay
def: "An epigenetic modification assay that identifies regions containing specific histones and their modifications using ChIP-chip techniques." []
synonym: "histone modification ChIP-chip" EXACT []
is_a: OBI:0001248 ! ChIP-chip assay
is_a: OBI:0002020 ! epigenetic modification assay

[Term]
id: OBI:0002017
name: histone modification identification by ChIP-Seq assay
def: "An epigenetic modification assay that identifies regions containing specific histones and their modifications using ChIP-Seq techniques." []
synonym: "histone modification ChIP-Seq" EXACT []
is_a: OBI:0000716 ! ChIP-seq assay
is_a: OBI:0002020 ! epigenetic modification assay

[Term]
id: OBI:0002018
name: transcription factor binding site identification by ChIP-chip assay
def: "A transcription factor binding site assay that utilizes ChIP-chip technology." []
synonym: "TF Binding ChIP-chip" EXACT []
is_a: OBI:0000291 ! transcription factor binding site assay
is_a: OBI:0001248 ! ChIP-chip assay

[Term]
id: OBI:0002019
name: transcription factor binding site identification by ChIP-Seq assay
def: "A transcription factor binding site assay that utilizes ChIP-seq technology." []
synonym: "TF Binding ChIP-Seq" EXACT []
is_a: OBI:0000291 ! transcription factor binding site assay
is_a: OBI:0000716 ! ChIP-seq assay

[Term]
id: OBI:0002020
name: epigenetic modification assay
def: "An assay that identifies epigenetic modifications including histone modifications, open chromatin, and DNA methylation." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002021
name: Illumina NextSeq 500
def: "A DNA sequencer which is a desktop sequencer ideal for smaller-scale studies manufactured by the Illumina corporation. It supports sequencing of single, long or short insert paired end clone libraries relying on sequencing by synthesis technology." []
synonym: "NextSeq 500" EXACT []
is_a: OBI:0003684 ! Illumina NextSeq series instrument

[Term]
id: OBI:0002022
name: Illumina HiSeq 1000
def: "A DNA sequencer which is manufactured by the Illumina corporation, with a single flow cell and a throughput of up to 35 Gb per day. It supports sequencing of single, long or short insert paired end clone libraries relying on sequencing by synthesis technology." []
synonym: "HiSeq 1000" EXACT []
is_a: OBI:0003683 ! Illumina HiSeq series instrument

[Term]
id: OBI:0002023
name: Human Genome U133 Plus 2.0 tiling array
def: "A tiling array which is  a comprehensive whole human genome expression array manufactured by the Affymetrix corporation. Built to analyze DNA sequence copy number by comparative genomic hybridization for human DNA against 47,000 transcripts and variants." []
synonym: "Affymetrix HT Human Genome U133 Plus 2 Array Plate Set" EXACT []
synonym: "HG-U133 Plus 2" EXACT []
synonym: "HG-U133 Plus 2 array" EXACT []
is_a: OBI:0001307 ! tiling microarray

[Term]
id: OBI:0002024
name: SOLiD 4 System
def: "An AB SOLid System which is manufacted by the Applied Biosystems corporation. Built upon SOLiD sequencing technology, the machine generates greater than 1 billion mappable reads per run." []
synonym: "Applied Biosystems SOLiD 4 System" EXACT []
synonym: "SOLiD 4" EXACT []
is_a: OBI:0000696 ! AB SOLiD System

[Term]
id: OBI:0002025
name: Human Exon 1.0 ST tilling array
def: "A tiling microarray which is manufactured by the Affymetrix corporation. Built to analyze 3' DNA sequence copy number by comparative genomic hybridization for human DNA against 28,000 genes. It  can be used for gene expression and alternative splicing assay" []
synonym: "Affymetrix Human Exon 1.0 St Array" EXACT []
synonym: "Human Exon 1.0" EXACT []
synonym: "Human Exon 1.0 ST Array" EXACT []
is_a: OBI:0001307 ! tiling microarray

[Term]
id: OBI:0002026
name: Human Genome U133 tiling array
def: "A tiling array which is manufactured by the Affymetrix corporation. Built to analyze DNA sequence copy number by comparative genomic hybridization for human DNA against 39,000 transcripts and variants." []
synonym: "Affymetrix HT Human Genome U133 Array Plate Set" EXACT []
synonym: "HG-U133" EXACT []
synonym: "HG-U133 array" EXACT []
is_a: OBI:0001307 ! tiling microarray

[Term]
id: OBI:0002027
name: Illumina Genome Analyzer IIe
def: "An Illumina Genome Analyzer II which is manufactured by the Illumina corporation. It supports sequencing of single, long or short insert paired end clone libraries relying on sequencing by synthesis technology. The Genome Analyzer IIe makes industry-leading next-generation sequencing technology accessible to more laboratories." []
synonym: "Genome Analyzer IIe" EXACT []
synonym: "Illumina GA IIe" EXACT []
is_a: OBI:0000703 ! Illumina Genome Analyzer II

[Term]
id: OBI:0002028
name: SAGE ditag library preparation
def: "A library preparation in which tags identifiying transcripts are created, ligated to form ditags, amplified, concatemerized and ligated into a vector to create a library." []
is_a: OBI:0000711 ! library preparation

[Term]
id: OBI:0002029
name: serial analysis of gene expression assay
def: "A transcription profiling assay that quantifies RNA through creating short signature tags of the messages and ligating them into a larger molecule than was sequenced." []
synonym: "SAGE" EXACT []
is_a: OBI:0000424 ! transcription profiling assay

[Term]
id: OBI:0002030
name: genotyping by tiling array assay
def: "A genotyping by array assay that uses tiling array technology." []
synonym: "DNA sequence variation detection by tiling array" EXACT []
is_a: OBI:0001274 ! genotyping by array assay

[Term]
id: OBI:0002031
name: genotyping by SNP array assay
def: "A genotyping by array assay that uses SNP array technology." []
synonym: "DNA sequence variation detection by snp array" EXACT []
is_a: OBI:0001274 ! genotyping by array assay

[Term]
id: OBI:0002032
name: parallel analysis of RNA structure assay
def: "A single-nucleotide-resolution nucleic acid structure mapping assay that performs simultaneous in vitro profiling of the secondary structure of thousands of RNA species at single nucleotide resolution using enzymatic probing based on deep sequencing fragments of RNAs that were treated with structure-specific enzymes" []
synonym: "PARS" EXACT []
is_a: OBI:0001014 ! single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing

[Term]
id: OBI:0002033
name: translation-associated transcript leader sequencing assay
def: "An RNA-seq assay that combines TL-seq with polysome fractionation" []
synonym: "TATL-seq" EXACT []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0002034
name: transcript leader sequencing assay
def: "An RNA-seq assay that combines enzymatic capture of m(7)G-capped mRNA 5' ends with high-throughput sequencing." []
synonym: "TL-seq" EXACT []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0002035
name: peptide mass fingerprinting assay
def: "A mass spectrometry assay that measures the absolute mass of the cleaved peptides derived from an unknown protein of interest. These masses are then compared to values for known protein sequences to identify the unknown protein." []
synonym: "PMF" EXACT []
synonym: "protein fingerprinting" EXACT []
is_a: OBI:0000470 ! mass spectrometry assay

[Term]
id: OBI:0002036
name: array based nucleic acid structure mapping assay
def: "An assay which aims to provide information about the in vivo organization/structure of nucleic acids using chemical or enzymatic probes using a microarray." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002037
name: micrococcal nuclease digestion followed by tiling array assay
def: "An array based nucleic acid structure mapping assay that identifies nucleosome positions genome wide, by detection of regions protected by nucleosomes from digestion by micrococal nuclease using tiling array assays" []
is_a: OBI:0002036 ! array based nucleic acid structure mapping assay

[Term]
id: OBI:0002038
name: ribosomal profiling by sequencing assay
def: "A RNA-seq assay that sequences only mRNA protected by the ribosome during translation." []
synonym: "Ribo-seq" EXACT []
synonym: "Ribo-seq assay" EXACT []
synonym: "ribosomal profiling" EXACT []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0002039
name: assay for transposase-accessible chromatin using sequencing
def: "An assay to capture the location of open chromatin, DNA-binding proteins, individual nucleosomes and chromatin compaction at nucleotide resolution by Tn5 transposase insertion." []
synonym: "ATAC-seq" EXACT []
synonym: "ATAC-seq assay" EXACT []
is_a: OBI:0003686 ! chromatin accessibility assay

[Term]
id: OBI:0002040
name: chromatin isolation by RNA purification sequencing assay
def: "A detection of specific nucleic acids with complementary probes assay that measures regions of the genome which are bound by a specific RNA (or a by a ribonucleoprotein containing the RNA of interest) using high-throughput sequencing." []
synonym: "ChIRP-seq" EXACT []
synonym: "ChIRP-seq assay" EXACT []
synonym: "Chromatin Isolation by RNA purification" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes

[Term]
id: OBI:0002041
name: self-transcribing active regulatory region sequencing assay
def: "An RNA-seq assay that identifies the sequences that act as transcriptional enhancers in a direct, quantitative, and genome-wide manner from sheared genomic DNA." []
synonym: "self-transcribing active regulatory region sequencing" EXACT []
synonym: "STARR-seq" EXACT []
synonym: "STARR-seq assay" EXACT []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0002042
name: carbon-copy chromosome conformation capture assay followed by sequencing assay
def: "A carbon-copy chromosome conformation capture assay to analyze the organization of chromosomes in an unbiased, genome-wide manner using high throughput sequening following carbon-copy chromosome conformation capture." []
synonym: "Carbon-copy chromosome conformation capture assay followed by sequencing" EXACT []
synonym: "HiC" EXACT []
synonym: "HiC assay" EXACT []
is_a: OBI:0001919 ! Carbon-copy chromosome conformation capture assay

[Term]
id: OBI:0002043
name: individual-nucleotide resolution cross-linking and immunoprecipitation sequencing assay
def: "A cross-linking immunoprecipitation high-throughput sequencing assay that identifies protein-RNA interactions using UV light to covalently bind proteins and RNA molecules, allowing for a very stringent purification of the linked protein-RNA complexes." []
synonym: "iCLIP" EXACT []
synonym: "iCLIP assay" EXACT []
synonym: "individual-nucleotide resolution cross-linking and immunoprecipitation" EXACT []
is_a: OBI:0001858 ! cross-linking immunoprecipitation high-throughput sequencing assay

[Term]
id: OBI:0002044
name: RNA Bind-n-Seq assay
def: "An RNA-seq assay that comprehensively characterizes sequence and structural specificity of RNA binding proteins (RBPs)." []
synonym: "RBNS" EXACT []
synonym: "RNA Bind-n-Seq" EXACT []
synonym: "RNBS assay" EXACT []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0002045
name: polyA-site sequencing assay
def: "A RNA-seq assay that quantitatively profiles RNA polyadenylation at the transcriptome level." []
synonym: "PAS-seq" EXACT []
synonym: "PAS-seq assay" EXACT []
synonym: "Poly(A)-site sequencing" EXACT []
synonym: "poly(A)-site sequencing assay" EXACT []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0002046
name: surface plasmon resonance sensor chip
def: "A device that is used as a binding surface for ligand during a surface plasmon resonance assay, consisting of a glass plate to which a metal film is attached" []
synonym: "biosensor chip" EXACT []
synonym: "sensor chip" EXACT []
synonym: "SPR sensor chip" EXACT []
is_a: COB:0001300 ! device

[Term]
id: OBI:0002047
name: enzyme-linked antibody
def: "A processed material that is comprised of an antibody that is covalently linked to an enzyme through bioconjugation. The enzyme can be used as a detection method when the enzyme's reaction produces a detectable signal, for example a color change when the substrate is added." []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0002048
name: Illumina HiSeq 3000
def: "A DNA sequencer manufactured by Illumina corporation, with a single flow cell and a throughput of more than 200 Gb per day." []
synonym: "HiSeq 3000" EXACT []
is_a: OBI:0003683 ! Illumina HiSeq series instrument

[Term]
id: OBI:0002049
name: Illumina HiSeq 4000
def: "A DNA sequencer manufactured by Illumina corporation, with two flow cell and a throughput of more than 400 Gb per day." []
synonym: "HiSeq 4000" EXACT []
is_a: OBI:0003683 ! Illumina HiSeq series instrument

[Term]
id: OBI:0002050
name: 3D molecular structure determination assay of a MHC:ligand complex
def: "A 3D structure determination of bound molecular complex assay that characterizes the 3-dimensional structure of a MHC:ligand complex." []
synonym: "3D structure|any method" EXACT []
is_a: OBI:0001145 ! 3D structure determination of bound molecular complex assay
is_a: OBI:0002075 ! MHC ligand assay

[Term]
id: OBI:0002051
name: in vivo assay measuring B cell epitope specific protection from infectious challenge based on pathogen burden
def: "An in vivo assay measuring B cell epitope specific protection from pathogen challenge using pathogen burden." []
synonym: "pathogen burden after challenge|in vivo assay" EXACT []
is_a: OBI:0001186 ! epitope protection from infectious challenge experiment based on pathogen burden
is_a: OBI:0003465 ! in vivo assay measuring B cell epitope specific protection from pathogen challenge

[Term]
id: OBI:0002052
name: in vivo assay measuring B cell epitope specific protection after tumor burden challenge
def: "An in vivo assay measuring B cell epitope specific protection from tumor challenge using tumor burden." []
synonym: "tumor burden after challenge|in vivo assay" EXACT []
is_a: OBI:0003458 ! epitope protection from tumor challenge experiment based on burden
is_a: OBI:0003466 ! in vivo assay measuring B cell epitope specific protection from tumor challenge

[Term]
id: OBI:0002053
name: microarray assay measuring binding of a B cell epitope:antibody complex
def: "A microarray assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|microarray" EXACT []
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex
is_a: OBI:0001985 ! microarray assay

[Term]
id: OBI:0002054
name: NMR assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex
def: "A B cell epitope equilibrium dissociation constant (KD) determination assay that uses a nuclear magnetic resonance assay." []
synonym: "dissociation constant KD|nuclear magnetic resonance (NMR)|nM" EXACT []
is_a: OBI:0001708 ! assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex

[Term]
id: OBI:0002055
name: assay measuring biological activity resulting from T cell epitope:MHC:TCR binding
def: "A T cell epitope recognition assay that measures the immune response process resulting from the binding of a T cell receptor to epitope or the recongition of the epitope." []
synonym: "biological activity|any method" EXACT []
is_a: OBI:0003128 ! T cell epitope assay

[Term]
id: OBI:0002056
name: assay measuring epitope specific chemokine (C-C motif) ligand 17 production by T cells
def: "A T cell epitope specific cytokine production assay that detects production of chemokine (C-C motif) ligand 17 production by T cells." []
synonym: "CCL17/TARC release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0002057
name: assay measuring epitope specific macrophage migration inhibitory factor (MIF) production by T cells
def: "A T cell epitope specific cytokine production assay that detects macrophage migration inhibitory factor (MIF) production by T cells." []
synonym: "MIF release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0002058
name: assay measuring epitope specific oncostatin M production by T cells
def: "A T cell epitope specific cytokine production assay that detects oncostatin M production by T cells." []
synonym: "oncostatin M release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0002059
name: assay measuring a binding constant of a T cell epitope:MHC:TCR complex
def: "A T cell epitope recognition assay that quantitavely characterizes the binding of a TCR with a ligand by determining a binding constant." []
synonym: "binding constant|binding assay" EXACT []
is_a: OBI:0003147 ! assay measuring quantitative binding of an epitope:MHC:TCR complex

[Term]
id: OBI:0002060
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific chemokine (C-C motif) ligand 17 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects chemokine (C-C motif) ligand 17 production by T cells." []
synonym: "CCL17/TARC release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0002056 ! assay measuring epitope specific chemokine (C-C motif) ligand 17 production by T cells

[Term]
id: OBI:0002061
name: cytometric bead array assay measuring epitope specific chemokine (C-C motif) ligand 22 production by T cells
def: "A cytometric bead array assay that detects chemokine (C-C motif) ligand 22 production by T cells." []
synonym: "CCL22/MDC release|cytometric bead array" EXACT []
is_a: OBI:0001777 ! assay measuring epitope specific chemokine (C-C motif) ligand 22 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0002062
name: in vitro assay measuring epitope specific T cell killing
def: "An in vitro cell killing assay that measures the killing of antigen presenting cells (APC) by T cells whose TCR recognizes an epitope presented by the APC." []
synonym: "cytotoxicity|in vitro assay" EXACT []
is_a: OBI:0000903 ! in vitro cell killing assay
is_a: OBI:1110130 ! assay measuring epitope specific T cell killing

[Term]
id: OBI:0002063
name: cytometric bead array assay measuring epitope specific granzyme A release by T cells
def: "A cytometric bead array assay that detects epitope specific granzyme A release by T cells." []
synonym: "granzyme A release|cytometric bead array" EXACT []
is_a: OBI:0001809 ! assay measuring epitope specific granzyme A release by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0002064
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific granzyme A release by T cells
def: "A detection of specific nucleic acids with complementary probes assay that detects epitope specific granzyme A release by T cells." []
synonym: "granzyme A release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001809 ! assay measuring epitope specific granzyme A release by T cells

[Term]
id: OBI:0002065
name: cytometric bead array assay measuring epitope specific granzyme B release by T cells
def: "A cytometric bead array assay that detects epitope specific granzyme B release by T cells." []
synonym: "granzyme B release|cytometric bead array" EXACT []
is_a: OBI:0001436 ! assay measuring epitope specific granzyme B release by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0002066
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific granzyme B release by T cells
def: "A detection of specific nucleic acids with complementary probes assay that detects epitope specific granzyme B release by T cells" []
synonym: "granzyme B release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0001436 ! assay measuring epitope specific granzyme B release by T cells

[Term]
id: OBI:0002067
name: cytometric bead array assay measuring epitope specific macrophage migration inhibitory factor (MIF) production by T cells
def: "A cytometric bead array assay that detects macrophage migration inhibitory factor (MIF) production by T cells." []
synonym: "MIF release|cytometric bead array" EXACT []
is_a: OBI:0002057 ! assay measuring epitope specific macrophage migration inhibitory factor (MIF) production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0002068
name: cytometric bead array assay measuring epitope specific oncostatin M production by T cells
def: "A cytometric bead array assay that detects oncostatin M production by T cells." []
synonym: "oncostatin M release|cytometric bead array" EXACT []
is_a: OBI:0002058 ! assay measuring epitope specific oncostatin M production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0002069
name: ELISPOT assay measuring epitope specific perforin release by T cells
def: "An enzyme-linked immunospot assay that detects epitope specific perforin release by T cells." []
synonym: "perforin release|ELISPOT" EXACT []
is_a: OBI:0001497 ! assay measuring epitope specific perforin release by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:0002070
name: in vivo assay measuring epitope specific proliferation of T cells
def: "A T cell epitope specific proliferation assay that is performed in vivo." []
synonym: "proliferation|in vivo assay" EXACT []
is_a: OBI:0001484 ! assay measuring T cell epitope specific in vivo activity
is_a: OBI:1110131 ! assay measuring epitope specific proliferation of T cells

[Term]
id: OBI:0002071
name: in vitro assay measuring epitope specific proliferation of T cells
def: "A T cell epitope specific proliferation assay that is performed on cells in vitro." []
synonym: "proliferation|in vitro assay" EXACT []
is_a: OBI:1110131 ! assay measuring epitope specific proliferation of T cells

[Term]
id: OBI:0002072
name: assay measuring qualitative binding of a MHC:ligand complex
def: "An assay that detects the binding of a MHC molecule with a ligand, and produces a qualitative measurement of the binding as an output." []
synonym: "qualitative binding|binding assay" EXACT []
is_a: OBI:1110126 ! assay measuring binding of a MHC:ligand complex

[Term]
id: OBI:0002073
name: in vivo assay measuring T cell epitope specific protection from challenge
def: "An efficacy of T cell epitope intervention experiment that uses a epitope protection experiment." []
synonym: "protection from challenge|in vivo assay" EXACT []
is_a: OBI:0001184 ! epitope protection experiment
is_a: OBI:0001484 ! assay measuring T cell epitope specific in vivo activity

[Term]
id: OBI:0002074
name: assay measuring T cell epitope specific suppression in vitro
def: "T cell epitope dependent biological activity assay that detects suppression of an in vitro response." []
synonym: "suppression|in vitro assay" EXACT []
is_a: OBI:0002055 ! assay measuring biological activity resulting from T cell epitope:MHC:TCR binding

[Term]
id: OBI:0002075
name: MHC ligand assay
def: "An immune epitope assay that characterizes the structrue of a MHC-ligand complex, or detects the processing and presentation of a ligand by an antigen presenting cell, or the binding of a ligand to an MHC molecule." []
synonym: "MHC ligand assay|any method" EXACT []
is_a: OBI:1110128 ! immune epitope assay

[Term]
id: OBI:0002076
name: collection of specimens
def: "A material entity that has two or more specimens as its parts." []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0002077
name: specimens derived from shared ancestor
def: "A collection of specimens derived from one common specimen via one or more material processing process(es)." []
synonym: "specimen family" EXACT []
is_a: OBI:0002076 ! collection of specimens

[Term]
id: OBI:0002078
name: specimen set collection process
def: "A specimen collection process that generates multiple specimens from one source (e.g. one organism) during a time period which for the purpose of the study can be considered to be taken at the same sampling time." []
is_a: OBI:0000659 ! specimen collection process

[Term]
id: OBI:0002079
name: specimens collected in one encounter
def: "A collection of specimens that is collected from one source (e.g. one organism) during a time period which for the purpose of the study can be considered to be taken at the same sampling time." []
synonym: "specimen set" EXACT []
is_a: OBI:0002076 ! collection of specimens

[Term]
id: OBI:0002080
name: human specimen set
def: "A specimen set that is collected from one person during a time period which for the purpose of the study can be considered to be taken at the same sampling time." []
is_a: OBI:0002079 ! specimens collected in one encounter

[Term]
id: OBI:0002081
name: specimens collected longitudinally
def: "A collection of specimens that was derived from the same source material entity at different time points in order to observe changes in that entity." []
is_a: OBI:0002076 ! collection of specimens

[Term]
id: OBI:0002082
name: reporter gene assay
def: "An assay that detects expression of a reporter gene that was inserted under the control of a regulatory sequence of interest." []
synonym: "reporter gene detection assay" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002083
name: enhancer activity detection by reporter gene assay
def: "A reporter gene assay that detects expression of a reporter gene that was inserted under the control of an enhancer of interest." []
synonym: "enhancer reporter gene assay" EXACT []
is_a: OBI:0002082 ! reporter gene assay

[Term]
id: OBI:0002084
name: transcription cofactor activity region identification by ChIP-Seq assay
def: "A ChIP-seq assay that identifies regions of chromatin bound to a chromatin modifying protein, e.g. a histone acetyltransferase." []
synonym: "chromatin modifier binding site identification by ChIP-Seq assay" EXACT []
is_a: OBI:0000716 ! ChIP-seq assay

[Term]
id: OBI:0002085
name: transcript expression location detection by hybridization chain reaction assay
def: "An in situ hybridization assay in which the location (e.g. anatomical/tissue) of a transcript is detected by a multiplexed fluorescent in situ hybridization, based on orthogonal amplification with hybridization chain reactions (HCR). RNA probes complementary to mRNA targets trigger chain reactions in which fluorophore-labeled RNA hairpins self-assemble into tethered fluorescent amplification polymers." []
synonym: "transcript expression location detection by fluorescent HCR." EXACT []
is_a: OBI:0001686 ! in-situ hybridization assay

[Term]
id: OBI:0002086
name: Tet-assisted bisulfite sequencing assay
def: "A bisulfite sequencing assay that identifies genomic methylation patterns by using a bisulfite based protocol with the Tet enzyme to differentiate 5-hydroxylmethylcytosine (5hmC) from 5-methylcytosine (5mC) through a step-wise oxidative demethylation of 5mC, converting it to 5-carboxylcytosine (5caC) while keeping 5hmC protected." []
synonym: "TAB-seq" EXACT []
synonym: "Tet-assisted bisulfite sequencing" EXACT []
is_a: OBI:0000748 ! bisulfite sequencing assay

[Term]
id: OBI:0002087
name: containing a specimen function
def: "A contain function that involves physical contact with a specimen. This function is typically performed in such a way that the specimen is usable for an investigation or assay." []
is_a: OBI:0000370 ! contain function

[Term]
id: OBI:0002088
name: specimen container
def: "A container with the function of containing a specimen." []
is_a: OBI:0000967 ! container

[Term]
id: OBI:0002089
name: container with environmental control
def: "A container with an environmental control function." []
is_a: OBI:0000967 ! container
is_a: OBI:0001034 ! environmental control device

[Term]
id: OBI:0002090
name: rapid amplification of cDNA ends
def: "A reverse transcribed polymerase chain reaction that is used to amplify a mRNA sequence between a defined internal site and the 5' or 3' end of the mRNA." []
synonym: "RACE" EXACT []
is_a: OBI:0000552 ! reverse transcribed polymerase chain reaction

[Term]
id: OBI:0002091
name: 5' rapid amplification of cDNA ends
def: "A rapid amplication of cDNA ends to amplify a mRNA sequence between a defined internal site and the 5' end of the mRNA." []
synonym: "5' RACE" EXACT []
is_a: OBI:0002090 ! rapid amplification of cDNA ends

[Term]
id: OBI:0002092
name: 3' rapid amplification of cDNA ends
def: "A rapid amplication of cDNA ends to amplify a mRNA sequence between a defined internal site and the 3' end of the mRNA." []
synonym: "3' RACE" EXACT []
is_a: OBI:0002090 ! rapid amplification of cDNA ends

[Term]
id: OBI:0002093
name: 5' RNA ligase mediated rapid amplification of cDNA ends
def: "A 5' rapid amplification pf cDNA ends that uses RNA ligase to add an RNA adapter oligonucleotide to intact 5' mRNA ends, allowing the amplification of cDNA only from full-length, capped mRNA." []
synonym: "5' RLM RACE" EXACT []
is_a: OBI:0002091 ! 5' rapid amplification of cDNA ends

[Term]
id: OBI:0002094
name: MethylC-Capture sequencing assay
def: "A bisulfite sequencing assay in which a whole-genome sequencing library is prepared, bisulfite converted and amplified, followed by a capture enriching for targeted bisulfite-converted DNA fragments that are are subsequently identified by DNA sequencing." []
synonym: "Capture Methylome" EXACT []
synonym: "MCC-Seq" EXACT []
synonym: "MethylC-Capture Sequencing" EXACT []
is_a: OBI:0000748 ! bisulfite sequencing assay

[Term]
id: OBI:0002095
name: specimen family creation
def: "A material processing that has as its input a specimen and as its output a collection of specimens." []
is_a: COB:0000110 ! material processing

[Term]
id: OBI:0002096
name: carboxyfluorescein succinimidyl ester staining assay measuring epitope specific proliferation of T cells
def: "A CFSE assay that detects T cell epitope specific proliferation in vitro." []
synonym: "proliferation|CFSE" EXACT []
is_a: OBI:0002071 ! in vitro assay measuring epitope specific proliferation of T cells
is_a: OBI:0002106 ! carboxyfluorescein succinimidyl ester staining assay

[Term]
id: OBI:0002097
name: assay measuring the dissociation constant [KD] of a T cell epitope:MHC:TCR complex
def: "A T cell epitope binding constant determination assay that measures the dissociation constant KD." []
synonym: "dissociation constant KD|binding assay|nM" EXACT []
is_a: OBI:0002059 ! assay measuring a binding constant of a T cell epitope:MHC:TCR complex

[Term]
id: OBI:0002098
name: assay measuring the on rate [kon] of a T cell epitope:MHC:TCR complex
def: "A T cell epitope binding constant determination assay that measures the on rate." []
synonym: "on rate|binding assay|M^-1s^-1" EXACT []
is_a: OBI:0002059 ! assay measuring a binding constant of a T cell epitope:MHC:TCR complex

[Term]
id: OBI:0002099
name: assay measuring the off rate [koff] of a T cell epitope:MHC:TCR complex
def: "A T cell epitope binding constant determination assay that measures the off rate." []
synonym: "off rate|binding assay|1/s" EXACT []
is_a: OBI:0002059 ! assay measuring a binding constant of a T cell epitope:MHC:TCR complex

[Term]
id: OBI:0002100
name: assay measuring the association constant [KA] of a T cell epitope:MHC:TCR complex
def: "A T cell epitope binding constant determination assay that measures the association constant KA." []
synonym: "association constant KA|binding assay|1/nM" EXACT []
is_a: OBI:0002059 ! assay measuring a binding constant of a T cell epitope:MHC:TCR complex

[Term]
id: OBI:0002101
name: small-angle scattering assay determining the 3D structure of a B cell epitope:antibody complex
def: "A small-angle scattering 3D molecular structure determination assay that characterizes the 3-dimensional molecular structure of a B cell epitope:antibody complex" []
synonym: "3D structure|small-angle scattering assay" EXACT []
is_a: OBI:0001721 ! 3D molecular structure determination assay of an antigen:antibody complex
is_a: OBI:0002108 ! small-angle scattering 3D molecular structure determination assay

[Term]
id: OBI:0002102
name: bio-layer interferometry assay measuring the on rate [kon] of a B cell epitope:antibody complex
def: "A bio-layer interferometry assay that measures the on rate of an antigen with an antibody." []
synonym: "on rate|bio-layer interferometry assay|M^-1s^-1" EXACT []
is_a: OBI:0001718 ! assay measuring the on rate [kon] of a B cell epitope:antibody complex
is_a: OBI:0002107 ! bio-layer interferometry assay

[Term]
id: OBI:0002103
name: bio-layer interferometry assay measuring the off rate [koff] of a B cell epitope:antibody complex
def: "A bio-layer interferometry assay that measures the off rate of an antigen with an antibody." []
synonym: "off rate|bio-layer interferometry assay|1/s" EXACT []
is_a: OBI:0001723 ! assay measuring the off rate [koff] of a B cell epitope:antibody complex
is_a: OBI:0002107 ! bio-layer interferometry assay

[Term]
id: OBI:0002104
name: bio-layer interferometry assay measuring binding of a B cell epitope:antibody complex
def: "A bio-layer interferometry assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|bio-layer interferometry assay" EXACT []
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex
is_a: OBI:0002107 ! bio-layer interferometry assay

[Term]
id: OBI:0002105
name: bio-layer interferometry assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex
def: "A bio-layer interferometry assay that measures the dissociation constant [KD] of an antigen with an antibody." []
synonym: "dissociation constant KD|bio-layer interferometry assay|nM" EXACT []
is_a: OBI:0001708 ! assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex
is_a: OBI:0002107 ! bio-layer interferometry assay

[Term]
id: OBI:0002106
name: carboxyfluorescein succinimidyl ester staining assay
def: "An assay using carboxyfluorescein succinimidyl ester staining." []
synonym: "CFSE assay" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002107
name: bio-layer interferometry assay
def: "A binding assay that detects a shift in the interference pattern reflected from a layer of immobilized material on the biosensor tip to measure binding to- or dissociating from the material on the biosensor." []
synonym: "biolayer interferometry, BLI" EXACT []
is_a: OBI:0001146 ! binding assay

[Term]
id: OBI:0002108
name: small-angle scattering 3D molecular structure determination assay
def: "A 3D molecular structure determination assay in which the scattering pattern of a neutron or x-ray beam targeted at a material entity is recorded at small angles relative to the incident beam to determine the size, shape and structure of the material entity examined." []
synonym: "SAXS" EXACT []
is_a: OBI:0003117 ! 3D molecular structure determination assay

[Term]
id: OBI:0002109
name: Human 6x630K CGH Whole Genome Tiling Array
def: "A tiling array which is manufactured by the Nimblegen corporation to analyze DNA sequence copy number by comparative genomic hybridization for human DNA against 6x630,000 features." []
synonym: "NimbleGen Human 6x630K CGH Whole Genome Tiling Array" EXACT []
is_a: OBI:0001307 ! tiling microarray

[Term]
id: OBI:0002110
name: digital object identifier
def: "A centrally registered identifier symbol used to uniquely identify objects given by International DOI Foundation. The DOI system is particularly used for electronic documents such as journal articles." []
synonym: "DOI" EXACT []
is_a: IAO:0000577 ! centrally registered identifier symbol

[Term]
id: OBI:0002111
name: enhanced cross-linking immunoprecipitation high-throughput sequencing assay
def: "An iCLIP assay that is enhanced to robustly identify protein-RNA interactions with high efficiency through improvements in library preparation of RNA fragments." []
synonym: "eCLIP" EXACT []
is_a: OBI:0002043 ! individual-nucleotide resolution cross-linking and immunoprecipitation sequencing assay

[Term]
id: OBI:0002112
name: small RNA sequencing assay
def: "An RNA-seq assay which is targeting small RNA (< 200 bp) sequences such as, but not exclusive to, miRNAs using, for example, small RNA library preparation kits." []
synonym: "short RNA-seq" EXACT []
synonym: "small RNA-seq" EXACT []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0002113
name: bromouridine labeling and sequencing assay
def: "An RNA-seq assay to identify spans of nascent transcription in the genome through isolation of recent bromouridine (Bru) labelled RNAs." []
synonym: "Bru-seq" EXACT []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0002114
name: bromouridine pulse-chase and sequencing assay
def: "An RNA-seq assay to identify RNA populations of specific ages through isolation of RNAs first labelled with bromouridine (Bru) followed by chasing in uridine for different periods of time." []
synonym: "BruChase-seq" EXACT []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0002115
name: cytometry time of flight assay
def: "A cytometry assay in which the presence of molecules of interest on or in cells is indicated by binding of antibodies labeled with rare earth element tags which are detected by time-of-flight mass spectrometry." []
synonym: "CyTOF" EXACT []
synonym: "mass cytometry assay" EXACT []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0002116
name: high performance liquid chromatography assay
def: "An analytical chromatography assay that utilizes a high performance liquid chromatography instrument for separation of compounts in a solution." []
synonym: "HPLC" EXACT []
is_a: OBI:0001630 ! analytical chromatography

[Term]
id: OBI:0002117
name: whole genome sequencing assay
def: "A DNA sequencing assay that intends to provide information about the sequence of an entire genome of an organism." []
synonym: "WGS" EXACT []
is_a: OBI:0000626 ! DNA sequencing assay

[Term]
id: OBI:0002118
name: exome sequencing assay
def: "A DNA sequencing assay that intends to provide information about the sequence of the protein coding components of a genome (exons)." []
synonym: "WES" EXACT []
is_a: OBI:0000626 ! DNA sequencing assay

[Term]
id: OBI:0002119
name: microscopy assay
def: "An imaging assay that utilizes a microscope to magnify features of the visualized material of interest that are not visible to naked eye." []
is_a: OBI:0000185 ! imaging assay

[Term]
id: OBI:0002120
name: mixed lymphocyte reaction assay
def: "A cytometry assay where lymphocytes from two individuals are co-cultured with the lymphocytes from one of the allogeneic individuals (Responders) being labeled (with 3H Thymidine or BrdU) and the proliferation of the labeled cells is measured, which is thought to reflect recognition of histocompatibility antigens on the unlabeled cells (stimulators)." []
synonym: "MLR" EXACT []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0002121
name: killer cell immunoglobulin-like receptor typing assay
def: "A genotyping assay in which the alleles of genes encoding for killer cell immunoglobulin-like receptors are determined." []
synonym: "KIR typing" EXACT []
is_a: OBI:0000435 ! genotyping assay

[Term]
id: OBI:0002122
name: major histocompatibility typing assay
def: "A genotyping assay in which the alleles of genes encoding for major histocompatibility complex molecules are determined." []
synonym: "MHC typing, HLA typing" EXACT []
is_a: OBI:0000435 ! genotyping assay

[Term]
id: OBI:0002123
name: IHC slide staining
def: "A staining using labeled antibodies, i.e. the analytical part of immunohistochemistry. The staining is applied to fixed specimens on slides to identify biomarkers in tissues." []
is_a: OBI:0302887 ! staining

[Term]
id: OBI:0002124
name: H&E slide staining
def: "A staining using hematoxylin and eosin. The staining is applied to fixed specimens on slides to observe the whole structure and morphology of cells in a tissue; nuclei are stained dark blue/purple while cytoplasm is stained pink." []
is_a: OBI:0302887 ! staining

[Term]
id: OBI:0002125
name: H&E-stained fixed tissue slide specimen
def: "A fixed tissue slide specimen that is the output of H&E slide staining." []
is_a: OMIABIS:0000052 ! fixed tissue slide specimen

[Term]
id: OBI:0002126
name: IHC-stained fixed tissue slide specimen
def: "A fixed tissue slide specimen that is the output of immunohistochemistry slide staining." []
is_a: OMIABIS:0000052 ! fixed tissue slide specimen

[Term]
id: OBI:0002127
name: single cell specimen
def: "A cell specimen that contains only one cell." []
is_a: OBI:0001468 ! cell specimen

[Term]
id: OBI:0002128
name: Illumina Genome Analyzer
def: "A DNA sequencer manufactured by Solexa as one of its first sequencer lines, launched in 2006, and capable of sequencing 1 gigabase (Gb) of data in a single run." []
synonym: "Illumina Genome Analyzer I" EXACT []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0002129
name: Illumina HiSeq X Ten
def: "A DNA sequencer that consists of a set of 10 HiSeq X Sequencing Systems." []
synonym: "HiSeq X Ten" EXACT []
is_a: OBI:0003683 ! Illumina HiSeq series instrument

[Term]
id: OBI:0002130
name: Illumina Infinium Omni5Exome-4 Kit
def: "An Illumina BeadChip which is an array that interrogates over 4.3 million whole-genome variants for genotyping and copy number variation." []
is_a: OBI:0001869 ! Illumina BeadChip

[Term]
id: OBI:0002131
name: Illumina Infinium MethylationEPIC v1.0 BeadChip
def: "An Illumina methylation BeadChip which is an array that interrogates ~ 850,000 methylation sites per sample at single-nucleotide resolution." []
is_a: OBI:0001870 ! Illumina methylation BeadChip

[Term]
id: OBI:0002132
name: pulse stable isotope labeling by amino acids in cell culture
def: "An assay that detects differences in protein abundance using samples that have been metabolically labeled in vivo with a stable non-radioactive heavy isotope containing amino acid for a short period of time. After diluting the pulsed cells into growth media without label, high resolution mass spectrometry-based proteomics is used to analyze the time-dependent decay and determine protein stability." []
synonym: "dynamic SILAC" EXACT []
synonym: "pulse SILAC" EXACT []
synonym: "pulsed SILAC" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002133
name: cytometric bead array assay measuring  epitope specific chemokine (C-C motif) ligand 20 production by T cells
def: "A cytometric bead array assay that detects chemokine (C-C motif) ligand 20 production by T cells." []
synonym: "CCL20/MIP-3a release|cytometric bead array" EXACT []
is_a: OBI:0002134 ! assay measuring epitope specific chemokine (C-C motif) ligand 20 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0002134
name: assay measuring epitope specific chemokine (C-C motif) ligand 20 production by T cells
def: "A T cell epitope specific cytokine production assay that detects chemokine (C-C motif) ligand 20 production by T cells." []
synonym: "CCL20/MIP-3a release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0002136
name: RNA Integrity Number calculation
def: "A data transformation using the RIN algorithm to generate a quality measure of RNA based on features from an electrophoretic trace." []
synonym: "RIN calculation" EXACT []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0002137
name: RNA Integrity Number value specification
def: "A value specification that specifies the value of the RNA Integrity Number as a real value between 1 (most degraded) and 10 (most intact)." []
synonym: "RIN value specification" EXACT []
is_a: OBI:0001933 ! value specification

[Term]
id: OBI:0002138
name: temperature value specification
def: "A value specification that specifies the temperature of some thing." []
is_a: OBI:0001933 ! value specification

[Term]
id: OBI:0002139
name: volume value specification
def: "A value specification that specifies the volume of some thing." []
is_a: OBI:0001933 ! value specification

[Term]
id: OBI:0002140
name: temperature measurement assay
def: "An assay to determine the temperature of an evaluant." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002141
name: volume measurement assay
def: "An assay to determine the volume of an evaluant." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002142
name: Nanostring nCounter miRNA expression assay
def: "A microRNA profiling assay using digital molecular barcoding technology to quantify target microRNA molecules without the need for amplification." []
synonym: "microRNA counts" EXACT []
is_a: OBI:0001926 ! microRNA profiling assay

[Term]
id: OBI:0002143
name: bromouride labeling and sequencing after UV exposure
def: "An RNA-seq assay to identify transcription start sites and active enhancer elements through isolation of bromouridine (Bru) labelled RNAs after UV light exposure introduces transcription-blocking lesions." []
synonym: "BruUV-seq" EXACT []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0002144
name: extrachromosomal circular DNA sequencing assay
def: "An assay which aims at identifying the endogenous population of extrachromosomal circular DNA originating from a subset of genomic loci and potentially having profound consequences on the regulatory and coding capabilities of these regions. The assay includes creation of a library out of the circular DNA molecules and subsequent sequencing using parallelized sequencing methods." []
synonym: "circulome-seq" EXACT []
synonym: "eccDNA-seq" EXACT []
is_a: OBI:0000626 ! DNA sequencing assay

[Term]
id: OBI:0002145
name: antigen specific antibodies assay
def: "An analyte assay that measures the presence or amount of antibodies to a specified antigen." []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0002146
name: HIV antibody assay
def: "An antigen specific antibodies assay that is meant to detect antibodies that bind to human immunodeficiency virus (HIV) antigens." []
synonym: "HIV I/II Ab assay" EXACT []
is_a: OBI:0002145 ! antigen specific antibodies assay

[Term]
id: OBI:0002147
name: HIV group O antibody assay
def: "An antigen specific antibodies assay that is meant to detect antibodies that bind to human immunodeficiency virus (HIV) group O antigens." []
synonym: "HIV I/II Plus O assay" EXACT []
is_a: OBI:0002145 ! antigen specific antibodies assay

[Term]
id: OBI:0002148
name: surface HBV antibody assay
def: "An antigen specific antibodies assay that is meant to detect antibodies that bind to hepatitis B virus (HBV) surface antigens." []
synonym: "HBsAb assay" EXACT []
is_a: OBI:0002145 ! antigen specific antibodies assay

[Term]
id: OBI:0002149
name: core HBV antibody assay
def: "An antigen specific antibodies assay that is meant to detect antibodies that bind to hepatitis B virus (HBV) core antigens." []
synonym: "HBcAb assay" EXACT []
is_a: OBI:0002145 ! antigen specific antibodies assay

[Term]
id: OBI:0002150
name: core HBV IgM antibody assay
def: "An antigen specific antibodies assay that is meant to detectimmunoglobulin M (IgM) antibodies that bind to hepatitis B virus (HBV) core antigens." []
synonym: "HBcAb-IgM assay" EXACT []
is_a: OBI:0002145 ! antigen specific antibodies assay

[Term]
id: OBI:0002151
name: HCV antibody assay
def: "An antigen specific antibodies assay that is meant to detect antibodies that bind to Hepacivirus C (HCV) antigens." []
synonym: "HCV Ab assay" EXACT []
is_a: OBI:0002145 ! antigen specific antibodies assay

[Term]
id: OBI:0002152
name: EBV IgG antibody assay
def: "An antigen specific antibodies assay that is meant to detect immunoglobulin G (IgG) antibodies that bind to Epstein-Barr virus (EBV) antigens." []
synonym: "EBV IgG Ab assay" EXACT []
is_a: OBI:0002145 ! antigen specific antibodies assay

[Term]
id: OBI:0002153
name: EBV IgM antibody assay
def: "An antigen specific antibodies assay that is meant to detect immunoglobulin M (IgM) antibodies that bind to Epstein-Barr virus (EBV) antigens." []
synonym: "EBV IgM Ab assay" EXACT []
is_a: OBI:0002145 ! antigen specific antibodies assay

[Term]
id: OBI:0002154
name: CMV antibody assay
def: "An antigen specific antibodies assay that is meant to detect antibodies that bind to cytomegalovirus (CMV) antigens." []
synonym: "CMV Ab assay" EXACT []
is_a: OBI:0002145 ! antigen specific antibodies assay

[Term]
id: OBI:0002155
name: venereal disease research laboratory test
def: "An analyte assay that is meant to detect general antibodies that react with substances that are produced by cellular damage caused by Treponema pallidum indicating a syphilis infection. VDRL tests require a microscope and can be done on cerebrospinal fluid as well as blood." []
synonym: "VDRL test" EXACT []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0002156
name: rapid plasma reagin test
def: "An analyte assay that is meant to detect with the aid of carbon or charcoal particles general antibodies that react with substances that are produced by cellular damage caused by Treponema pallidum indicating a syphilis infection. RPR tests can be done without a microscope." []
synonym: "RPR assay" EXACT []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0002157
name: HBV surface antigen assay
def: "An analyte assay that is meant to detect hepatitis B virus (HBV) surface antigens." []
synonym: "HBsAg assay" EXACT []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0002158
name: HIV-1 nucleic acid testing
def: "An analyte assay that is meant to detect human immunodeficiency virus (HIV-1) nucleic acids." []
synonym: "HIV-1 NAT" EXACT []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0002159
name: HCV nucleic acid testing
def: "An analyte assay that is meant to detect hepatitis C virus (HCV) nucleic acids." []
synonym: "HCV NAT" EXACT []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0002160
name: multiplexed indexed T7 ChIP-seq assay
def: "A ChIP-seq assay which leverages T7 promoter amplification to allow low sample input and chromatin barcoding and pool-and-split multiplexing for high-throughput, quantitative profiling of chromatin states." []
synonym: "Mint-ChIP" EXACT []
synonym: "Mint-ChIP-seq" EXACT []
is_a: OBI:0000716 ! ChIP-seq assay

[Term]
id: OBI:0002161
name: systematic evolution of ligands by exponential enrichment assay
def: "A binding assay that identifies protein-binding sites on nucleic acids by selecting high-affinity target ligands from a randomized pool. The process is repeated in rounds, then the bound nucleic acids are separated from the unbound nucleic acids and amplified by PCR._" []
synonym: "SELEX" EXACT []
is_a: OBI:0001146 ! binding assay

[Term]
id: OBI:0002162
name: footprinting assay
def: "An assay that measures ligand binding and conformational changes by the solvent accessibility of the backbone, bases, or side-chain structures of macromolecules through their sensitivity to chemical or enzymatic cleavage or modification reactions." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002163
name: DNAse footprinting assay
def: "An enzymatic footprinting assay that determines protein-binding sites on DNA by identifying bound fragments that are protected from DNAse I-catalyzed hydrolysis" []
is_a: OBI:0002162 ! footprinting assay

[Term]
id: OBI:0002164
name: mammalian 2-hybrid assay
def: "A binding assay that increases the expression of a reporter gene in mammalian cells by proteins of interest attached to two portions of the transcriptional activator, bringing those portions closer together." []
is_a: OBI:0001146 ! binding assay

[Term]
id: OBI:0002165
name: protein localization assay
def: "An assay that determines the specific location of a protein. Subcellular localization is distinguished from tissue-based localization based on the type of microscopy applied." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002166
name: tissue-based protein localization assay
def: "A protein localization assay that determines the specific location of a protein in a living tissue sample." []
is_a: OBI:0002165 ! protein localization assay

[Term]
id: OBI:0002167
name: subcellular protein localization assay
def: "A protein localization assay that determines the specific subcellular location of a protein. The location is visualized through electron microscopy." []
is_a: OBI:0002165 ! protein localization assay

[Term]
id: OBI:0002168
name: subcellular protein immunohistochemistry assay
def: "An immunohistochemistry assay that uses antibodies to display the specific subcellular location of proteins." []
is_a: OBI:0001986 ! immunohistochemistry

[Term]
id: OBI:0002169
name: ChIP-qPCR assay
def: "A ChIP assay that uses quantitative PCR to determine levels of specific DNA in immunoprecipitated samples." []
is_a: OBI:0001954 ! ChIP assay
is_a: OBI:0002692 ! polymerase chain reaction assay

[Term]
id: OBI:0002170
name: genomic SELEX
def: "A systematic evolution of ligands by exponential enrichment assay that starts with a library derived from genomic DNA instead of synthetically derived random DNA molecules." []
is_a: OBI:0002161 ! systematic evolution of ligands by exponential enrichment assay

[Term]
id: OBI:0002171
name: dot blot assay
def: "An analyte assay that detects molecules in a mixture dotted on a membrane using DNA probes or antibodies." []
synonym: "dot blot analysis" EXACT []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0002172
name: Northwestern blot assay
def: "A direct binding assay that detects interactions of labeled RNA with immobilized protein on a membrane." []
synonym: "Northwestern analysis" EXACT []
synonym: "Northwestern assay" EXACT []
is_a: OBI:0001591 ! direct binding assay

[Term]
id: OBI:0002173
name: Southwestern blot assay
def: "A direct binding assay that detects interactions of labeled DNA with immobilized protein on a membrane." []
is_a: OBI:0001591 ! direct binding assay

[Term]
id: OBI:0002174
name: immunocytochemistry
def: "An immuno staining assay in which samples of intact cells are examined that have had most, if not all, of their surrounding extracellular matrix removed" []
is_a: OBI:0001632 ! immuno staining assay
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0002175
name: ATP bioluminescence assay
def: "An analyte assay that detects ATP concentration through light intensity when luciferase catalyzes the oxidation of luciferin in the presence of ATP, magnesium ions, and molecular oxygen." []
synonym: "ATP quantitation assay" EXACT []
synonym: "cell viability ATP quantitation assay" EXACT []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0002176
name: electrophysiology assay
def: "An assay that measures the electrical properties of biological cells or tissues. Typically, this assay will generate measurements of voltage changes or electric current (or other associated variables such as impedence or capacitance)." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002177
name: patch clamp assay
def: "An intracellular electrophysiology assay where a glass micropipette is sealed to the surface of the cell membrane as a recording electrode to study ion channel activity. The key distinction of this technique is the electrical resistance of the seal between the cell membrane and the pipette is of the order 10-100 gigaohms, permitting high-resolution current measurements over the cell membrane in several different standard configurations." []
is_a: OBI:0000447 ! intracellular electrophysiology recording assay

[Term]
id: OBI:0002178
name: whole-cell patch clamp assay
def: "A patch-clamp assay where the electrode is left in place on the cell, as in cell-attached recordings, but the membrane patch has been perforated, providing access from the interior of the pipette to the intracellular space of the cell. Measurements made with this technique involve recording currents through multiple channels simultaneously, over the membrane of the entire cell." []
is_a: OBI:0002177 ! patch clamp assay

[Term]
id: OBI:0002179
name: cell-attached patch clamp assay
def: "A patch-clamp assay where the electrode is left in place on the cell, and the membrane patch has been left intact been perforated. This maintains the separation of the interior of the pipette to the intracellular space of the cell. Measurements made with this technique involve recording currents through multiple channels simultaneously, over the membrane of the entire cell." []
is_a: OBI:0002177 ! patch clamp assay

[Term]
id: OBI:0002180
name: inside-out patch clamp assay
def: "A patch-clamp assay where a patch of the membrane is attached to the patch pipette, detached from the rest of the cell, and the cytosolic surface of the membrane is exposed to the external media, or bath. This provides the experimenter has access to the intracellular surface of the membrane via the bath and can manipulate the environment at the intracellular surface of single ion channels. For example, channels that are activated by intracellular ligands can then be studied through a range of ligand concentrations." []
is_a: OBI:0002177 ! patch clamp assay

[Term]
id: OBI:0002181
name: outside-out patch clamp assay
def: "A patch-clamp assay where a patch of the membrane is attached to the patch pipette. In this configuration, the external surface of the cell membrane is exposed as the outside of the membrane patch relative to the patch electrode. An outside-out patch starts with a gigaohm seal in a whole-cell recording configuration. The electrode is slowly withdrawn from the cell, until a fragment of membrane bulges away from the cell, which detaches and reforms as a convex membrane on the end of the electrode, with the original external surface of the membrane facing outward from the electrode. This provides the experimenter with access to the extracellular surface of the membrane via the bath and can manipulate the environment at the extracellular surface of single ion channels." []
is_a: OBI:0002177 ! patch clamp assay

[Term]
id: OBI:0002182
name: voltage clamp assay
def: "An cellular electrophysiology assay where the membrane potential of a cell is controlled by the experimentalist. This is accomplished through a feedback mechanism where any change in membrane potential is countered by permitting electrical current to flow into or out of the cell." []
is_a: OBI:0000447 ! intracellular electrophysiology recording assay

[Term]
id: OBI:0002183
name: two electrode voltage clamp assay
def: "The two electrode voltage clamp (TEVC) method utilizes two low-resistance pipettes, one sensing voltage and the other injecting current. The microelectrodes are filled with conductive solution and inserted into the cell to artificially control membrane potential. The membrane acts as a dielectric as well as a resistor, while the fluids on either side of the membrane function as capacitors.[9] The microelectrodes compare the membrane potential against a command voltage, giving an accurate reproduction of the currents flowing across the membrane. Current readings can be used to analyze the electrical response of the cell to different applications. This technique is mainly used in the Oocyte preparation." []
synonym: "TEVC" EXACT []
is_a: OBI:0002182 ! voltage clamp assay

[Term]
id: OBI:0002184
name: cut open oocyte voltage clamp assay
def: "The cut-open oocyte Vaseline gap (COVG) voltage-clamp technique is designed to solve weaknesses in the two elextrode voltage clamp by maximizing the benefits of the Xenopus oocyte expression system by improving on clamp speed, signal-to-noise ratio, and ability to effectively perfuse the oocyte. In this way, it was possible to combine the most popular transient expression system, and the associated benefits of molecular cloning and site-directed mutagenesis, with the superior voltage-clamp properties of cut-open cell techniques." []
synonym: "COVG" EXACT []
is_a: OBI:0002182 ! voltage clamp assay

[Term]
id: OBI:0002185
name: current clamp assay
def: "The current clamp technique records the membrane potential by injecting current into a cell through the recording electrode. Unlike in the voltage clamp mode, where the membrane potential is held at a level determined by the experimenter, in \"current clamp\" mode the membrane potential is free to vary, and the amplifier records whatever voltage the cell generates on its own or as a result of stimulation. This technique is used to study how a cell responds when electric current enters a cell; this is important for instance for understanding how neurons respond to neurotransmitters that act by opening membrane ion channels." []
is_a: OBI:0000447 ! intracellular electrophysiology recording assay

[Term]
id: OBI:0002186
name: electroencephalography
def: "An extracellular electrophysiology assay where electrodes are mounted outside the brain (either on the surface of the scalp on onto the brain surface itself during surgery) to measure the electrical field over the external surface." []
synonym: "EEG" EXACT []
is_a: OBI:0000454 ! extracellular electrophysiology recording assay

[Term]
id: OBI:0002187
name: single-unit recording
def: "An extracellular electrophysiology assay where a single microelectrode is placed in close proximity to a single neuron to measure voltage and current changes over time. This is the technicque used by Hubel and Wiesel to measure firing properties of primary visual cortex neurons in the 1950s in their original Nobel-prize winning study. A classic, old technique." []
is_a: OBI:0000454 ! extracellular electrophysiology recording assay
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0002188
name: multi-unit recording
def: "An extracellular electrophysiology assay where a collection of microelectrodes (often in an 'array' configuration) is placed into neural tissue to measure the distribution of voltage and current changes for a population of cells over time." []
is_a: OBI:0000454 ! extracellular electrophysiology recording assay

[Term]
id: OBI:0002189
name: local field potential recording
def: "An extracellular electrophysiology assay where a microelectrode is placed in the extracellular space of brain tissue to measure action potential and compared to an electrode either outside or inside that tissue." []
is_a: OBI:0000454 ! extracellular electrophysiology recording assay

[Term]
id: OBI:0002190
name: courier organization
def: "An organization that delivers messages, packages, and mail." []
synonym: "courier" EXACT []
is_a: OBI:0000245 ! organization

[Term]
id: OBI:0002191
name: courier tracking number
def: "A centrally registered identifier symbol assigned by a courier organization in order to track the delivery of an item." []
is_a: IAO:0000577 ! centrally registered identifier symbol

[Term]
id: OBI:0002192
name: Leica Peloris rapid tissue processor
def: "An automatic tissue processor that is a dual retort tissue processor manufactured by the Leica company to provide fast, high quality tissue processing for histology laboratories." []
is_a: OBI:0001064 ! automatic tissue processor

[Term]
id: OBI:0002194
name: Microm Ergostar HM200
def: "A microtome that is manufactured by Microm and uses a vertical cutting stroke common to all rotary microtomes engaged by a horizontal sliding movement. An operating arm replaces the handwheel and is attached to both sides of the instrument for greater convenience to permit control of sectioning from the left or right." []
is_a: OBI:0400168 ! microtome

[Term]
id: OBI:0002195
name: microtome blade
def: "A device that is the part of a microtome used to slice specimens to a desired thickness." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0002196
name: Sakura Low profile Accu-Edge microtome blade
def: "A microtome blade that is manufactured by Feather and is disposable. The ultra-sharp blades section specimens without striations, distortion or chattering." []
is_a: OBI:0002195 ! microtome blade

[Term]
id: OBI:0002197
name: tissue section thickness
def: "A length measurement datum that is the result of an assay measuring the thickness of a tissue section." []
is_a: IAO:0000408 ! length measurement datum

[Term]
id: OBI:0002198
name: molecular analysis facility organization
def: "An organization that provides molecular analysis service." []
synonym: "MAF" EXACT []
is_a: OBI:0000245 ! organization

[Term]
id: OBI:0002199
name: reason for lack of data item
def: "An information content entity that provides an explanation why a data item is not provided." []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0002200
name: cannot be assessed determination
def: "A reason for lack of data item that is the negative output of a determination if assay will provide reliable results." []
synonym: "cannot be assessed" EXACT []
is_a: OBI:0002199 ! reason for lack of data item

[Term]
id: OBI:0002201
name: determination if assay will provide reliable results
def: "A planned process that is used to assess whether an assay will provide reliable results based on the conditions or qualities of the inputs, devices, and other participants of the assay." []
is_a: COB:0000082 ! planned process

[Term]
id: OBI:0002202
name: GX
def: "A cannot be assessed determination for histologic tumor grade." []
is_a: OBI:0002200 ! cannot be assessed determination

[Term]
id: OBI:0002203
name: pTX
def: "A cannot be assessed determination for pathologic primary tumor staging." []
is_a: OBI:0002200 ! cannot be assessed determination

[Term]
id: OBI:0002204
name: pNX
def: "A cannot be assessed determination of pathologic staging of lymph nodes." []
is_a: OBI:0002200 ! cannot be assessed determination

[Term]
id: OBI:0002205
name: histologic grade according to AJCC 7th edition
def: "A categorical value specification that is a histologic grade assigned to a tumor slide specimen according to the American Joint Committee on Cancer (AJCC) 7th Edition grading system." []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002210
name: histologic grade according to the Fuhrman Nuclear Grading System
def: "A categorical value specification that is a histologic grade assigned to a tumor slide specimen according to the Fuhrman Nuclear Grading System." []
synonym: "Histologic Grade (Fuhrman Nuclear Grading System)" EXACT []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002215
name: histologic grade for ovarian tumor
def: "A categorical value specification that is a histologic grade assigned to a ovarian tumor." []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002216
name: histologic grade for ovarian tumor according to a two-tier grading system
def: "A histologic grade for ovarian tumor that is from a two-tier histological classification of tumors." []
is_a: OBI:0002215 ! histologic grade for ovarian tumor

[Term]
id: OBI:0002219
name: histologic grade for ovarian tumor according to the World Health Organization
def: "A histologic grade for ovarian tumor that is from a histological classification by the World Health Organization (WHO)." []
is_a: OBI:0002215 ! histologic grade for ovarian tumor

[Term]
id: OBI:0002224
name: pathologic primary tumor stage for colon and rectum according to AJCC 7th edition
def: "A categorical value specification that is a pathologic finding about one or more characteristics of colorectal cancer following the rules of the TNM American Joint Committee on Cancer (AJCC) version 7 classification system as they pertain to staging of the primary tumor. TNM pathologic primary tumor findings are based on clinical findings supplemented by histopathologic examination of one or more tissue specimens acquired during surgery." []
synonym: "pT: Pathologic spread colorectal primary tumor (AJCC 7th Edition)" EXACT []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002232
name: pathologic primary tumor stage for lung according to AJCC 7th edition
def: "A categorical value specification that is a pathologic finding about one or more characteristics of lung cancer following the rules of the TNM American Joint Committee on Cancer (AJCC) version 7 classification system as they pertain to staging of the primary tumor. TNM pathologic primary tumor findings are based on clinical findings supplemented by histopathologic examination of one or more tissue specimens acquired during surgery." []
synonym: "pT: Pathologic spread lung primary tumor (AJCC 7th Edition)" EXACT []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002243
name: pathologic primary tumor stage for kidney according to AJCC 7th edition
def: "A categorical value specification that is a pathologic finding about one or more characteristics of renal cancer following the rules of the TNM AJCC v7 classification system as they pertain to staging of the primary tumor. TNM pathologic primary tumor findings are based on clinical findings supplemented by histopathologic examination of one or more tissue specimens acquired during surgery." []
synonym: "pT: Pathologic spread kidney primary tumor (AJCC 7th Edition)" EXACT []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002256
name: pathologic primary tumor stage for ovary according to AJCC 7th edition
def: "A categorical value specification that is a pathologic finding about one or more characteristics of ovarian cancer following the rules of the TNM AJCC v7 classification system as they pertain to staging of the primary tumor. TNM pathologic primary tumor findings are based on clinical findings supplemented by histopathologic examination of one or more tissue specimens acquired during surgery." []
synonym: "pT: Pathologic spread ovarian primary tumor (AJCC 7th Edition)" EXACT []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002270
name: pathologic lymph node stage for colon and rectum according to AJCC 7th edition
def: "A categorical value specification that is a pathologic finding about one or more characteristics of colorectal cancer following the rules of the TNM AJCC v7 classification system as they pertain to staging of regional lymph nodes." []
synonym: "pN: Pathologic spread colon lymph nodes (AJCC 7th Edition)" EXACT []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002279
name: pathologic lymph node stage for lung according to AJCC 7th edition
def: "A categorical value specification that is a pathologic finding about one or more characteristics of lung cancer following the rules of the TNM AJCC v7 classification system as they pertain to staging of regional lymph nodes." []
synonym: "pN: Pathologic spread colon lymph nodes (AJCC 7th Edition)" EXACT []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002284
name: pathologic lymph node stage for kidney according to AJCC 7th edition
def: "A categorical value specification that is a pathologic finding about one or more characteristics of renal cancer following the rules of the TNM AJCC v7 classification system as they pertain to staging of regional lymph nodes." []
synonym: "pN: Pathologic spread kidney lymph nodes (AJCC 7th Edition)" EXACT []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002287
name: pathologic lymph node stage for ovary according to AJCC 7th edition
def: "A categorical value specification that is a pathologic finding about one or more characteristics of ovarian cancer following the rules of the TNM AJCC v7 classification system as they pertain to staging of regional lymph nodes." []
synonym: "pN: Pathologic spread ovarian lymph nodes (AJCC 7th Edition)" EXACT []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002290
name: pathologic distant metastases stage for colon according to AJCC 7th edition
def: "A categorical value specification that is a pathologic finding about one or more characteristics of colon cancer following the rules of the TNM AJCC v7 classification system as they pertain to distant metastases. TNM pathologic distant metastasis findings are based on clinical findings supplemented by histopathologic examination of one or more tissue specimens acquired during surgery." []
synonym: "M: colon distant metastases (AJCC 7th Edition)" EXACT []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002298
name: pathologic distant metastases stage for lung according to AJCC 7th edition
def: "A categorical value specification that is a pathologic finding about one or more characteristics of lung cancer following the rules of the TNM AJCC v7 classification system as they pertain to distant metastases. TNM pathologic distant metastasis findings are based on clinical findings supplemented by histopathologic examination of one or more tissue specimens acquired during surgery." []
synonym: "M: lung distant metastases (AJCC 7th Edition)" EXACT []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002306
name: pathologic distant metastases stage for kidney according to AJCC 7th edition
def: "A categorical value specification that is a pathologic finding about one or more characteristics of renal cancer following the rules of the TNM AJCC v7 classification system as they pertain to distant metastases. TNM pathologic distant metastasis findings are based on clinical findings supplemented by histopathologic examination of one or more tissue specimens acquired during surgery." []
synonym: "M: kidney distant Metastases (AJCC 7th Edition)" EXACT []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002310
name: pathologic distant metastases stage for ovary according to AJCC 7th edition
def: "A categorical value specification that is a  pathologic finding about one or more characteristics of ovarian cancer following the rules of the TNM AJCC v7 classification system as they pertain to distant metastases. TNM pathologic distant metastasis findings are based on clinical findings supplemented by histopathologic examination of one or more tissue specimens acquired during surgery." []
synonym: "M: ovarian distant metastases (AJCC 7th Edition)" EXACT []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002314
name: clinical tumor stage group according to AJCC 7th edition
def: "A categorical value specification that is an assessment of the stage of a cancer according to the American Joint Committee on Cancer (AJCC) v7 staging systems." []
synonym: "Clinical tumor stage group (AJCC 7th Edition)" EXACT []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002326
name: International Federation of Gynecology and Obstetrics cervical cancer stage value specification
def: "A categorical value specification that is an assessment of the stage of a gynecologic cancer according to the International Federation of Gynecology and Obstetrics (FIGO) staging systems." []
synonym: "Clinical FIGO stage" EXACT []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002341
name: International Federation of Gynecology and Obstetrics ovarian cancer stage value specification
def: "A categorical value specification that is a pathologic finding about one or more characteristics of ovarian cancer following the rules of the FIGO classification system." []
synonym: "Pathologic Tumor Stage Grouping for ovarian cancer (FIGO)" EXACT []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002356
name: performance status value specification
def: "A categorical value specification that is an assessment of a participant's performance status (general well-being and activities of daily life)." []
synonym: "Performance Status Scale" EXACT []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002357
name: Eastern Cooperative Oncology Group score value specification
def: "A performance status value specification designed by the Eastern Cooperative Oncology Group to assess disease progression and its affect on the daily living abilities of the patient." []
synonym: "ECOG score" EXACT []
is_a: OBI:0002356 ! performance status value specification

[Term]
id: OBI:0002363
name: Karnofsky score vaue specification
def: "A performance status value specification designed for classifying patients 16 years of age or older by their functional impairment." []
synonym: "Karnofsky Score" EXACT []
is_a: OBI:0002356 ! performance status value specification

[Term]
id: OBI:0002368
name: clinical history of cancer
def: "A clinical history in which there is a diagnosis of cancer." []
is_a: OGMS:0000015 ! clinical history

[Term]
id: OBI:0002369
name: clinical history devoid of cancer
def: "A clinical history in which there was no diagnosis of cancer." []
synonym: "clinical history of no cancer" EXACT []
is_a: OGMS:0000015 ! clinical history

[Term]
id: OBI:0002370
name: unknown clinical history of cancer
def: "A clinical history in which it is not known whether there was a diagnosis of cancer." []
is_a: OGMS:0000015 ! clinical history

[Term]
id: OBI:0002371
name: diagnosis of cancer
def: "A diagnosis that is an assertion that a patient who is the subject of a diagnostic process has cancer." []
synonym: "cancer diagnosis" EXACT []
is_a: OGMS:0000073 ! diagnosis

[Term]
id: OBI:0002372
name: family clinical history of cancer
def: "A clinical history in which there is a diagnosis of cancer in a blood relative." []
synonym: "family history of cancer" EXACT []
is_a: OGMS:0000015 ! clinical history

[Term]
id: OBI:0002373
name: aunt clinical history of cancer
def: "A clinical history in which there is a diagnosis of cancer in the female sibling of a parent." []
is_a: OBI:0002372 ! family clinical history of cancer

[Term]
id: OBI:0002374
name: brother clinical history of cancer
def: "A clinical history in which there is a diagnosis of cancer in a male sibling." []
is_a: OBI:0002372 ! family clinical history of cancer

[Term]
id: OBI:0002375
name: daughter clinical history of cancer
def: "A clinical history in which there is a diagnosis of cancer in a person's female child." []
is_a: OBI:0002372 ! family clinical history of cancer

[Term]
id: OBI:0002376
name: father clinical history of cancer
def: "A clinical history in which there is a diagnosis of cancer in a male parent." []
is_a: OBI:0002372 ! family clinical history of cancer

[Term]
id: OBI:0002377
name: mother clinical history of cancer
def: "A clinical history in which there is a diagnosis of cancer in a female parent." []
is_a: OBI:0002372 ! family clinical history of cancer

[Term]
id: OBI:0002378
name: sister clinical history of cancer
def: "A clinical history in which there is a diagnosis of cancer in a female sibling." []
is_a: OBI:0002372 ! family clinical history of cancer

[Term]
id: OBI:0002379
name: son clinical history of cancer
def: "A clinical history in which there is a diagnosis of cancer in a person's male child." []
is_a: OBI:0002372 ! family clinical history of cancer

[Term]
id: OBI:0002380
name: uncle clinical history of cancer
def: "A clinical history in which there is a diagnosis of cancer in a male sibling of a parent." []
is_a: OBI:0002372 ! family clinical history of cancer

[Term]
id: OBI:0002381
name: grandmother clinical history of cancer
def: "A clinical history in which there is a diagnosis of cancer in a female parent of a parent." []
is_a: OBI:0002372 ! family clinical history of cancer

[Term]
id: OBI:0002382
name: grandfather clinical history of cancer
def: "A clinical history in which there is a diagnosis of cancer in a male parent of a parent." []
is_a: OBI:0002372 ! family clinical history of cancer

[Term]
id: OBI:0002383
name: nephew clinical history of cancer
def: "A clinical history in which there is a diagnosis of cancer in a male child of a sibling." []
is_a: OBI:0002372 ! family clinical history of cancer

[Term]
id: OBI:0002384
name: niece clinical history of cancer
def: "A clinical history in which there is a diagnosis of cancer in a female child of a sibling." []
is_a: OBI:0002372 ! family clinical history of cancer

[Term]
id: OBI:0002385
name: diagnosis of infectious disease
def: "A diagnosis that is an assertion that a patient who is the subject of a diagnostic process has an infectious disease." []
is_a: OGMS:0000073 ! diagnosis

[Term]
id: OBI:0002386
name: diagnosis of hepatitis B
def: "A diagnosis of infectious disease caused by the hepatitis B virus." []
is_a: OBI:0002385 ! diagnosis of infectious disease

[Term]
id: OBI:0002387
name: diagnosis of hepatitis C
def: "A diagnosis of infectious disease caused by the hepatitis C virus." []
is_a: OBI:0002385 ! diagnosis of infectious disease

[Term]
id: OBI:0002388
name: diagnosis of HIV
def: "A diagnosis of infectious disease caused by the human immunodeficiency virus (1 or 2)." []
is_a: OBI:0002385 ! diagnosis of infectious disease

[Term]
id: OBI:0002389
name: clinical history of repeated HIV assays
def: "A clinical history in which there is repeated reactive screening assays for human immunodeficiency virus (1 or 2) antibodies regardless of the results of supplemental assays." []
is_a: OGMS:0000015 ! clinical history

[Term]
id: OBI:0002390
name: exposure to second hand smoke
def: "A clinical history in which there has been second hand exposure to tobacco smoking." []
is_a: OGMS:0000015 ! clinical history

[Term]
id: OBI:0002391
name: exposure to second hand smoke in household during childhood
def: "An exposure to second hand smoke that occurred in the (patient's) household when the person was a child." []
is_a: OBI:0002390 ! exposure to second hand smoke

[Term]
id: OBI:0002392
name: exposure to second hand smoke in current household
def: "An exposure to second hand smoke in person's current household." []
is_a: OBI:0002390 ! exposure to second hand smoke

[Term]
id: OBI:0002393
name: pregnancy history
def: "A clinical history in which a female has had a pregnancy." []
is_a: OGMS:0000015 ! clinical history

[Term]
id: OBI:0002394
name: number of pregnancies
def: "A measurement datum of the total number of pregnancies a woman has had." []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0002395
name: number of live births
def: "A measurement datum of the total number of live births a female has had." []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0002396
name: age when gave birth to first child
def: "An age measurement datum performed on a female when her first biological child was born." []
is_a: OBI:0001167 ! age measurement datum

[Term]
id: OBI:0002397
name: gynecologic surgery history
def: "A clinical history in which a woman has had gynecologic surgery in the past." []
is_a: OGMS:0000015 ! clinical history

[Term]
id: OBI:0002398
name: hysterectomy history
def: "A gynecologic surgery history in which a woman has had a hysterectomy." []
is_a: OBI:0002397 ! gynecologic surgery history

[Term]
id: OBI:0002399
name: unilateral oophorectomy history
def: "A gynecologic surgery history in which a woman has had a unilateral oophorectomy." []
is_a: OBI:0002397 ! gynecologic surgery history

[Term]
id: OBI:0002400
name: neither hysterectomy nor oophorectomy history
def: "A gynecologic surgery history in which a woman has not had either a hysterectomy or an oophorectomy." []
is_a: OBI:0002397 ! gynecologic surgery history

[Term]
id: OBI:0002401
name: hormonal birth control use history
def: "An information content entity that indicates whether a woman has ever used oral contraceptives in order to block ovulation and prevent the occurrence of pregnancy." []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0002402
name: hormonal birth control former use history
def: "A hormonal birth control use history that indicates an individual has previously been a hormonal birth control user but is not a current user." []
is_a: OBI:0002401 ! hormonal birth control use history

[Term]
id: OBI:0002403
name: hormonal birth control current use history
def: "A hormonal birth control use history that indicates an individual is currently a hormonal birth control user." []
is_a: OBI:0002401 ! hormonal birth control use history

[Term]
id: OBI:0002404
name: no hormonal birth control use history
def: "A hormonal birth control use history that indicates an individual has not ever been a hormonal birth control user." []
is_a: OBI:0002401 ! hormonal birth control use history

[Term]
id: OBI:0002405
name: hormonal replacement therapy history
def: "A clinical history in which an individual has had hormonal replacement therapy in the past." []
is_a: OGMS:0000015 ! clinical history

[Term]
id: OBI:0002406
name: delivery form for hormonal replacement therapy
def: "A processed material used for delivery of hormones in hormone replacement therapy." []
synonym: "form of hormone replacement therapy" EXACT []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0002407
name: pill delivery form for hormonal replacement therapy
def: "A delivery form for hormonal replacement therapy that is a pill for oral administration." []
is_a: OBI:0002406 ! delivery form for hormonal replacement therapy

[Term]
id: OBI:0002408
name: patch delivery form for hormonal replacement therapy
def: "A delivery form for hormonal replacement therapy that is a patch for transdermal administration." []
is_a: OBI:0002406 ! delivery form for hormonal replacement therapy

[Term]
id: OBI:0002409
name: cream delivery form for hormonal replacement therapy
def: "A delivery form for hormonal replacement therapy that is a cream for transdermal administration." []
is_a: OBI:0002406 ! delivery form for hormonal replacement therapy

[Term]
id: OBI:0002410
name: menopausal status
def: "An information content entity that indicates the state of a female's cessation of menstruation." []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0002411
name: indeterminate menopausal status
def: "A menopausal status that is neither pre- nor post-menopausal." []
is_a: OBI:0002410 ! menopausal status

[Term]
id: OBI:0002412
name: premenopausal status
def: "A menopausal status indicating that less than 6 months has passed since the last menstrual period and there has not been prior bilateral oophorectomy and not on estrogen replacement." []
is_a: OBI:0002410 ! menopausal status

[Term]
id: OBI:0002413
name: perimenopausal status
def: "A menopausal status indicating that it has been 6-12 months since last menstrual period." []
is_a: OBI:0002410 ! menopausal status

[Term]
id: OBI:0002414
name: postmenopausal status
def: "A menopausal status indicating that it has been more than 12 months since the last menstrual period with no prior hysterectomy or that there has been a prior bilateral oophorectomy." []
is_a: OBI:0002410 ! menopausal status

[Term]
id: OBI:0002415
name: exposure to environmental and workplace carcinogens history
def: "An information content entity that indicates the exposure of an individual to carcinogens in the workplace or environment." []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0002416
name: exposure to arsenic history
def: "An exposure to environmental and workplace carcinogens history where the carcinogen is arsenic." []
is_a: OBI:0002415 ! exposure to environmental and workplace carcinogens history

[Term]
id: OBI:0002417
name: exposure to asbestos history
def: "An exposure to environmental and workplace carcinogens history where the carcinogen is asbestos." []
is_a: OBI:0002415 ! exposure to environmental and workplace carcinogens history

[Term]
id: OBI:0002418
name: exposure to diesel exhaust history
def: "An exposure to environmental and workplace carcinogens history where the carcinogen is diesel exhaust." []
is_a: OBI:0002415 ! exposure to environmental and workplace carcinogens history

[Term]
id: OBI:0002419
name: exposure to chromium history
def: "An exposure to environmental and workplace carcinogens history where the carcinogen is chromium." []
is_a: OBI:0002415 ! exposure to environmental and workplace carcinogens history

[Term]
id: OBI:0002420
name: exposure to silica history
def: "An exposure to environmental and workplace carcinogens history where the carcinogen is silica." []
is_a: OBI:0002415 ! exposure to environmental and workplace carcinogens history

[Term]
id: OBI:0002421
name: indicator of whether an inclusion criterion was met
def: "An information content entity that indicates whether or not  an entity has met a specific requirement in order to take part in a given process." []
synonym: "eligibility criterion met" EXACT []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0002422
name: indicator of whether all inclusion criteria were met
def: "An information content entity  that indicates whether or not  an entity  has met all specific requirements in order to take part in a given process." []
synonym: "all eligibility criteria met" EXACT []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0002423
name: age of majority inclusion criterion
def: "An inclusion criterion that uses the age of majority for a state or institution, where one is generally considered to be an adult, which if met, makes an individual suitable for a given task or participation in a given process." []
is_a: OBI:0500027 ! inclusion criterion

[Term]
id: OBI:0002424
name: chemotherapy treatment exclusion criterion
def: "An exclusion criterion that defines whether chemotherapy was received or is being received for a previous  or current cancer, which when met, makes an individual unsuitable for a given task or participation in a given process" []
is_a: OBI:0500028 ! exclusion criterion

[Term]
id: OBI:0002425
name: radiation treatment exclusion criteria
def: "An exclusion criterion that defines whether radiation was received or is being received for a previous  or current cancer, which when met, makes an individual unsuitable for a given task or participation in a given process" []
is_a: OBI:0500028 ! exclusion criterion

[Term]
id: OBI:0002426
name: chemotherapy treatment within the recent past exclusion criterion
def: "An exclusion criterion that defines whether chemotherapy was received within a certain timeframe, which when met, makes an individual unsuitable for a given task or participation in a given process." []
is_a: OBI:0500028 ! exclusion criterion

[Term]
id: OBI:0002427
name: radiation treatment within the recent past exclusion criterion
def: "An exclusion criterion that defines whether radiation was received within a certain timeframe, which when met, makes an individual unsuitable for a given task or participation in a given process." []
is_a: OBI:0500028 ! exclusion criterion

[Term]
id: OBI:0002428
name: BMI range inclusion criterion
def: "An inclusion criterion that defines and states a Body Mass Index range, which if met, makes an individual suitable for a given task or participation in a given process." []
is_a: OBI:0500027 ! inclusion criterion

[Term]
id: OBI:0002429
name: blood transfusion exclusion criterion
def: "An exclusion criterion that is defined by whether the specimen donor received a whole blood transfusion within a specified time frame prior to death, which if met, makes a specimen donor unsuitable for a given task or participation in a given process." []
is_a: OBI:0500028 ! exclusion criterion

[Term]
id: OBI:0002430
name: history of metastatic cancer exclusion criterion
def: "An exclusion criterion defined as whether an individual has ever been diagnosed with metastatic cancer (cancer that spread beyond the initial site such as to other organs like brain bone or liver), which if met, makes the individual unsuitable for a given task or participation in a given process." []
is_a: OBI:0500028 ! exclusion criterion

[Term]
id: OBI:0002431
name: intravenous drug use exclusion criterion
def: "An exclusion criterion defined as when an individual has a history of intravenous drug abuse for a specific timeframe, which if met, makes the individual unsuitable for a given task or participation in a given process." []
is_a: OBI:0500028 ! exclusion criterion

[Term]
id: OBI:0002432
name: history of sex with someone with a history of blood borne infection  exclusion criterion
def: "An exclusion criterion defined  as whether an individual has a history of sex with someone who has been diagnosed or at risk for a blood borne infections disease in a specified time frame, which if met, makes the individual unsuitable for a given task or participation in a given process." []
is_a: OBI:0500028 ! exclusion criterion

[Term]
id: OBI:0002433
name: history of sex with someone with a history of intravenous drugs exclusion criterion
def: "An exclusion criterion defined  as whether an individual has a history of sex with someone who has used intravenous drugs in a specified time frame, which if met, makes the individual unsuitable for a given task or participation in a given process." []
is_a: OBI:0500028 ! exclusion criterion

[Term]
id: OBI:0002434
name: HIV exclusion criterion
def: "An exclusion criterion defined  as whether an individual has a history of repeatedly reactive screening assays for HIV-1 or HIV-2 antibody regardless of the results of supplemental assays, which if met, makes the individual unsuitable for a given task or participation in a given process." []
is_a: OBI:0500028 ! exclusion criterion

[Term]
id: OBI:0002435
name: exposure to blood borne infectious disease exclusion criterion
def: "An exclusion criterion defined  as whether an individual has been exposed to a blood borne infections disease through needle sticks and/or contact with non-intact skin and/or contact with open wounds and/or contact with mucous membranes, which if met, makes the individual unsuitable for a given task or participation in a given process." []
is_a: OBI:0500028 ! exclusion criterion

[Term]
id: OBI:0002436
name: RNA interactome capture
def: "An assay that identifies RNA binding proteins by cross-linking RNA and proteins with UV light, then purifying the bound complexes by oligo(dT) capture. Finally, the complexes are analyzed by mass spectrometry." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002437
name: widefield microscopy assay
def: "A fluorescence microscopy technique where the specimen under investigation is fully bathed in light, as opposed to confocal microscopy in which only a small portion of the specimen is illuminated." []
synonym: "WFM" EXACT []
is_a: CHMO:0000087 ! fluorescence microscopy assay

[Term]
id: OBI:0002438
name: nuclear ligation assay
def: "An assay that detects the proximity of chromosomal DNA through the use of a ligation reaction in isolated nuclei." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002439
name: chromosome conformation capture assay
def: "A nuclear ligation assay that detects chromosomal interactions between any two genomic loci. Chromatin segments are cross-linked, cut by restriction enzymes, ligated, and finally analyzed by PCR." []
synonym: "3C assay" EXACT []
is_a: OBI:0002438 ! nuclear ligation assay

[Term]
id: OBI:0002440
name: Hi-C assay
def: "A chromosome conformation capture assay that detects genome-wide chromosomal interactions. High-throughput techniques are used to sequence the ligated fragments after cross-linking and cutting with restriction enzymes." []
is_a: OBI:0002439 ! chromosome conformation capture assay

[Term]
id: OBI:0002441
name: physical examination of an organism
def: "An assay that produces a description of the qualities of an organism that has not been transformed, through observation and physical, non-invasive techniques." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002442
name: hydroxyl-radical footprinting assay
def: "A footprinting assay that uses the reaction of hydroxyl radicals with side-chain sites in molecules (proteins, DNA, etc)_ with the resultant mass shift demonstrating the site of modification, used to_ to asses the accessibility of that site." []
is_a: OBI:0002162 ! footprinting assay

[Term]
id: OBI:0002443
name: methidiumpropyl-EDTA-iron(II) footprinting assay
def: "A footprinting assay that determines protein-binding sites on DNA by partial cleavage of ligand-protected DNA restriction fragments with methidium-propyl-EDTA (MPE). MPE-Fe(II) in the presence of oxygen efficiently catalyzes the non-specific clevage of DNA." []
synonym: "MPE-Fe(II) footprinting" EXACT []
is_a: OBI:0002162 ! footprinting assay

[Term]
id: OBI:0002444
name: measurand role
def: "A role borne by a material entity and realized in an assay which achieves the objective to measure the magnitude/concentration/amount of the measurand in the entity bearing evaluant role." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0002445
name: transcription start site mapping by primer extension assay
def: "A transcription profiling assay in which the transcription start site for a gene is determined by identifying the 5' end of mRNA. A radio-labeled primer is annealed to a complementary mRNA sequence near the 3' end, then cDNA is synthesized until the 5' end is reached." []
is_a: OBI:0000424 ! transcription profiling assay

[Term]
id: OBI:0002446
name: proteomic profiling design
def: "A study design in which proteins in a sample are detected, quantified or otherwise analysed." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0002447
name: suppression subtractive hybridization
def: "An artificially induced nucleic acid hybridization that is performed to compare gene expression in different cell or tissue types based on normalization and suppression, which creates a subtracted cDNA or genomic DNA library." []
synonym: "SSH" EXACT []
synonym: "subtractive hybridization" EXACT []
is_a: OBI:0000253 ! artificially induced nucleic acid hybridization

[Term]
id: OBI:0002448
name: differential screening hybridization
def: "An artificially induced nucleic acid hybridization that is performed to identify differentially expressed genes through hybridization of cDNA probes." []
synonym: "differential screening" EXACT []
synonym: "DSH" EXACT []
is_a: OBI:0000253 ! artificially induced nucleic acid hybridization

[Term]
id: OBI:0002449
name: footprinting assay measuring binding of a B cell epitope:antibody complex
def: "A footprinting assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|footprinting assay" EXACT []
is_a: OBI:0001703 ! assay measuring qualitative binding of a B cell epitope:antibody complex
is_a: OBI:0002162 ! footprinting assay

[Term]
id: OBI:0002450
name: hydroxyl-radical footprinting assay measuring binding of a B cell epitope:antibody complex
def: "A hydroxyl-radical footprinting assay that detects the binding of an antigen with an antibody." []
synonym: "qualitative binding|hydroxyl-radical footprinting assay" EXACT []
is_a: OBI:0002442 ! hydroxyl-radical footprinting assay
is_a: OBI:0002449 ! footprinting assay measuring binding of a B cell epitope:antibody complex

[Term]
id: OBI:0002451
name: ELISA measuring epitope specific interferon-alpha production by T cells
def: "An enzyme-linked immunosorbent assay that detects interferon-alpha production by T cells." []
synonym: "IFNa release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0002452 ! assay measuring epitope specific interferon-alpha production by T cells

[Term]
id: OBI:0002452
name: assay measuring epitope specific interferon-alpha production by T cells
def: "A T cell epitope specific cytokine production assay that detects interferon-alpha production by T cells." []
synonym: "IFNa release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0002453
name: health status inclusion criterion
def: "An inclusion criterion that defines and states one or more clinically significant bodily components, dispositions, and/or bodily processes of an entity that are inferred from relevant clinical findings or self-reported, which, if met, makes the entity suitable for a given task or participation in a given process." []
is_a: OBI:0500027 ! inclusion criterion

[Term]
id: OBI:0002454
name: clinically relevant lifestyle inclusion criterion
def: "An inclusion criterion that defines and states one or more clinically relevant planned processes that a human being actively participates in , which, if met, makes the human being suitable for a given task or participation in a given process." []
is_a: OBI:0500027 ! inclusion criterion

[Term]
id: OBI:0002455
name: clinically relevant exposure inclusion criterion
def: "An inclusion criterion that defines and states one or more clinically relevant histories of exposure of an entity, which, if met, makes the entity suitable for a given task or participation in a given process." []
is_a: OBI:0500027 ! inclusion criterion

[Term]
id: OBI:0002456
name: gravidity inclusion criterion
def: "An inclusion criterion that defines and states one or more gravidity statuses of an organism, which, if met, makes the entity suitable for a given task or participation in a given process." []
is_a: OBI:0500027 ! inclusion criterion

[Term]
id: OBI:0002457
name: precision nuclear run-on sequencing assay
def: "An RNA-seq assay that maps the genome-wide distribution of transcriptionally-engaged Pol II at base-pair resolution by using biotin-labeled ribonucleotide triphosphate analogs (biotin-NTP) for nuclear run-on reactions, allowing the efficient affinity purification of nascent RNAs for high throughput sequencing from their 3' ends." []
synonym: "precision nuclear run-on and sequencing assay" EXACT []
synonym: "PRO-Seq" EXACT []
is_a: OBI:0001271 ! RNA-seq assay
is_a: OBI:0002692 ! polymerase chain reaction assay

[Term]
id: OBI:0002458
name: chromosome conformation capture-on-chip assay
def: "A nuclear ligation assay which uses cross-linking of proteins to proteins and DNA, followed by two rounds of digestion and ligation, inverse PCR, and characterization by microarray or DNA sequencing. This enables unbiased genome-wide screens for DNA contacts made by single genomic sites of interest." []
synonym: "4C assay" EXACT []
synonym: "circularized chromosome conformation capture assay" EXACT []
is_a: OBI:0002438 ! nuclear ligation assay
is_a: OBI:0002692 ! polymerase chain reaction assay

[Term]
id: OBI:0002459
name: genotype phasing by Hi-C assay
def: "A genotyping assay in which carbon-copy chromosome conformation is used to detect polymorphism in DNA samples." []
synonym: "haplotype reconstruction by Hi-C assay" EXACT []
is_a: OBI:0000435 ! genotyping assay

[Term]
id: OBI:0002460
name: defined population inclusion criterion
def: "An inclusion criterion that is based on fitting within the defined characteristics of a population based study design." []
is_a: OBI:0500027 ! inclusion criterion

[Term]
id: OBI:0002461
name: BCL format
def: "A data format specification that is a binary file containing base calling data. These files are created by sequencing machines during the act of sequencing, and contain data about each of the nucleotide clusters on a sequencing flow cell." []
is_a: IAO:0000098 ! data format specification

[Term]
id: OBI:0002462
name: ERCC RNA spike-in
def: "A processed material developed by the External RNA Controls Consortium (ERCC) that  consists of 92 transcripts, derived and traceable from NIST-certified DNA plasmids." []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0002463
name: SIRV RNA spike-in
def: "A processed material that consists of transcript isoforms of 7 spike-in RNA variant (SIRV) genes and possibly the 92 External RNA Controls Consortium (ERCC) RNA spike-in genes." []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0002464
name: SRS identifier
def: "An accession number that applies to a database record for an individual sample object in an NCBI Sequence Read Archive (SRA) submission. These records are imported from the NCBI BioSample database." []
synonym: "SRA sample accession number" EXACT []
is_a: IAO:0000577 ! centrally registered identifier symbol

[Term]
id: OBI:0002465
name: age since culture seeding measurement datum
def: "An age measurement datum that is the result of the measurement of the age of a cell since cultured (the process of seeding cells onto a culture dish)." []
synonym: "age of culture" EXACT []
is_a: OBI:0001167 ! age measurement datum

[Term]
id: OBI:0002466
name: alignment counting algorithm
def: "An algorithm used to assign aligned sequence reads, resulting from a reference genome transcriptome alignment algorithm, to sequence features (e.g. genes or transcripts)." []
is_a: IAO:0000064 ! algorithm

[Term]
id: OBI:0002467
name: alignment counting application
def: "A software application that implements an alignment counting algorithm, used to count the overlap of aligned sequencing reads with genes." []
is_a: IAO:0000594 ! software application

[Term]
id: OBI:0002468
name: base calling algorithm
def: "An algorithm that assigns nucleotides to temporal or spatial peaks generated by a detector, such as peaks of light intensities generated by a DNA sequencer" []
is_a: IAO:0000064 ! algorithm

[Term]
id: OBI:0002469
name: base calling application
def: "A base-calling application that implments a base-calling algorithm to convert BCL (binary base call) files, (e.g., those generated by Illumina sequencing systems) to standard FASTQ file formats for downstream analysis." []
is_a: IAO:0000594 ! software application

[Term]
id: OBI:0002470
name: bcl2fastq software application
def: "A base calling application that implments a base calling algorithm to convert BCL (binary base call) files generated by Illumina sequencing systems to standard FASTQ file formats for downstream analysis." []
is_a: OBI:0002469 ! base calling application

[Term]
id: OBI:0002471
name: date process started
def: "A data item that is the date when a process was initiated." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0002472
name: dbGaP study identifier
def: "A central registered identifier symbol that denotes a specific study in dbGaP." []
synonym: "dbGaP accession number" EXACT []
is_a: IAO:0000577 ! centrally registered identifier symbol

[Term]
id: OBI:0002473
name: material amplification role
def: "A worker role played by the person who runs the enzymatic amplifying process." []
is_a: OBI:0000116 ! worker role

[Term]
id: OBI:0002474
name: material sequencing library preparation role
def: "A worker role played by the person who performs the library preparation process to generate a sequencing library for a sample to be sequenced." []
is_a: OBI:0000116 ! worker role

[Term]
id: OBI:0002475
name: number of PCR cycles during library construction
def: "A data item that is the number of PCR cycles used during the construction of a sequencing library." []
synonym: "library construction PCR cycles" EXACT []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0002476
name: number of rounds of amplification
def: "A data item that is the number of times an amplification reaction happened." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0002477
name: reference genome role
def: "A reference substance role that is played by a reference genome when used during sequence alignment." []
is_a: OBI:0000025 ! reference substance role

[Term]
id: OBI:0002478
name: reference genome-transcriptome alignment algorithm
def: "An algorithm that attempts to align a nucleic acid sequence to a reference genome and transcriptome." []
is_a: IAO:0000064 ! algorithm

[Term]
id: OBI:0002479
name: sequence read length measurement datum
def: "A measurement datum that is the result of the measurement of the number of bases in a DNA or RNA sequence." []
synonym: "read length, read length measurement datum" EXACT []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0002480
name: sequencing library input quantity measurement datum
def: "A scalar measurement datum that indicates the amount of sequencing library used as input for a sequencer." []
synonym: "library input amount" EXACT []
is_a: IAO:0000032 ! scalar measurement datum

[Term]
id: OBI:0002481
name: single-end library
def: "A cDNA library that is a collection of short tags from only one end of DNA fragments." []
is_a: OBI:0002754 ! cDNA library

[Term]
id: OBI:0002482
name: specimen harvest quantity
def: "A scalar measurement datum that indicates the amount of specimen collected." []
synonym: "harvest quantity" EXACT []
is_a: IAO:0000109 ! measurement datum

[Term]
id: OBI:0002483
name: spike-in dilution factor
def: "A data item that indicates the dilution of spike-in added to a specimen." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0002484
name: star algorithm
def: "A reference genome transcriptome alignment algorithm that is a standalone RNA-seq alignment algorithm that uses uncompressed suffix arrays and a mapping algorithm similar to those used in large-scale genome alignment tools to align RNA-seq reads to a genomic reference." []
is_a: OBI:0002478 ! reference genome-transcriptome alignment algorithm

[Term]
id: OBI:0002485
name: transcript analysis by single-end sequencing assay
def: "A sequencing assay that incorporates single-end reads and sequencing technology to determine transcripts, gene structures, and gene expressions." []
synonym: "transcript analysis by single-end sequencing" EXACT []
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0002486
name: verse algorithm
def: "An alignment counting algorithm that assigns gene features to genomic alignments using a hierarchical assignment scheme, which allows simultaneous quantification of multiple feature types or annotation levels without repeatedly assigning reads." []
is_a: OBI:0002466 ! alignment counting algorithm

[Term]
id: OBI:0002487
name: microraft
def: "A material separation device also commerically known as Isoraft, that is used to isolate single cells." []
is_a: OBI:0000932 ! material separation device

[Term]
id: OBI:0002488
name: pipette
def: "A device that is a laboratory tool commonly used in chemistry, biology and medicine to transport a measured volume of liquid, often as a media dispenser." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0002489
name: differential medium assay
def: "An organism detection assay that uses a differential medium to achieve its objective." []
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0002490
name: medication time value specification
def: "A scalar value specification that specifies the point in time that a human participant under investigation self-administers a medication material" []
synonym: "medication timepoint" EXACT []
is_a: OBI:0001931 ! scalar value specification

[Term]
id: OBI:0002491
name: medication dose value specification
def: "A scalar value specification that specifies the value of the quantity of a material entity administered to an organism as a treatment" []
synonym: "medication dose" EXACT []
is_a: OBI:0001931 ! scalar value specification

[Term]
id: OBI:0002492
name: case role in case-control study
def: "A role that is borne by a case-control study design participant under investigation that is associated with the outcome mentioned in the study design." []
is_a: OBI:0000097 ! participant under investigation role

[Term]
id: OBI:0002493
name: control role in case-control study
def: "A role that is borne by a case-control study design participant under investigation that is not associated with the outcome mentioned in the study design." []
is_a: OBI:0000097 ! participant under investigation role

[Term]
id: OBI:0002500
name: amniotic fluid specimen
def: "A specimen that is derived from amniotic fluid." []
is_a: OBI:2000009 ! bodily fluid specimen

[Term]
id: OBI:0002501
name: bile specimen
def: "A specimen that is derived from bile." []
is_a: OBI:0002504 ! digestive system fluid or secretion specimen

[Term]
id: OBI:0002502
name: cerebrospinal fluid specimen
def: "A specimen that is derived from cerbrospinal fluid." []
is_a: OBI:2000009 ! bodily fluid specimen

[Term]
id: OBI:0002503
name: feces specimen
def: "A specimen that is derived from feces." []
synonym: "stool specimen" EXACT []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002504
name: digestive system fluid or secretion specimen
def: "A specimen that is derived from digestive system fluid or secretion." []
synonym: "gastric fluid specimen" EXACT []
is_a: OBI:2000009 ! bodily fluid specimen

[Term]
id: OBI:0002505
name: milk specimen
def: "A specimen that is derived from milk." []
is_a: OBI:2000009 ! bodily fluid specimen

[Term]
id: OBI:0002506
name: pericardial fluid specimen
def: "A specimen that is derived from pericardial fluid." []
is_a: OBI:2000009 ! bodily fluid specimen

[Term]
id: OBI:0002507
name: saliva specimen
def: "A specimen that is derived from saliva." []
is_a: OBI:2000009 ! bodily fluid specimen

[Term]
id: OBI:0002508
name: sputum specimen
def: "A specimen that is derived from sputum." []
is_a: OBI:2000009 ! bodily fluid specimen

[Term]
id: OBI:0002509
name: sweat specimen
def: "A specimen that is derived from sweat." []
is_a: OBI:2000009 ! bodily fluid specimen

[Term]
id: OBI:0002510
name: synovial fluid specimen
def: "A specimen that is derived from synovial fluid." []
is_a: OBI:2000009 ! bodily fluid specimen

[Term]
id: OBI:0002511
name: vitreous humor specimen
def: "A specimen that is derived from vireous humor." []
synonym: "vitreous fluid specimen" EXACT []
is_a: OBI:2000004 ! eye specimen

[Term]
id: OBI:0002512
name: bone marrow specimen
def: "A specimen that is derived from bone marrow." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002513
name: placenta specimen
def: "A specimen that is derived from placenta." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002514
name: peritoneal fluid specimen
def: "A specimen that is derived from peritoneal fluid." []
is_a: OBI:2000009 ! bodily fluid specimen

[Term]
id: OBI:0002515
name: pleural fluid specimen
def: "A specimen that is derived from pleural fluid." []
is_a: OBI:2000009 ! bodily fluid specimen

[Term]
id: OBI:0002516
name: brain specimen
def: "A specimen that is derived from brain." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002517
name: hair specimen
def: "A specimen that is derived from hair." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002518
name: prostate gland specimen
def: "A specimen that is derived from prostate gland." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002519
name: skeletal muscle tissue specimen
def: "A specimen that is derived from skeletal muscle." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002520
name: heart specimen
def: "A specimen that is derived from heart." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002521
name: renal medulla specimen
def: "A specimen that is derived from renal medulla." []
synonym: "kidney medulla specimen" EXACT []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002522
name: adrenal gland specimen
def: "A specimen that is derived from adrenal gland." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002523
name: breast specimen
def: "A specimen that is derived from breast." []
synonym: "mammary tissue specimen" EXACT []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002524
name: urinary bladder specimen
def: "A specimen that is derived from urinary bladder." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002525
name: tibial artery specimen
def: "A specimen that is derived from tibial artery." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002526
name: skin of body specimen
def: "A specimen that is derived from skin." []
synonym: "skin specimen" EXACT []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002527
name: pancreas specimen
def: "A specimen that is derived from pancreas." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002528
name: stomach specimen
def: "A specimen that is derived from stomach." []
is_a: OBI:0003483 ! digestive tract specimen

[Term]
id: OBI:0002529
name: pituitary gland specimen
def: "A specimen that is derived from pituitary gland." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002530
name: adipose tissue specimen
def: "A specimen that is derived from adipose tissue." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002531
name: cortex of kidney specimen
def: "A specimen that is derived from cortex of kidney." []
synonym: "kidney cortex specimen" EXACT []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002532
name: esophagus mucosa specimen
def: "A specimen that is derived from esophagus mucosa." []
is_a: OBI:0003483 ! digestive tract specimen

[Term]
id: OBI:0002533
name: colon specimen
def: "A specimen that is derived from colon." []
is_a: OBI:0003483 ! digestive tract specimen

[Term]
id: OBI:0002534
name: lung specimen
def: "A specimen that is derived from lung." []
is_a: OBI:0002783 ! lower respiratory tract specimen

[Term]
id: OBI:0002535
name: esophagus muscularis mucosa specimen
def: "A specimen that is derived from esophagus muscularis mucosa." []
synonym: "esophagus muscularis specimen" EXACT []
is_a: OBI:0002532 ! esophagus mucosa specimen

[Term]
id: OBI:0002536
name: cerebral cortex specimen
def: "A specimen that is derived from cerebral cortex." []
synonym: "brain cortex specimen" EXACT []
is_a: OBI:0002516 ! brain specimen

[Term]
id: OBI:0002537
name: thyroid gland specimen
def: "A specimen that is derived from thyroid gland." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002538
name: cerebellum specimen
def: "A specimen that is derived from cerebellum." []
synonym: "brain cerebellum specimen" EXACT []
is_a: OBI:0002516 ! brain specimen

[Term]
id: OBI:0002539
name: tibial nerve specimen
def: "A specimen that is derived from tibial nerve." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002540
name: coronary artery specimen
def: "A specimen that is derived from coronary artery." []
is_a: OBI:0002520 ! heart specimen

[Term]
id: OBI:0002541
name: spleen specimen
def: "A specimen that is derived from spleen." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002542
name: aorta specimen
def: "A specimen that is derived from aorta." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002543
name: atrial appendage specimen
def: "A specimen that is derived from the atrium auricular region." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002544
name: esophagogastric junction specimen
def: "A specimen that is derived from the esophagogastric junction." []
is_a: OBI:0003483 ! digestive tract specimen

[Term]
id: OBI:0002545
name: ileum specimen
def: "A specimen that is derived from ileum." []
is_a: OBI:0003483 ! digestive tract specimen

[Term]
id: OBI:0002546
name: liver specimen
def: "A specimen that is derived from liver." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002547
name: minor salivary gland specimen
def: "A specimen that is derived from minor salivary gland." []
is_a: OBI:0003483 ! digestive tract specimen

[Term]
id: OBI:0002548
name: omentum specimen
def: "A specimen that is derived from omentum." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002549
name: ovary specimen
def: "A specimen that is derived from female gonad." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002550
name: sigmoid colon specimen
def: "A specimen that is derived from sigmoid colon." []
is_a: OBI:0002533 ! colon specimen

[Term]
id: OBI:0002551
name: suprapubic skin specimen
def: "A specimen that is derived from suprapubic skin." []
is_a: OBI:0002526 ! skin of body specimen

[Term]
id: OBI:0002552
name: testis specimen
def: "A specimen that is derived from testis." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002553
name: uterus specimen
def: "A specimen that is derived from uterus." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002554
name: vagina specimen
def: "A specimen that is derived from vagina." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0002555
name: age group inclusion criterion
def: "An inclusion criterion that defines and states an age bracket which, if met, makes an entity suitable for a given task or participation in a given process." []
is_a: OBI:0500027 ! inclusion criterion

[Term]
id: OBI:0002556
name: minimum age value specification
def: "A value specifcation that specifies the youngest age when specifying an age range." []
is_a: OBI:0001933 ! value specification

[Term]
id: OBI:0002557
name: maximum age value specification
def: "A value specifcation that specifies the oldest age when specifying an age range." []
is_a: OBI:0001933 ! value specification

[Term]
id: OBI:0002558
name: use of medication inclusion criterion
def: "An inclusion criterion that defines and states a a set of medications, which, if used by an entity, makes that entity suitable for a given task or participation in a given process." []
is_a: OBI:0500027 ! inclusion criterion

[Term]
id: OBI:0002559
name: hospital patient inclusion criterion
def: "An inclusion criterion defines that a human being has to be a hospital patient to be suitable for a given task or participation in a given process." []
is_a: OBI:0500027 ! inclusion criterion

[Term]
id: OBI:0002560
name: family status inclusion criterion
def: "An inclusion criterion that defines and states one or more family statuses, which, if met, makes a human being suitable for a given task or participation in a given process." []
is_a: OBI:0500027 ! inclusion criterion

[Term]
id: OBI:0002561
name: sex inclusion criterion
def: "An inclusion criterion that defines and states one or more sexes which, if met, makes an entity suitable for a given task or participation in a given process." []
is_a: OBI:0500027 ! inclusion criterion

[Term]
id: OBI:0002562
name: country of residence inclusion criteria
def: "An inclusion criterion that defines and states one or more countries of residence which, if met, makes a human being suitable for a given task or participation in a given process." []
is_a: OBI:0500027 ! inclusion criterion

[Term]
id: OBI:0002563
name: ethnicity inclusion criterion
def: "An inclusion criteria that defines and states one or more ethnicities which, if met, makes an entity suitable for a given task or participation in a given process." []
is_a: OBI:0500027 ! inclusion criterion

[Term]
id: OBI:0002564
name: histopathology assay
def: "A histological assay that is intended to check for the presence or level of a specific disease." []
is_a: OBI:0600020 ! histological assay

[Term]
id: OBI:0002565
name: adapter-sequence trimming
def: "A data transformation in which adapter sequences at the end of a molecular sequence are cut (removed)." []
is_a: OBI:0002585 ! sequence trimming

[Term]
id: OBI:0002566
name: file merge
def: "A data transformation in which data contained in 2 or more files are merged into a single file." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0002567
name: sequence alignment
def: "A data transformation in which one or more sequences (reads) are positioned on a reference sequence template (often a reference set of genes), according to the genetic base-pairing paradigm." []
is_a: OBI:0200187 ! sequence analysis data transformation

[Term]
id: OBI:0002568
name: sequence data feature count tabulation
def: "The counting of features (typically, genes) within aligned sequence data, and organization of these counts into one or more tables." []
is_a: OBI:0200187 ! sequence analysis data transformation

[Term]
id: OBI:0002569
name: trimmed sequence data
def: "The results of a data transformation of sequence data in which (e.g., low quality) read bases are removed, to achieve some specific objective." []
is_a: OBI:0000973 ! sequence data

[Term]
id: OBI:0002570
name: nCounter Mouse miRNA Expression array
def: "A mouse array which is manufacutred by NanoString Technologies. Built upon color-coded molecular barcodes technology, the array profiles miRNA with increased specificity and sensitivty than microarrays." []
is_a: OBI:0001865 ! assay array

[Term]
id: OBI:0002571
name: polyA-selected RNA sequencing assay
def: "An RNA-seq assay to study transcriptomes through the enrichment of polyadenylated transcripts or removal of ribosomal RNA prior to high-throughput sequencing." []
synonym: "mRNA-seq" EXACT []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0002572
name: polyA-depleted RNA sequencing assay
def: "An RNA-seq assay to study non-polyadenylated transcripts, such as, but not exclusive to unspliced and circular isoforms, through the depletion of polyadenylated transcripts prior to high-throughput sequencing." []
synonym: "polyA-depleted RNA-seq" EXACT []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0002573
name: polyA depleted RNA extract
def: "A RNA extract that is the output of an extraction process in which RNA molecules lacking poly A tails at thier 3' ends are purified." []
is_a: OBI:0000880 ! RNA extract

[Term]
id: OBI:0002574
name: RNA extraction with polyA depletion
def: "A RNA extraction process in which only RNAs lacking a polyA tail are retained" []
is_a: OBI:0666666 ! RNA extraction

[Term]
id: OBI:0002575
name: isoform sequencing
def: "A method for sequencing isoforms by enriching a cDNA library for full-length reads spanning entire transcript isoforms." []
synonym: "ISO-seq" EXACT []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0002578
name: adapter sequence data
def: "Nucleotide sequences of molecules that are ligated to assay samples prior to sequencing of these samples;  these sequences are provided by assay kit manufacturers and typically used to combine sequencing of multiple samples in one assay run." []
is_a: OBI:0000973 ! sequence data

[Term]
id: OBI:0002579
name: adapter-trimmed sequence data
def: "The results of a data transformation of sequence data in which reference subsequences corresponding to ligated library adapters are removed." []
is_a: OBI:0000973 ! sequence data

[Term]
id: OBI:0002580
name: aligned sequence data
def: "The results of a sequence alignment." []
is_a: OBI:0000973 ! sequence data

[Term]
id: OBI:0002581
name: merged aligned sequence data
def: "The results of a data transformation of sequence data in which files containing aligned sequence data are merged together" []
is_a: OBI:0000973 ! sequence data

[Term]
id: OBI:0002582
name: sequence library feature count data
def: "The results of a sequence data feature count tabulation." []
is_a: IAO:0000100 ! homogenous data collection

[Term]
id: OBI:0002583
name: DNA methylation profiling data
def: "The results of a DNA methylation profiling assay" []
is_a: OBI:0000973 ! sequence data

[Term]
id: OBI:0002584
name: differential expression analysis data
def: "The results of a differential expression analysis." []
is_a: IAO:0000100 ! homogenous data collection

[Term]
id: OBI:0002585
name: sequence trimming
def: "A data transformation in which subsequences of a molecular sequence are cut (removed)." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0002586
name: digital acquisition card
def: "The digital acquisition card acts as the interface between the computer and a measurement device via the computer bus. It converts the signal generated by a measurement device (output from device) to a digital signal via an analog-to-digital converter, ADC. It also converts a digital signal to an analog signal via a digital-to-analog converter, DAC. This analog signal (e.g., stimulus) is fed to a measurement device (input to device)." []
synonym: "DAQ device" EXACT []
synonym: "digital acquisition and digital generation card" EXACT []
is_a: COB:0001300 ! device

[Term]
id: OBI:0002587
name: machine learning
def: "A planned process with the objective to give a computer the ability to use patterns in data to progressively improve its performance on a specific task, achieved by using statistical techniques instead of explicitly programming the ability." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0002588
name: supervised machine learning
def: "A machine learning process using a function that maps an input to an output based on example input-output pairs. It infers a function from labeled training data consisting of a set of training examples." []
is_a: OBI:0002587 ! machine learning

[Term]
id: OBI:0002589
name: unsupervised machine learning
def: "A machine learning process that infers a function describing the structure of \"unlabeled\" data (i.e. data that has not been classified or categorized)." []
is_a: OBI:0002587 ! machine learning

[Term]
id: OBI:0002590
name: molecular interaction identification design
def: "A study design that investigates the features of interaction between molecules." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0002591
name: colocalization identification design
def: "A molecular interaction identification design that investigates the co-occurence and correlation of two or more molecules." []
is_a: OBI:0002590 ! molecular interaction identification design

[Term]
id: OBI:0002592
name: genetic interaction identification design
def: "A molecular interaction identification design that investigates a phenotype that is the result of two or more genetic perturbations, and is not explained by the individual genetic perturbations alone." []
is_a: OBI:0002590 ! molecular interaction identification design

[Term]
id: OBI:0002593
name: functional association identification design
def: "A molecular interaction identification design that investigates a relationship that is the result of intermediate steps between two or more molecules that are not necessarily in direct contact with each other." []
is_a: OBI:0002590 ! molecular interaction identification design

[Term]
id: OBI:0002594
name: direct interaction identification design
def: "A molecular interaction identification design that investigates the influence of molecules, which are in direct contact, on one another." []
synonym: "molecular binding identification design" EXACT []
is_a: OBI:0002590 ! molecular interaction identification design

[Term]
id: OBI:0002595
name: enzymatic reaction identification design
def: "A direct interaction identification design that investigations a biological reaction on a molecule which has been triggered by an enzyme." []
is_a: OBI:0002594 ! direct interaction identification design

[Term]
id: OBI:0002596
name: self interaction identification design
def: "A molecular interaction identification design that investigates intra-molecular interactions between two or more regions of a single molecule." []
is_a: OBI:0002590 ! molecular interaction identification design

[Term]
id: OBI:0002597
name: chromosome conformation capture sequencing assay
def: "A chromosome conformation capture-on-chip assay quantitates the products with multiplexed high-throughput sequencing." []
synonym: "3C-seq assay" EXACT []
is_a: OBI:0002458 ! chromosome conformation capture-on-chip assay
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0002598
name: inverse polymerase chain reaction
def: "A polymerase chain reaction which amplifies DNA with only one known sequence from which primers may be designed. A series of restriction digestions and ligations result in a looped DNA fragment which can be primed for PCR." []
synonym: "inverse PCR" EXACT []
is_a: OBI:0000415 ! polymerase chain reaction

[Term]
id: OBI:0002599
name: swab specimen
def: "A specimen that is stored on a swab as the output of a collecting specimen with swab process." []
is_a: OBI:0100051 ! specimen

[Term]
id: OBI:0002600
name: collecting specimen with swab
def: "A specimen collection process that uses a swab as the collection device. A swab is an absorbent material (e.g. cotton) on a rod (e.g., wooden stick)." []
is_a: OBI:0000659 ! specimen collection process

[Term]
id: OBI:0002601
name: demultiplexed sequence data
def: "Sequence data in which an identifier subsequence has been used to categorize each reads by source." []
is_a: OBI:0000973 ! sequence data

[Term]
id: OBI:0002602
name: multiplexed sequence data
def: "Sequence data from a sequence library generated from at least two different sources, where each read in the sequence data includes base calls from a multiplex identifier sequence that can be used to trace the source of the read to its source." []
is_a: OBI:0000973 ! sequence data

[Term]
id: OBI:0002603
name: areolar swab specimen
def: "A specimen that is collected with a swab from the surface of an areola of a breast." []
is_a: OBI:0002604 ! breast swab specimen

[Term]
id: OBI:0002604
name: breast swab specimen
def: "A specimen that is collected with a swab from the surface of a breast." []
is_a: OBI:0002523 ! breast specimen
is_a: OBI:0002599 ! swab specimen

[Term]
id: OBI:0002605
name: cheek swab specimen
def: "A specimen that is collected with a swab from the cheek portion of the inside surface of a mouth." []
is_a: OBI:0002607 ! oral swab specimen

[Term]
id: OBI:0002606
name: nasopharyngeal swab specimen
def: "A specimen that is collected with a swab from the surface of a nasopharynx." []
is_a: OBI:0002599 ! swab specimen
is_a: OBI:2000007 ! nasopharynx specimen

[Term]
id: OBI:0002607
name: oral swab specimen
def: "A specimen that is collected with a swab from the inside surface of a mouth." []
is_a: OBI:0001479 ! specimen from organism
is_a: OBI:0002599 ! swab specimen

[Term]
id: OBI:0002608
name: oropharyngeal swab specimen
def: "A specimen that is collected with a swab from the surface of a oropharynx." []
is_a: OBI:0002599 ! swab specimen
is_a: OBI:2000006 ! upper respiratory tract specimen

[Term]
id: OBI:0002609
name: rectal swab specimen
def: "A specimen that is collected with a swab from the surface of a rectum." []
is_a: OBI:0002599 ! swab specimen
is_a: OBI:0003483 ! digestive tract specimen

[Term]
id: OBI:0002610
name: tongue swab specimen
def: "A specimen that is collected with a swab from the surface of a tongue." []
is_a: OBI:0002607 ! oral swab specimen

[Term]
id: OBI:0002611
name: vagina swab specimen
def: "A specimen that is collected with a swab from the surface of a vagina." []
is_a: OBI:0002554 ! vagina specimen
is_a: OBI:0002599 ! swab specimen

[Term]
id: OBI:0002612
name: fecal swab specimen
def: "A specimen that is collected with a swab from the surface of a feces." []
synonym: "stool swab specimen" EXACT []
is_a: OBI:0002503 ! feces specimen
is_a: OBI:0002599 ! swab specimen

[Term]
id: OBI:0002613
name: environmental swab specimen
def: "A specimen that is collected with a swab from the surface of an environmenal material." []
is_a: OBI:0002599 ! swab specimen

[Term]
id: OBI:0002614
name: birth cohort study design
def: "A cohort study design for which the subjects are followed from the time of birth usually including information about gestation and follow up." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0002615
name: disease specific study design
def: "A study design for which material and information is collected from subjects that have already developed a particular disease." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0002616
name: genealogical record
def: "A document about the family relationships of persons related as members of a domestic group linked through descent from a common ancestor, marriage, or adoption." []
is_a: IAO:0000310 ! document

[Term]
id: OBI:0002617
name: national registry
def: "An information content entity that contains information about a nationwide group of individuals." []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0002618
name: national biomedical registry
def: "A national registry that contains information about individuals that was accumulated for a biomedical purpose, such as diagnoses, treatments, or outcomes." []
is_a: OBI:0002617 ! national registry

[Term]
id: OBI:0002619
name: site-directed mutagenesis
def: "An induced mutation in which a specific base change is programmed into the sequence of a synthetic primer." []
is_a: OBI:0001154 ! induced mutagenesis

[Term]
id: OBI:0002620
name: random mutagenesis
def: "An induced mutation that produces a random mutation, either by introducing the organism to mutagens, or through a process such as error-prone PCR." []
is_a: OBI:0001154 ! induced mutagenesis

[Term]
id: OBI:0002621
name: reconstitution assay
def: "An assay in which a cellular process is replicated from the bottom-up using isolated components in order to observe how the components work together." []
synonym: "reconstitution experiment" EXACT []
is_a: OBI:0000070 ! assay
is_a: OBI:0000471 ! study design execution

[Term]
id: OBI:0002622
name: in vitro transcription reconstitution assay
def: "A reconstitution assay in which RNA synthesis is investigated using RNA polymerase II transcription systems replicated in vitro from their base components." []
is_a: OBI:0002621 ! reconstitution assay

[Term]
id: OBI:0002623
name: whole metagenome sequencing assay
def: "A DNA sequencing assay that intends to provide information on the DNA sequences of multiple genomes (a metagenome) from different organisms present in the same input sample." []
synonym: "WMS" EXACT []
is_a: OBI:0000626 ! DNA sequencing assay

[Term]
id: OBI:0002624
name: case-control study design
def: "A study design that entails the creation of two types of roles, such that each participant under investigation bears one or the other. What distinguishes the two types of roles is an 'outcome', which is associated with participants that have the case role but not associated with participants that have the control role. A case-control study examines the hypothesis that the presence of the outcome in case participants is associated with an 'exposure' that is not associated with control participants." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0002625
name: gene knockdown
def: "A genetic transformation which reduces the expression of a specific gene or genes in an organism." []
synonym: "gene knock-down" EXACT []
is_a: OBI:0600043 ! genetic transformation

[Term]
id: OBI:0002626
name: RNAi gene knockdown
def: "A gene knockdown that silences genes through artificially-induced RNA interference. This is accomplished by introducing small double-stranded interfering RNA complementary to the target mRNA to be silenced, which is then cleaved by a ribonuclease." []
synonym: "RNA interference gene knockdown" EXACT []
is_a: OBI:0002625 ! gene knockdown

[Term]
id: OBI:0002627
name: ribosomal RNA-depleted RNA extract
def: "An extract of RNA which is produced through rRNA (ribosomal RNA) depletion (the removal of highly abundant rRNA species)." []
is_a: OBI:0000880 ! RNA extract

[Term]
id: OBI:0002628
name: RNAi knockdown assay
def: "A gene knockdown assay in which RNAi gene knockdown is used to disrupt gene transcripts." []
synonym: "RNA interference knockdown assay" EXACT []
synonym: "RNAi gene knockdown assay" EXACT []
is_a: OBI:0001672 ! gene knock-down assay

[Term]
id: OBI:0002629
name: direct RNA sequencing assay
def: "An assay to study transcription through direct RNA sequence determination, without prior conversion of RNA molecules to cDNA." []
synonym: "direct RNA-seq" EXACT []
synonym: "DRS" EXACT []
is_a: OBI:0001177 ! RNA sequencing assay

[Term]
id: OBI:0002630
name: Illumina NovaSeq 6000
def: "A DNA sequencer which is manufactured by the Illumina corporation, with two flow cells and an output of up to 6000 Gb (32-40 B reads per run). The sequencer utilizes synthesis technology and patterned flow cells to optimize throughput and even spacing of sequencing clusters." []
synonym: "NovaSeq 6000" EXACT []
is_a: OBI:0003685 ! Illumina NovaSeq series instrument

[Term]
id: OBI:0002631
name: single-cell RNA sequencing assay
def: "An RNA sequencing assay that uses RNA extracts as input that can be traced to a single cell of origin." []
synonym: "scRNA-seq" EXACT []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0002632
name: PacBio Sequel
def: "A DNA sequencer built upon single molecule real-time sequencing technology, optimized for generation with long reads and high consensus accuracy, and manufactured by the Pacific Biosciences corporation" []
synonym: "Pacific BioSciences Sequel" EXACT []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0002633
name: PacBio Sequel II
def: "A DNA sequencer built upon single molecule real-time sequencing technology, optimized for generation of highly accurate (\"HiFi\") long reads, and which is manufactured by the Pacific Biosciences corporation." []
synonym: "Pacific BioSciences Sequel II" EXACT []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0002634
name: in vivo assay measuring B cell epitope specific disease exacerbation resulting from the adoptive transfer of epitope specific antibodies or B cells
def: "An efficacy of B cell epitope intervention experiment that uses a disease exacerbation in vivo intervention experiment after adoptive transfer of epitope specific antibodies or B cells." []
synonym: "disease exacerbation after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001711 ! in vivo assay measuring B cell epitope specific disease exacerbation
is_a: OBI:0002677 ! in vivo assay measuring a B cell epitope specific response after adoptive transfer of epitope specific antibodies or B cells

[Term]
id: OBI:0002635
name: in vivo assay measuring T cell epitope specific disease reduction resulting from the adoptive transfer of epitope specific T cells
def: "An efficacy of T cell epitope intervention experiment that detects a decrease in disease after adoptive transfer of epitope specfic T cells." []
synonym: "decreased disease after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001507 ! in vivo assay measuring T cell epitope specific treatment of disease
is_a: OBI:0002676 ! in vivo assay measuring a T cell epitope specific response after adoptive transfer of epitope specific T cells

[Term]
id: OBI:0002636
name: in vivo assay measuring B cell epitope specific disease reduction resulting from adoptive transfer of epitope specific antibodies or B cells
def: "An efficacy of B cell epitope intervention experiment that detects a decrease in disease after adoptive transfer of epitope specific antibodies or B cells." []
synonym: "decreased disease after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001697 ! in vivo assay measuring B cell epitope specific treatment of disease
is_a: OBI:0002677 ! in vivo assay measuring a B cell epitope specific response after adoptive transfer of epitope specific antibodies or B cells

[Term]
id: OBI:0002637
name: in vivo assay measuring T cell epitope specific protection from challenge resulting from the adoptive transfer of epitope specific T cells
def: "An efficacy of T cell epitope intervention experiment that uses a epitope protection experiment after adoptive transfer of epitope specfic T cells." []
synonym: "protection from challenge after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0002073 ! in vivo assay measuring T cell epitope specific protection from challenge
is_a: OBI:0002676 ! in vivo assay measuring a T cell epitope specific response after adoptive transfer of epitope specific T cells

[Term]
id: OBI:0002638
name: in vivo assay measuring B cell epitope specific protection from challenge resulting from adoptive transfer of epitope specific antibodies or B cells
def: "An efficacy of B cell epitope intervention experiment that uses a epitope protection experiment after adoptive transfer of epitope specific antibodies or B cells." []
synonym: "protection from challenge after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001710 ! in vivo assay measuring B cell epitope specific protection from challenge
is_a: OBI:0002677 ! in vivo assay measuring a B cell epitope specific response after adoptive transfer of epitope specific antibodies or B cells

[Term]
id: OBI:0002639
name: in vivo assay measuring T cell epitope specific protection from challenge resulting from the adoptive transfer of epitope specific T cells based on pathogen burden
def: "An in vivo assay measuring T cell epitope specific protection from pathogen challenge resulting from the adoptive transfer of epitope specific antibodies or B cells using pathogen burden." []
synonym: "pathogen burden after challenge after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001475 ! in vivo assay measuring T cell epitope specific protection from infectious challenge based on pathogen burden
is_a: OBI:0003470 ! in vivo assay measuring T cell epitope specific protection from pathogen challenge resulting from the adoptive transfer of epitope specific T cells

[Term]
id: OBI:0002640
name: in vivo assay measuring B cell epitope specific protection from challenge resulting from the adoptive transfer of epitope specific antibodies or B cells based on pathogen burden
def: "An in vivo assay measuring B cell epitope specific protection from pathogen challenge resulting from the adoptive transfer of epitope specific antibodies or B cells using pathogen burden." []
synonym: "pathogen burden after challenge after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0002051 ! in vivo assay measuring B cell epitope specific protection from infectious challenge based on pathogen burden
is_a: OBI:0003475 ! in vivo assay measuring B cell epitope specific protection from pathogen challenge resulting from the adoptive transfer of epitope specific antibodies or B cells

[Term]
id: OBI:0002641
name: in vivo assay measuring T cell epitope specific protection from other challenge resulting from the adoptive transfer of epitope specific T cells based on survival
def: "An in vivo assay measuring T cell epitope specific protection from other challenge resulting from the adoptive transfer of epitope specific T cells using survival." []
synonym: "survival from other challenge after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001492 ! in vivo assay measuring T cell epitope specific protection based on survival
is_a: OBI:0003474 ! in vivo assay measuring T cell epitope specific protection from other challenge resulting from the adoptive transfer of epitope specific T cells

[Term]
id: OBI:0002642
name: in vivo assay measuring B cell epitope specific protection from other challenge resulting from the adoptive transfer of epitope specific antibodies or B cells based on survival
def: "An in vivo assay measuring B cell epitope specific protection from other challenge resulting from the adoptive transfer of epitope specific antibodies or B cells using survival." []
synonym: "survival from other challenge after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001696 ! in vivo assay measuring B cell epitope specific protection based on survival
is_a: OBI:0003479 ! in vivo assay measuring B cell epitope specific protection from other challenge resulting from the adoptive transfer of epitope specific antibodies or B cells

[Term]
id: OBI:0002643
name: in vivo assay measuring T cell epitope specific protection from challenge resulting from the adoptive transfer of epitope specific T cells based on tumor burden
def: "An in vivo assay measuring T cell epitope specific protection from tumor challenge resulting from the adoptive transfer of epitope specific T cells using tumor burden." []
synonym: "tumor burden after challenge after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001473 ! in vivo assay measuring T cell epitope specific protection after tumor burden challenge
is_a: OBI:0003472 ! in vivo assay measuring T cell epitope specific protection from tumor challenge resulting from the adoptive transfer of epitope specific T cells

[Term]
id: OBI:0002644
name: in vivo assay measuring B cell epitope specific protection from challenge resulting from the adoptive transfer of epitope specific antibodies or B cells based on tumor burden
def: "An in vivo assay measuring B cell epitope specific protection from tumor challenge resulting from the adoptive transfer of epitope specific antibodies or B cells using tumor burden." []
synonym: "tumor burden after challenge after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0002052 ! in vivo assay measuring B cell epitope specific protection after tumor burden challenge
is_a: OBI:0003477 ! in vivo assay measuring B cell epitope specific protection from tumor challenge resulting from the adoptive transfer of epitope specific antibodies or B cells

[Term]
id: OBI:0002645
name: in vivo assay measuring T cell epitope specific tolerance induction resulting from the adoptive transfer of epitope specific T cells
def: "An efficacy of T cell epitope intervention experiment that uses a tolerance induction intervention experiment after adoptive transfer of epitope specfic T cells." []
synonym: "tolerance after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001324 ! in vivo assay measuring T cell epitope specific tolerance induction
is_a: OBI:0002676 ! in vivo assay measuring a T cell epitope specific response after adoptive transfer of epitope specific T cells

[Term]
id: OBI:0002646
name: in vivo assay measuring B cell epitope specific tolerance induction resulting from the adoptive transfer of epitope specific antibodies or B cells
def: "An efficacy of B cell epitope intervention experiment that uses a tolerance induction intervention experiment after adoptive transfer of epitope specific antibodies or B cells." []
synonym: "tolerance after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001693 ! in vivo assay measuring B cell epitope specific tolerance induction
is_a: OBI:0002677 ! in vivo assay measuring a B cell epitope specific response after adoptive transfer of epitope specific antibodies or B cells

[Term]
id: OBI:0002647
name: Giemsa stain assay
def: "An assay that uses a Giemsa stain to characterize cells." []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0002648
name: individual organism specimen
def: "A specimen composed of an individual organism to be studied in an investigation." []
is_a: OBI:0100051 ! specimen

[Term]
id: OBI:0002649
name: blood microbiology assay
def: "An organism detection assay that detects microorganisms in a blood specimen." []
is_a: OBI:0003040 ! blood assay
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0002650
name: biopsy
def: "A specimen collection that obtains a sample of tissue or cell from a living multicellular organism body for diagnostic purposes by means intended to be minimally invasive." []
is_a: OBI:0600005 ! collecting specimen from organism

[Term]
id: OBI:0002651
name: image guided biopsy
def: "A biopsy which uses an imaging procedure to guide a needle biopsy." []
synonym: "image guided needle biopsy" EXACT []
synonym: "image-guided biopsy" EXACT []
synonym: "imaging guided biopsy" EXACT []
is_a: OBI:0002654 ! needle biopsy

[Term]
id: OBI:0002652
name: computed tomography assisted biopsy
def: "A needle biopsy guided by real-time computed tomography (CT) scan images." []
synonym: "Computed Tomography Assisted Biopsy" EXACT []
synonym: "Computed Tomography-Guided Needle Biopsy" EXACT []
synonym: "CT Assisted Biopsy" EXACT []
synonym: "CT Guided Biopsy" EXACT []
is_a: OBI:0002651 ! image guided biopsy

[Term]
id: OBI:0002653
name: ultrasound-guided needle biopsy
def: "A needle biopsy guided by ultrasound visualization." []
is_a: OBI:0002651 ! image guided biopsy

[Term]
id: OBI:0002654
name: needle biopsy
def: "A biopsy that uses a hollow needle to extract cells." []
is_a: OBI:0002650 ! biopsy

[Term]
id: OBI:0002655
name: fine needle aspiration biopsy
def: "A biopsy that uses a thin needle to extract cells." []
synonym: "FNA" EXACT []
synonym: "FNAB" EXACT []
is_a: OBI:0002654 ! needle biopsy

[Term]
id: OBI:0002656
name: core needle biopsy
def: "A biopsy that uses a hollow tube to collect a core of tissue." []
synonym: "CNB" EXACT []
is_a: OBI:0002654 ! needle biopsy

[Term]
id: OBI:0002657
name: surgical biopsy
def: "A biopsy involving a surgical incision into an organism to access the biopsy material." []
synonym: "excisional biopsy" EXACT []
synonym: "open biopsy" EXACT []
is_a: OBI:0002650 ! biopsy

[Term]
id: OBI:0002660
name: abdominal wall fat pad biopsy
def: "A biopsy involving the collection of a small part of the abdominal wall fat pad." []
synonym: "abdominal wall biopsy" EXACT []
synonym: "fat biopsy" EXACT []
is_a: OBI:0002650 ! biopsy

[Term]
id: OBI:0002661
name: tail biopsy
def: "A biopsy involving the collection of the tip of a mamallian tail." []
synonym: "snip" EXACT []
is_a: OBI:0002650 ! biopsy

[Term]
id: OBI:0002662
name: bone marrow biopsy
def: "A biopsy where a small amount of bone and a small amount of fluid and bone marrow are collected." []
is_a: OBI:0002650 ! biopsy

[Term]
id: OBI:0002663
name: skinpunch biopsy
def: "A biopsy that involves the collection of a cylinder of skin (including epidermis, dermis and superficial fat) using a punch tool." []
synonym: "punch biopsy; skin biopsy" EXACT []
is_a: OBI:0002650 ! biopsy

[Term]
id: OBI:0002664
name: cytometric bead array assay measuring epitope specific interleukin-15 production by T cells
def: "A cytometric bead array assay that detects interleukin-15 production by T cells." []
synonym: "IL-15 release|cytometric bead array" EXACT []
is_a: OBI:0001292 ! assay measuring epitope specific interleukin-15 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0002665
name: cytometric bead array assay measuring epitope specific interleukin-16 production by T cells
def: "A cytometric bead array assay that detects interleukin-16 production by T cells." []
synonym: "IL-16 release|cytometric bead array" EXACT []
is_a: OBI:0001280 ! assay measuring epitope specific interleukin-16 production by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0002666
name: in vivo assay measuring B cell epitope specific induction of hypersensitivity resulting from the adoptive transfer of epitope specific antibodies or B cells
def: "An efficacy of B cell epitope intervention experiment that detects a hypersensitivity response by monitoring skin reactions after adoptive transfer of epitope specific antibodies or B cells." []
synonym: "hypersensitivity after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001694 ! in vivo assay measuring B cell epitope specific induction of hypersensitivity
is_a: OBI:0002677 ! in vivo assay measuring a B cell epitope specific response after adoptive transfer of epitope specific antibodies or B cells

[Term]
id: OBI:0002667
name: in vivo skin test assay measuring T cell epitope specific type IV hypersensitivity resulting from the adoptive transfer of epitope specific T cells
def: "An efficacy of T cell epitope intervention experiment that detects epitope specific type IV hypersensitivity after adoptive transfer of epitope specfic T cells." []
synonym: "type IV hypersensitivity (DTH) after adoptive transfer|in vivo skin test" EXACT []
is_a: OBI:0001348 ! in vivo skin test assay measuring T cell epitope specific type IV hypersensitivity
is_a: OBI:0002676 ! in vivo assay measuring a T cell epitope specific response after adoptive transfer of epitope specific T cells

[Term]
id: OBI:0002668
name: in vivo assay measuring epitope specific proliferation of T cells resulting from the adoptive transfer of epitope specific T cells
def: "A T cell epitope specific proliferation assay that is performed in vivo after adoptive transfer of epitope specfic T cells." []
synonym: "proliferation after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0002070 ! in vivo assay measuring epitope specific proliferation of T cells
is_a: OBI:0002676 ! in vivo assay measuring a T cell epitope specific response after adoptive transfer of epitope specific T cells

[Term]
id: OBI:0002669
name: assay measuring epitope specific helper T cell enhancement of a B cell mediated immune response resulting from the adoptive transfer of epitope specific T cells
def: "A T cell epitope specific helper activity assay that detects the ability of a T cell epitope to enhance an antibody response after adoptive transfer of epitope specfic T cells." []
synonym: "antibody help after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001228 ! in vivo assay measuring epitope specific helper T cell enhancement of a B cell mediated immune response
is_a: OBI:0002676 ! in vivo assay measuring a T cell epitope specific response after adoptive transfer of epitope specific T cells

[Term]
id: OBI:0002670
name: assay measuring epitope specific helper T cell enhancement of a T cell mediated immune response resulting from the adoptive transfer of epitope specific T cells
def: "A T cell epitope specific helper activity assay that detects the ability of a T cell epitope to enhance a T cell response after adoptive transfer of epitope specfic T cells." []
synonym: "T cell help after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001263 ! in vivo assay measuring epitope specific helper T cell enhancement of a T cell mediated immune response
is_a: OBI:0002676 ! in vivo assay measuring a T cell epitope specific response after adoptive transfer of epitope specific T cells

[Term]
id: OBI:0002671
name: in vivo assay measuring epitope specific T cell killing resulting from the adoptive transfer of epitope specific T cells
def: "An in vivo cell killing assay that detects the killing of an antigen presenting cell (APC) by a T cell whose TCR recognizes an epitope presented by the APC after adoptive transfer of epitope specific T cells." []
synonym: "cytotoxicity after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001392 ! in vivo assay measuring epitope specific T cell killing
is_a: OBI:0002676 ! in vivo assay measuring a T cell epitope specific response after adoptive transfer of epitope specific T cells

[Term]
id: OBI:0002672
name: ELISA measuring epitope specific perforin release by T cells
def: "An enzyme-linked immunosorbent assay that detects epitope specific perforin release by T cells." []
synonym: "perforin release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001497 ! assay measuring epitope specific perforin release by T cells

[Term]
id: OBI:0002673
name: enrichment culture medium
def: "A culture medium that is designed to favor the growth of a particular microorganism or cells over others, enriching a sample for the microorganism or cells of interest." []
synonym: "isolation medium" EXACT []
is_a: OBI:0000079 ! culture medium

[Term]
id: OBI:0002674
name: case series design
def: "A study design that samples only subjects who have experienced a particular event (outcome or exposure). Such a design, in contrast to a cohort study, does not permit calculation of absolute risk as non-case subjects are not included." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0002675
name: massively parallel reporter assay
def: "An assay in which multiplexing the construction and interrogation of larger libraries of reporter constructs allows measurement of the transcriptional regulatory activities of thousands to hundreds of thousands of DNA sequences." []
synonym: "MPRA" EXACT []
is_a: OBI:0002082 ! reporter gene assay

[Term]
id: OBI:0002676
name: in vivo assay measuring a T cell epitope specific response after adoptive transfer of epitope specific T cells
def: "An efficacy of T cell epitope intervention experiment that is performed after adoptive transfer of epitope specfic T cells." []
synonym: "in vivo response after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001484 ! assay measuring T cell epitope specific in vivo activity

[Term]
id: OBI:0002677
name: in vivo assay measuring a B cell epitope specific response after adoptive transfer of epitope specific antibodies or B cells
def: "An efficacy of B cell epitope intervention experiment that is performed after adoptive transfer of epitope specific antibodies or B cells." []
synonym: "in vivo response after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001698 ! assay measuring B cell epitope specific in vivo activity

[Term]
id: OBI:0002678
name: in vivo assay measuring T cell epitope specific disease exacerbation resulting from the adoptive transfer of epitope specific T cells
def: "An efficacy of T cell epitope intervention experiment that uses a disease exacerbation in vivo intervention experiment after adoptive transfer of epitope specfic T cells." []
synonym: "disease exacerbation after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001467 ! in vivo assay measuring T cell epitope specific disease exacerbation
is_a: OBI:0002676 ! in vivo assay measuring a T cell epitope specific response after adoptive transfer of epitope specific T cells

[Term]
id: OBI:0002679
name: vacuum-assisted biopsy needle
def: "A core biopsy needle integrated with a vacuum system which facilitates the collection of specimen material." []
is_a: OBI:0000436 ! needle

[Term]
id: OBI:0002680
name: pseudovirus entry assay
def: "An assay that measures the entry in target cells of reporter viral particles that express an envelope protein of a different virus of interest." []
synonym: "pseudotype cell entry" EXACT []
synonym: "pseudotype entry" EXACT []
synonym: "pseudotyped particle cell entry assay" EXACT []
synonym: "pseudovirus cell entry" EXACT []
is_a: OBI:0001187 ! infectious agent detection assay

[Term]
id: OBI:0002681
name: glass bottle
def: "A container with a narrow neck that is made of glass." []
is_a: OBI:0000967 ! container

[Term]
id: OBI:0002682
name: glass bottle coated with insecticides
def: "A glass bottle that coated with material designed to control insects." []
is_a: OBI:0002681 ! glass bottle

[Term]
id: OBI:0002683
name: short interspersed nuclear elements polymerase chain reaction
def: "A polymerase chain reaction that amplifies short interspersed nuclear elements (SINEs)." []
synonym: "short interspersed elements PCR" EXACT []
is_a: OBI:0000415 ! polymerase chain reaction

[Term]
id: OBI:0002684
name: nested polymerase chain reaction
def: "A polymerase chain reaction with modification intended to reduce non-specific binding in products due to the amplification of unexpected primer binding sites. The nested polymerase chain reaction (PCR) involves the use of two primer sets and two successive PCR reactions. The first set of primers are designed to anneal to sequences upstream from the second set of primers and are used in an initial PCR reaction." []
synonym: "nested PCR" EXACT []
synonym: "nested-PCR" EXACT []
is_a: OBI:0000415 ! polymerase chain reaction

[Term]
id: OBI:0002685
name: immunoelectrophoresis
def: "An electrophoresis that separates and characterize proteins based on reaction with antibodies." []
synonym: "IEP" EXACT []
is_a: OBI:0600053 ! electrophoresis

[Term]
id: OBI:0002686
name: counter current immunoelectrophoresis
def: "An electrophoresis in which antigen and antibody move in opposite directions and form precipitates in the area between the cells where they meet in concentrations of optimal proportions." []
is_a: OBI:0600053 ! electrophoresis

[Term]
id: OBI:0002687
name: ligase detection reaction
def: "A linear amplification that uses a thermostable ligase to amplify a piece of DNA. Because the enzyme retains activity after multiple thermal cycles, the ligations may be repeated to linearly increase product." []
synonym: "LDR" EXACT []
is_a: OBI:0001494 ! linear amplification

[Term]
id: OBI:0002688
name: loop-mediated isothermal amplification
def: "An enzymatic amplification in which a piece of DNA is amplified at a constant temperature of 60 - 65 degree C using either two or three sets of primers and a polymerase with high strand displacement activity in addition to a replication activity. This amplification does not need thermal cyclers and may be a low cost alternative to PCR." []
synonym: "LAMP" EXACT []
is_a: OBI:0600058 ! enzymatic amplification

[Term]
id: OBI:0002689
name: detection of pathogenic organisms objective
def: "An organism feature identification objective that aims to detect whether an organism contains pathogenic organisms." []
is_a: OBI:0000268 ! organism feature identification objective

[Term]
id: OBI:0002690
name: insecticide resistance detection objective
def: "An organism feature identification objective that aims to detect insecticide resistance of an insect." []
is_a: OBI:0000268 ! organism feature identification objective

[Term]
id: OBI:0002691
name: arthropod meal of blood specimen
def: "A specimen of the blood ingested by an arthropod." []
synonym: "blood meal" EXACT []
is_a: OBI:0000655 ! blood specimen

[Term]
id: OBI:0002692
name: polymerase chain reaction assay
def: "An assay that uses polymerase chain reaction technique to amplify DNA." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002693
name: restriction fragment length polymorphism assay
def: "An assay that uses digestion of DNA with specific restriction enzymes followed by gel electropheresis to detect differences in the sizes of the generated fragments that are due to genetic differences (polymorphisms) in homologous sequences." []
synonym: "restriction fragment length polymorphism" EXACT []
synonym: "restriction fragment length polymorphism analysis" EXACT []
synonym: "RFLP" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002694
name: DNA fingerprinting assay
def: "An assay to identify a specific individual organism from a DNA specimen by looking at unique patterns in their DNA." []
synonym: "DNA finger printing" EXACT []
synonym: "DNA fingerprint" EXACT []
synonym: "DNA fingerprinting" EXACT []
synonym: "DNA profiling" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002695
name: insecticide resistance assay
def: "An assay that aims to detect the presence and/or frequency of resistance to insecticides in an organism or organism population." []
synonym: "resistance identification/monitoring" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002696
name: insecticide resistance by monitoring known mutations assay
def: "An insecticide resistance assay that detects, in a population, presence and frequency of mutant alleles for previously characterized mutations with insecticide resistance phenotypes." []
synonym: "monitoring known mutations" EXACT []
is_a: OBI:0002695 ! insecticide resistance assay

[Term]
id: OBI:0002697
name: insecticide resistance by detecting enzyme activity assay
def: "An insecticide resistance assay that is based on determination the catalytic activity of an enzyme associated with insecticide resistance phenotypes." []
synonym: "metabolic resistance assay" EXACT []
is_a: OBI:0002695 ! insecticide resistance assay

[Term]
id: OBI:0002698
name: insecticide resistance bioassay
def: "An insecticide resistance assay that is typically conducted to measure the effects of a substance on a living organism." []
synonym: "bioassay" EXACT []
is_a: OBI:0002695 ! insecticide resistance assay

[Term]
id: OBI:0002699
name: insecticide resistance by detecting alpha esterase activity assay
def: "An insecticide resistance by detecting enzyme activity assay that measures activity of alpha esterase." []
synonym: "alpha esterase activity assay" EXACT []
is_a: OBI:0002697 ! insecticide resistance by detecting enzyme activity assay

[Term]
id: OBI:0002700
name: insecticide resistance by detecting beta esterase activity assay
def: "An insecticide resistance by detecting enzyme activity assay that measures activity of beta esterase." []
synonym: "beta esterase activity assay" EXACT []
is_a: OBI:0002697 ! insecticide resistance by detecting enzyme activity assay

[Term]
id: OBI:0002701
name: insecticide resistance by detecting acetylcholinesterase activity assay
def: "An insecticide resistance by detecting enzyme activity assay that measures activity of acetylcholinesterase." []
synonym: "acetylcholinesterase assay" EXACT []
synonym: "AChE activity assay" EXACT []
synonym: "AChE assay" EXACT []
is_a: OBI:0002697 ! insecticide resistance by detecting enzyme activity assay

[Term]
id: OBI:0002702
name: insecticide resistance by detecting glutathione S-transferase activity assay
def: "An insecticide resistance by detecting enzyme activity assay that measures activity of glutathione S-transferase (GST)." []
synonym: "GST related assay" EXACT []
is_a: OBI:0002697 ! insecticide resistance by detecting enzyme activity assay

[Term]
id: OBI:0002703
name: insecticide resistance by detecting carboxylic ester hydrolase activity assay
def: "An insecticide resistance by detecting enzyme activity assay that measures activity of carboxylic ester hydrolase using p-nitrophenyl acetate as a substrate." []
synonym: "pNPA assay" EXACT []
is_a: OBI:0002697 ! insecticide resistance by detecting enzyme activity assay

[Term]
id: OBI:0002704
name: insecticide resistance by detecting mixed-function oxidase assay
def: "An insecticide resistance by detecting enzyme activity assay that measures whether mixed-function oxidase activity present." []
synonym: "mixed-function oxidase assay" EXACT []
is_a: OBI:0002697 ! insecticide resistance by detecting enzyme activity assay

[Term]
id: OBI:0002705
name: direct insecticide resistance bioassay
def: "An insecticide resistance bioassay without the use of any synergist." []
synonym: "direct bioassay" EXACT []
is_a: OBI:0002698 ! insecticide resistance bioassay

[Term]
id: OBI:0002706
name: topical application insecticide resistance bioassay
def: "An insecticide resistance bioassay by adding insecticide directly to the thorax of the insect." []
synonym: "topical application assay" EXACT []
is_a: OBI:0002698 ! insecticide resistance bioassay

[Term]
id: OBI:0002707
name: direct insecticide resistance diagnostic assay
def: "A direct insecticide resistance assay that at preset insecticide dosage scoring mortality to determine resistance of a population." []
synonym: "diagnostic test" EXACT []
is_a: OBI:0002705 ! direct insecticide resistance bioassay

[Term]
id: OBI:0002708
name: insecticide resistance dose response assay
def: "A direct insecticide resistance assay in which an insect population is exposed to a range of insecticide dosage scoring mortality to determine resistance." []
synonym: "dose response test" EXACT []
is_a: OBI:0002705 ! direct insecticide resistance bioassay

[Term]
id: OBI:0002709
name: insecticide resistance time response assay
def: "A direct insecticide resistance assay to determine resistance as a consequence of the time of exposure to insecticide." []
synonym: "time response test" EXACT []
is_a: OBI:0002705 ! direct insecticide resistance bioassay

[Term]
id: OBI:0002710
name: Centre for Disease Control and Prevention bottle bioassay
def: "A direct insecticide resistance diagnostic assay performs in a glass bottle coated with insecticides for detecting resistance to insecticides in vector populations." []
synonym: "CDC bottle bioassay" EXACT []
is_a: OBI:0002707 ! direct insecticide resistance diagnostic assay

[Term]
id: OBI:0002711
name: WHO cone kit diagnostic assay
def: "A direct insecticide resistance diagnostic assay uses WHO cone kit." []
synonym: "cone DT" EXACT []
is_a: OBI:0002707 ! direct insecticide resistance diagnostic assay

[Term]
id: OBI:0002712
name: WHO paper kit diagnostic assay
def: "A direct insecticide resistance diagnostic assay uses WHO paper kit." []
synonym: "WHO paper kit DT" EXACT []
is_a: OBI:0002707 ! direct insecticide resistance diagnostic assay

[Term]
id: OBI:0002713
name: WHO larvicide diagnostic assay
def: "A direct insecticide resistance diagnostic assay tests survival of larvae in a medium supplemented with insecticide." []
synonym: "WHO larvicide DT" EXACT []
is_a: OBI:0002707 ! direct insecticide resistance diagnostic assay

[Term]
id: OBI:0002714
name: insecticide resistance dose response by bottle assay
def: "An insecticide resistance dose response assay that performs in a glass bottle coated with insecticides." []
synonym: "bottle bioassay DR test" EXACT []
is_a: OBI:0002708 ! insecticide resistance dose response assay

[Term]
id: OBI:0002715
name: insecticide resistance dose response by survival of larvae assay
def: "An insecticide resistance dose response assay that tests survival of larvae in a medium supplemented with insecticide." []
synonym: "WHO larvicide DR test" EXACT []
is_a: OBI:0002708 ! insecticide resistance dose response assay

[Term]
id: OBI:0002716
name: insecticide resistance dose response by WHO paper kit assay
def: "An insecticide resistance dose response assay using WHO paper kit." []
synonym: "WHO paper kit DR test" EXACT []
is_a: OBI:0002708 ! insecticide resistance dose response assay

[Term]
id: OBI:0002717
name: insecticide resistance time response by bottle assay
def: "An insecticide resistance time response assay that is performed in a glass bottle coated with insecticides, with the presence of a synergist." []
synonym: "bottle bioassay TR test" EXACT []
is_a: OBI:0002709 ! insecticide resistance time response assay

[Term]
id: OBI:0002718
name: insecticide resistance time response by WHO paper kit assay
def: "An insecticide resistance time response assay using WHO paper kit, with the presence of a synergist." []
synonym: "WHO paper kit TR test" EXACT []
is_a: OBI:0002709 ! insecticide resistance time response assay

[Term]
id: OBI:0002719
name: insecticide resistance by amplification refractory mutation system assay
def: "An insecticide resistance by monitoring known mutations assay that detects any mutation involving single base changes or small deletions using amplification refractory mutation system (ARMS). The ARMS is based on the use of sequence-specific PCR primers that allow amplification of test DNA only when the target allele is contained within the sample. Following an ARMS reaction the presence or absence of a PCR product is diagnostic for the presence or absence of the target allele. It can be used to analyze human genomic DNA for one or more mutations." []
synonym: "Amplification Refractory Mutation System" EXACT []
synonym: "ARMS" EXACT []
is_a: OBI:0002692 ! polymerase chain reaction assay
is_a: OBI:0002696 ! insecticide resistance by monitoring known mutations assay

[Term]
id: OBI:0002720
name: insecticide resistance by primer introduced restriction analysis PCR assay
def: "An insecticide resistance by monitoring known mutations assay that detects Single Nucleotide Polymorphisms (SNPs) using PCR technique and mismatched primers that is close to the mutation of interest and digested the PCR productions using restriction enzymes." []
synonym: "PIRA-PCR" EXACT []
synonym: "polymerase chain reaction-primer-introduced restriction analysis" EXACT []
synonym: "Primer Introduced Restriction Analysis PCR" EXACT []
is_a: OBI:0002692 ! polymerase chain reaction assay
is_a: OBI:0002696 ! insecticide resistance by monitoring known mutations assay

[Term]
id: OBI:0002721
name: insecticide resistance by nested polymerase chain reaction assay
def: "An insecticide resistance by monitoring known mutations assay that detects gene mutation based on nested polymerase chain reaction technique." []
synonym: "gene mutation detection by nested PCR" EXACT []
is_a: OBI:0002692 ! polymerase chain reaction assay
is_a: OBI:0002696 ! insecticide resistance by monitoring known mutations assay

[Term]
id: OBI:0002722
name: insecticide resistance by ligase detection reaction assay
def: "An insecticide resistance assay that is based on monitoring known mutations using ligase detection reaction exquisitely discriminate between a mismatched and complementary DNA helix." []
is_a: OBI:0002696 ! insecticide resistance by monitoring known mutations assay

[Term]
id: OBI:0002723
name: insecticide resistance by ligase detection reaction-fluorescent microsphere assay
def: "An insecticide resistance by ligase detection reaction assay that uses fluorescently labeled conserved probes in ligase detection reaction." []
synonym: "gene mutation detection by LDR-FMA" EXACT []
synonym: "ligase detection reaction-fluorescent microsphere assay" EXACT []
is_a: OBI:0002722 ! insecticide resistance by ligase detection reaction assay

[Term]
id: OBI:0002724
name: insecticide resistance by PCR amplification of specific alleles assay
def: "An insecticide resistance assay that is based on monitoring known mutations by PCR amplification of specific alleles to detect polymorphic or mutant alleles." []
synonym: "allele-specific amplification and amplification refractory mutation system" EXACT []
synonym: "PASA" EXACT []
synonym: "PCR amplification of specific alleles" EXACT []
is_a: OBI:0002692 ! polymerase chain reaction assay
is_a: OBI:0002696 ! insecticide resistance by monitoring known mutations assay

[Term]
id: OBI:0002725
name: insecticide resistance by fluorogenic PCR assay
def: "An insecticide resistance assay that is based on monitoring known mutations by PCR technique that uses target specific probes labeled with fluorogenic chromophores to detect gene mutation." []
is_a: OBI:0002692 ! polymerase chain reaction assay
is_a: OBI:0002696 ! insecticide resistance by monitoring known mutations assay

[Term]
id: OBI:0002726
name: insecticide resistance by PCR-RFLP assay
def: "An insecticide resistance by monitoring known mutations assay based on restriction fragment length polymorphism assay." []
synonym: "PCR-RFLP" EXACT []
is_a: OBI:0002692 ! polymerase chain reaction assay
is_a: OBI:0002696 ! insecticide resistance by monitoring known mutations assay

[Term]
id: OBI:0002727
name: insecticide resistance by short interspersed elements PCR assay
def: "An insecticide resistance assay that is based on monitoring known mutations by PCR amplification of short interspersed elements (SINEs)." []
synonym: "Short Interspersed Elements PCR" EXACT []
is_a: OBI:0002692 ! polymerase chain reaction assay
is_a: OBI:0002696 ! insecticide resistance by monitoring known mutations assay

[Term]
id: OBI:0002728
name: pathogen detection assay
def: "An organism detection assay that detects pathogens." []
synonym: "pathogen detection method" EXACT []
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0002729
name: VectorTest assay
def: "A pathogen detection assay that identifies the presence or absence of specific peptide epitopes of circumsporozoite (CS) protein of the most important Plasmodium falciparum and two strains (variants 210 and 247) of the more widespread Plasmodium vivax using a dipstick wicking test strip." []
synonym: "VectorTest" EXACT []
is_a: OBI:0002728 ! pathogen detection assay

[Term]
id: OBI:0002730
name: pathogen detection by Rapid Analyte Measurement Platform assay
def: "A pathogen detection assay that is based on Rapid Analyte Measurement Platform (RAMP) technology to quantify immunologically active substances." []
synonym: "Rapid Analyte Measurement Platform" EXACT []
is_a: OBI:0002728 ! pathogen detection assay

[Term]
id: OBI:0002731
name: pathogen detection by loop-mediated isothermal amplification assay
def: "A pathogen detection assay that is based on loop-mediated isothermal amplification." []
synonym: "Loop-mediated isothermal amplification" EXACT []
is_a: OBI:0002728 ! pathogen detection assay

[Term]
id: OBI:0002732
name: blood meal assay
def: "An assay that analyzes the specimen taken from blood meal fed organism, such as insect." []
synonym: "blood meal analysis" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002733
name: blood meal by counter current immunoelectrophoresis assay
def: "A blood meal assay that uses a counter current immunoelectrophoresis technique." []
synonym: "CIE" EXACT []
synonym: "countercurrent immunoelectrophoresis" EXACT []
is_a: OBI:0002732 ! blood meal assay

[Term]
id: OBI:0002734
name: DNA based blood meal finger printing assay
def: "A DNA fingerprinting assay that uses DNA extracted from blood meal fed organism, such as insect." []
synonym: "DNA based blood meal finger printing" EXACT []
is_a: OBI:0002694 ! DNA fingerprinting assay
is_a: OBI:0002732 ! blood meal assay

[Term]
id: OBI:0002735
name: organism detection by size assay
def: "An organism detection assay that is based on the size of organism." []
synonym: "by size" EXACT []
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0002736
name: organism detection by cross mating assay
def: "An organism detection assay that is based on genetic crossings between specimens collected in the field to determine whether fertile progeny is produced." []
synonym: "cross mating experiment" EXACT []
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0002737
name: organism detection by cytological chromosome examination assay
def: "An organism detection assay that is based on analysis of polytene chromosomes through cytological examination of the banding pattern of the species." []
synonym: "cytological chromosome examination" EXACT []
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0002738
name: organism detection by isoenzyme electrophoresis assay
def: "An organism detection assay that is based on electrophoresis to determine the isozymes that are present in a specific population to determine the species." []
synonym: "isoenzyme electrophoresis" EXACT []
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0002739
name: organism detection by morphological examination assay
def: "An organism detection assay that is based on examination of morphology and the use of specific taxonomic keys to determine the species of the specimen." []
synonym: "morphological examination" EXACT []
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0002740
name: organism detection by PCR assay
def: "An organism detection assay that is based on PCR." []
synonym: "PCR-based species identification" EXACT []
is_a: OBI:0002692 ! polymerase chain reaction assay
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0002741
name: organism detection by specific DNA hybridization assay
def: "An organism detection assay that is based on DNA hybrdization." []
synonym: "species specific DNA hybridization" EXACT []
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0002742
name: organism detection by salinity tolerance assay
def: "An organism detection assay of mosquito species that is on the basis of mosquito survival depending on the salt concentration in the water used to lay their eggs to differentiate between morphologically very similar species." []
synonym: "salinity tolerance tests" EXACT []
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0002743
name: molecular label role
def: "A reagent role inhering in a molecular entity intended to associate with some molecular target to serve as a proxy for the presence, abundance, or location of this target in a detection of molecular label assay." []
synonym: "molecular tracer role" EXACT []
is_a: OBI:0000086 ! reagent role

[Term]
id: OBI:0002744
name: molecular label
def: "A molecular reagent intended to associate with some molecular target to serve as a proxy for the presence, abundance, or location of this target in a detection of molecular label assay" []
synonym: "molecular tracer" EXACT []
is_a: COB:0000013 ! molecule
is_a: OBI:0001879 ! reagent

[Term]
id: OBI:0002745
name: vacuum-assisted biopsy
def: "A biopsy performed with a needle augmented with a vacuum device." []
synonym: "VAB" EXACT []
is_a: OBI:0002654 ! needle biopsy

[Term]
id: OBI:0002746
name: induced sputum specimen
def: "A sputum specimen that is collected from an organism following its inhalation of a nebulized salt solution." []
is_a: OBI:0002508 ! sputum specimen

[Term]
id: OBI:0002747
name: passage process
def: "A material processing that consists of first growing an organism in an environmental system and then removing the organism to be grown in another environmental system, a process which may be repeated with the objective of altering the organism or increasing its number." []
is_a: COB:0000110 ! material processing

[Term]
id: OBI:0002748
name: passage history record
def: "A data item that is about the sequence of environmental systems in each of which is grown an organism in a passage process." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0002750
name: Oxford Nanopore MinION
def: "A portable DNA sequencer which is manufactured by the Oxford Nanopore Technologies corporation, that uses consumable flow cells producing up to 30 Gb of DNA sequence data per flow cell. The sequencer produces real-time results and utilizes nanopore technology with up to 512 nanopore channels in the sensor array." []
synonym: "ONT MinION, MinION" EXACT []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0002751
name: Oxford Nanopore GridION Mk1
def: "A DNA sequencer that is manufactured by the Oxford Nanopore Technologies corporation, that can run and analyze up to five individual flow cells producing up to 150 Gb of data per run. The sequencer produces real-time results and utilizes nanopore technology with the option of running the flow cells concurrently or individually." []
synonym: "Oxford Nanopore GridION X5, GridION Mk1" EXACT []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0002752
name: Oxford Nanopore PromethION
def: "A DNA sequencer that is manufactured by the Oxford Nanopore Technologies corporation, capable of running up to 48 flow cells and producing up to 7.6 Tb of data per run. The sequencer produces real-time results and utilizes Nanopore technology, with each flow cell allowing up to 3,000 nanopores to be sequencing simultaneously." []
synonym: "PromethION" EXACT []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0002753
name: PRO-cap
def: "Precision nuclear run-on and sequencing to detect Pol II initiation sites" []
synonym: "PRO-CAP" EXACT []
is_a: OBI:0001177 ! RNA sequencing assay
is_a: OBI:0002692 ! polymerase chain reaction assay

[Term]
id: OBI:0002754
name: cDNA library
def: "A collection of DNA molecules with sequences complementary to a specified set of mRNA molecules and commonly developed by enzymatic reverse transcription." []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0002756
name: ordinal value specification
def: "A categorical value specification in which the available categories were created with an explicit order." []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0002759
name: ribosomal RNA-depleted RNA sequencing assay
def: "An RNA-seq assay in which highly abundant ribosomal RNAs are removed from total RNA before sequencing, resulting in more efficient transcript/gene detection." []
synonym: "rRNA-deleted RNA sequencing assay" EXACT []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0002760
name: metatranscriptome sequencing assay
def: "An RNA-seq assay that determines the RNA sequence of microbial transcripts from a microbioal community of mixed species from a given microbiome." []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0002761
name: lipid profiling assay
def: "An analyte assay assay that detects and identifies lipids resulting from biochemical and cellular metabolism." []
synonym: "lipidomic assay" EXACT []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0002762
name: single-nucleus ATAC-seq
def: "An ATAC-seq assay in which single nuclei are isolated from frozen tissue samples, through a protocol designed to maximally preserve nucleus integrity during sample processing and optimize transposase-mediated fragmentation of chromatin in individual nuclei." []
synonym: "snATAC-seq" EXACT []
is_a: OBI:0002039 ! assay for transposase-accessible chromatin using sequencing

[Term]
id: OBI:0002763
name: 16s ribosomal gene sequencing assay
def: "An amplicon sequencing assay in which the amplicon is derived from universal primers used to amplify the 16S ribosomal RNA gene from isolate bacterial genomic DNA or metagenomic DNA from a microbioal community. Resulting sequences are compared to reference 16S sequence databases to identify or classify bacteria present within a given sample." []
synonym: "16S rRNA sequencing assay" EXACT []
is_a: OBI:0001960 ! taxonomic diversity assessment by targeted gene survey
is_a: OBI:0002767 ! amplicon sequencing assay

[Term]
id: OBI:0002764
name: single-cell ATAC-seq
def: "An ATAC assay designed to robustly map the accessible genome of individual cells, using sequencing integrated into a programmable microfluidics platform, in order to provide insights into cell-to-cell variation in accessibility profiles." []
synonym: "scATAC-seq" EXACT []
is_a: OBI:0002039 ! assay for transposase-accessible chromatin using sequencing

[Term]
id: OBI:0002765
name: microbiome protein expression profiling assay
def: "A protein expression profiling assay of microbial proteins extracted from a microbioal community of mixed species from a given microbiome." []
synonym: "metaproteomic assay" EXACT []
is_a: OBI:0000615 ! protein expression profiling assay

[Term]
id: OBI:0002766
name: cytokine assay
def: "An analyte assay to study presence, concentration, or amount of cytokines." []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0002767
name: amplicon sequencing assay
def: "A sequencing assay in which a DNA or RNA input molecule is amplified by PCR and the product sequenced." []
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0002768
name: whole virome sequencing assay
def: "A whole metagenome sequencing assay that intends to provide information on multiple genome sequences from different viruses present in the same input sample." []
is_a: OBI:0002623 ! whole metagenome sequencing assay

[Term]
id: OBI:0002769
name: karyotype information
def: "A genetic characteristics information that is about the number and appearance of chromosomes in the nucleus of an eukaryotic cell." []
is_a: OBI:0001404 ! genetic characteristics information

[Term]
id: OBI:0002770
name: partial karyotype information
def: "A karyotype information that is about the structural variation of partial genome rather than whole genome." []
is_a: OBI:0002769 ! karyotype information

[Term]
id: OBI:0002771
name: full karyotype information
def: "A karyotype information that is about the structural variation of the whole genome." []
is_a: OBI:0002769 ! karyotype information

[Term]
id: OBI:0002772
name: presence or over-threshold value specification
def: "An ordinal value specification that indicates that either \na) an analyte or mesaurand is present in an evaluant, or \nb) that the amount of analyte/measurand detected is over some predetermined threshold." []
comment: bump
is_a: OBI:0002756 ! ordinal value specification

[Term]
id: OBI:0002773
name: single-value binding of antibody with reporter to antigen assay
def: "An assay that detects the linking of antigens and antibodies via special signaling mechanisms, such as EIA, ELISA, chemiluminescence, etc. that produces one measure (quantitative or qualitative) of the analyte of interest" []
synonym: "IA" EXACT []
synonym: "immunoassay" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002774
name: platelet-poor plasma specimen
def: "A blood plasma specimen that is the output of some platelet-poor plasma preparation and is the portion of plasma that contains fewer than 10,000 platelets per microliter." []
is_a: OBI:0100016 ! blood plasma specimen

[Term]
id: OBI:0002775
name: platelet-poor plasma preparation process
def: "A material component separation process in which (1) whole blood is first centrifuged to separate red blood cells from blood plasma, which forms the supernatant, and (2) the blood plasma is then centrifuged to separate platelets from the plasm." []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0002776
name: cytometry analysis by automated gating
def: "A gating in which the output of a flow- or mass- cytometry experiment is separated into gates that were set by an algorithm in order to quantify the frequency of different cell populations of interest." []
is_a: OBI:0200077 ! gating

[Term]
id: OBI:0002777
name: cytometry analysis by manual gating
def: "A gating in which the output of a flow- or mass- cytometry experiment is separated into gates that were set by a human operator in order to quantify the frequency of different cell populations of interest." []
is_a: OBI:0200077 ! gating

[Term]
id: OBI:0002778
name: tracheal aspirate specimen
def: "A specimen that is collected with a suctioning tube from the trachea." []
synonym: "tracheal wash specimen" EXACT []
is_a: OBI:0002781 ! lower respiratory tract aspirate specimen

[Term]
id: OBI:0002779
name: mid-turbinate nasal swab specimen
def: "A specimen that is collected with a mid-turbinate nasal swab from the turbinate area of the nasal cavity." []
is_a: OBI:0000917 ! nasal swab specimen

[Term]
id: OBI:0002780
name: nasal aspirate specimen
def: "A specimen that is collected with a suctioning tube from the nasal cavity." []
synonym: "nasal wash specimen" EXACT []
synonym: "nasopharyngeal aspirate" EXACT []
is_a: OBI:2000006 ! upper respiratory tract specimen

[Term]
id: OBI:0002781
name: lower respiratory tract aspirate specimen
def: "A specimen that is collected with a suctioning tube from the lower respiratory tract." []
synonym: "lower respiratory tract wash specimen" EXACT []
is_a: OBI:0002783 ! lower respiratory tract specimen

[Term]
id: OBI:0002782
name: obsolete_upper respiratory specimen
def: "A specimen that is derived from the upper respiratory tract" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: OBI:2000006

[Term]
id: OBI:0002783
name: lower respiratory tract specimen
def: "A specimen that is derived from the lower respiratory tract." []
is_a: OBI:2000005 ! respiratory system specimen

[Term]
id: OBI:0002784
name: anterior nasal swab specimen
def: "A specimen that is derived from the anterior nasal wall" []
is_a: OBI:0000917 ! nasal swab specimen

[Term]
id: OBI:0002785
name: aspiration specimen collection
def: "Procedure using suction, usually with a thin needle and syringe, to remove bodily fluid or tissue." []
synonym: "aspiration procedure" EXACT []
is_a: OBI:0000659 ! specimen collection process

[Term]
id: OBI:0002786
name: personal protective device
def: "A device which is a wearable garment designed to protect the wearer's body from injury or infection." []
synonym: "personal protective equipment" EXACT []
synonym: "PPE" EXACT []
is_a: COB:0001300 ! device

[Term]
id: OBI:0002787
name: face mask
def: "A personal protective device worn over the nose and mouth as a respiratory filter to inhibit the flow of particles." []
synonym: "face covering" EXACT []
synonym: "respirator" EXACT []
is_a: OBI:0002786 ! personal protective device

[Term]
id: OBI:0002788
name: non-medical mask
def: "A face mask not manufactured according to medical equipment standards." []
synonym: "cloth mask" EXACT []
is_a: OBI:0002787 ! face mask

[Term]
id: OBI:0002789
name: medical mask
def: "A face mask manufactured according to a recognized medical equipment standard." []
synonym: "surgical mask" EXACT []
is_a: OBI:0002787 ! face mask

[Term]
id: OBI:0002790
name: N95 respirator
def: "A face mask that meets the U.S. National Institute for Occupational Safety and Health (NIOSH) N95 classification of air filtration, meaning that it filters at least 95% of incoming airborne particles." []
synonym: "N95" EXACT []
synonym: "N95 face mask" EXACT []
synonym: "N95 facemask" EXACT []
synonym: "N95 respirator mask" EXACT []
is_a: OBI:0002787 ! face mask

[Term]
id: OBI:0002791
name: face shield
def: "A personal protective device used to protect the wearer's entire face (or part of it) from hazards such as flying objects and road debris, chemical splashes, or alternately potentially infectious materials." []
synonym: "faceshield" EXACT []
synonym: "splash shield" EXACT []
is_a: OBI:0002786 ! personal protective device

[Term]
id: OBI:0002792
name: patient gown
def: "A personal protective clothing item which is a gown designed for use by a patient to facilitate caregiving by medical staff." []
synonym: "hospital gown" EXACT []
is_a: OBI:0002800 ! personal protective clothing item

[Term]
id: OBI:0002793
name: scrubs
def: "A personal protective clothing item which is sterilized and which is worn by a health care professional.  It can reference a shirt and pants or dress, and depending on medical protocol, may include a medical cap." []
synonym: "scrub clothing item" EXACT []
is_a: OBI:0002800 ! personal protective clothing item

[Term]
id: OBI:0002794
name: reusable patient gown
def: "A patient gown intended to be reused after being laundered." []
is_a: OBI:0002792 ! patient gown

[Term]
id: OBI:0002795
name: disposable patient gown
def: "A patient gown intended for a single period of continuous use and then disposed of." []
is_a: OBI:0002792 ! patient gown

[Term]
id: OBI:0002796
name: medical gown
def: "A personal protective clothing item which is a gown worn by a medical professional in order to provide a barrier between patient and professional." []
synonym: "hospital gown" EXACT []
is_a: OBI:0002800 ! personal protective clothing item

[Term]
id: OBI:0002797
name: apron
def: "A garment which is worn over other clothing and covers mainly the front of the body." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0002798
name: surgical gown
def: "A medical gown which is subjected to a sterilization process and which is intended to be worn by a medical professional during surgical procedures." []
is_a: OBI:0002796 ! medical gown

[Term]
id: OBI:0002799
name: personal protective glove
def: "A personal protective device which is a glove." []
is_a: OBI:0002800 ! personal protective clothing item

[Term]
id: OBI:0002800
name: personal protective clothing item
def: "A personal protective device which consists of a garment that serves in place of or in addition to regular body clothing." []
is_a: OBI:0002786 ! personal protective device

[Term]
id: OBI:0002802
name: laboratory coat
def: "A personal protective clothing item which is an overcoat worn by medical or laboratory professionals." []
synonym: "white coat" EXACT []
is_a: OBI:0002800 ! personal protective clothing item

[Term]
id: OBI:0002803
name: medical glove
def: "A personal protective glove which is disposable and is used during medical examinations and procedures to help prevent cross-contamination between caregivers and patients." []
is_a: OBI:0002799 ! personal protective glove

[Term]
id: OBI:0002804
name: nitrile glove
def: "A personal protective glove which is made out of nitrile rubber." []
is_a: OBI:0002799 ! personal protective glove

[Term]
id: OBI:0002805
name: transparent droplet barrier
def: "A device which is a transparent constructed barrier, usually made out of acrylic (Plexiglass) or polycarbonate plastic, installed in facilities to intercept respiratory droplets, encourage physical distancing requirements." []
synonym: "transparent partition" EXACT []
is_a: COB:0001300 ! device

[Term]
id: OBI:0002806
name: footwear cover
def: "A personal protective device which is an impermiable material which covers a shoe or boot in order to prevent spread of specific environmental contaminants." []
synonym: "boot cover" EXACT []
synonym: "shoe cover" EXACT []
is_a: OBI:0002800 ! personal protective clothing item

[Term]
id: OBI:0002807
name: disposable footwear cover
def: "A footwear cover which is designed for a single period of continuous use and then disposed of." []
is_a: OBI:0002806 ! footwear cover

[Term]
id: OBI:0002808
name: reusable footwear cover
def: "A footwear cover which is designed for repeated use." []
is_a: OBI:0002806 ! footwear cover

[Term]
id: OBI:0002809
name: surgical N95 respirator
def: "A N95 respirator which has been approved by the FDA as a surgical mask." []
synonym: "healthcare respirator" EXACT []
synonym: "medical respirator" EXACT []
synonym: "surgical N95" EXACT []
synonym: "surgical N95 respirator" EXACT []
is_a: OBI:0002790 ! N95 respirator

[Term]
id: OBI:0002810
name: protective coverall
def: "A personal protective clothing item which is a loose fitting coverall for ease of movement, with sleeves, full leggings and often a hood to cover the head. These can also include overshoe pieces to cover footwear and protect against contamination." []
is_a: OBI:0002800 ! personal protective clothing item

[Term]
id: OBI:0002811
name: protective sleeve
def: "A personal protective clothing item which is a protective cover worn over the arm." []
is_a: OBI:0002800 ! personal protective clothing item

[Term]
id: OBI:0002812
name: protective apron
def: "A personal protective clothing item which is an apron." []
is_a: OBI:0002800 ! personal protective clothing item

[Term]
id: OBI:0002813
name: medical cap
def: "A personal protective device which is worn on the head that helps prevent transmission of contaminants contained in hair and scalp." []
synonym: "bouffant cap" EXACT []
synonym: "bouffant hat" EXACT []
synonym: "medical bonnet" EXACT []
synonym: "scrub cap" EXACT []
synonym: "surgical hat" EXACT []
is_a: OBI:0002800 ! personal protective clothing item

[Term]
id: OBI:0002814
name: specimen collection device
def: "A device used to collect a specimen." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0002816
name: chromatography vial
def: "A vial with cap and container material suited to optical, sanitary and handling requirements of chromatography." []
is_a: OBI:0000601 ! chromatography consumable

[Term]
id: OBI:0002819
name: specimen pad
def: "A sample collection device consisting of a soft flexible, absorbent pad usually made from natural material such as gauze or cotton, used to absorb specimen fluid or particulate matter." []
synonym: "absorbant pad" EXACT []
synonym: "polysponge" EXACT []
synonym: "sample pad" EXACT []
synonym: "sampling sponge" EXACT []
synonym: "specimen sponge" EXACT []
synonym: "surface wipe" EXACT []
synonym: "swab" EXACT []
is_a: OBI:0002814 ! specimen collection device

[Term]
id: OBI:0002820
name: specimen collection swab stick
def: "A specimen collection device which is a specimen pad attached to a long handle used to collect specimen material." []
synonym: "polyprobe" EXACT []
synonym: "sponge probe" EXACT []
synonym: "sponge stick" EXACT []
synonym: "sponge-stick" EXACT []
is_a: OBI:0002814 ! specimen collection device

[Term]
id: OBI:0002821
name: cotton swab
def: "A device which is a cotton pad mounted on one or both ends of a stick." []
synonym: "Q-tip" EXACT []
synonym: "swab-sampler" EXACT []
is_a: COB:0001300 ! device

[Term]
id: OBI:0002822
name: drag swab
def: "A specimen collection device consisting of a specimen pad made of sterile gauze which is aseptically attached to a pole by clips or to a string" []
is_a: OBI:0002814 ! specimen collection device

[Term]
id: OBI:0002823
name: pre-moistened swab stick
def: "A specimen collection swab stick that is pre-moistened with liquid prior to sampling." []
is_a: OBI:0002820 ! specimen collection swab stick

[Term]
id: OBI:0002824
name: surface wipe
def: "A sample collection device consisting of a thin, less absorbent sheet, used to collect material from surfaces." []
is_a: OBI:0002814 ! specimen collection device

[Term]
id: OBI:0002830
name: catheter
def: "A device which is a flexible tube inserted into a body and which enables transfer of fluids into or out of a body." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0002897
name: surveillance process
def: "An investigation in which some entity is monitored, and data concerning that entity collected, interpreted, and disseminated, for the purpose of managing, directing, or protecting that entity, or some other entity." []
is_a: OBI:0000066 ! investigation

[Term]
id: OBI:0002898
name: cluster study group role
def: "A study group role that is the result of the allocation of a cluster of study-defined groupings of people in a clinical trial to receive a specific intervention/treatment, or no intervention, according to the trial's protocol." []
synonym: "cluster study arm" EXACT []
is_a: OBI:0000174 ! study group role

[Term]
id: OBI:0002899
name: compound study group role
def: "A study group role that is the result of the allocation of a compound of geographically-proximate households with a shared component in a clinical trial to receive a specific intervention/treatment, or no intervention, according to the trial's protocol." []
synonym: "compound study arm" EXACT []
is_a: OBI:0000174 ! study group role

[Term]
id: OBI:0002900
name: ultraviolet light source
def: "A light source that provides ultraviolet (UV) light for use in a distant area using a delivery system." []
synonym: "UV light source" EXACT []
is_a: OBI:0400065 ! light source

[Term]
id: OBI:0002901
name: visible light source
def: "A light source that provides visible light for use in a distant area using a delivery system." []
is_a: OBI:0400065 ! light source

[Term]
id: OBI:0002902
name: solar light source
def: "A light source that light is produced from solar energy." []
is_a: OBI:0400065 ! light source

[Term]
id: OBI:0002904
name: adult arthropod specimen collection process
def: "A live arthropod specimen collection process in which the arthropods are in the adult stage." []
synonym: "collection of adults" EXACT []
is_a: OBI:0002919 ! live arthropod specimen collection process

[Term]
id: OBI:0002905
name: animal-biting arthropod specimen collection by aspiration
def: "An arthropod specimen collection by aspiration that occurs while the arthropod is biting an animal." []
synonym: "animal biting catch" EXACT []
is_a: OBI:0002912 ! arthropod specimen collection by aspiration

[Term]
id: OBI:0002906
name: animal-biting outdoor arthropod specimen collection by aspiration
def: "An animal-biting arthropod specimen collection by aspiration that occurs outside a building." []
synonym: "animal biting catch - outdoors" EXACT []
is_a: OBI:0002905 ! animal-biting arthropod specimen collection by aspiration

[Term]
id: OBI:0002907
name: aquatic arthropod specimen collection process
def: "An arthropod specimen collection process that has the objective of collecting mosquitoes from an aquatic environment." []
synonym: "aquatic environment catch" EXACT []
is_a: OBI:0002913 ! arthropod specimen collection process

[Term]
id: OBI:0002908
name: arthropod resting in animal house specimen collection by aspiration
def: "An arthropod specimen collection by aspiration that catches specimens resting inside an animal house." []
synonym: "animal shed resting catch" EXACT []
is_a: OBI:0002912 ! arthropod specimen collection by aspiration

[Term]
id: OBI:0002909
name: arthropod resting outdoors on artificial support specimen collection by aspiration
def: "An arthropod resting outdoors specimen collection by aspiration that occurs while the arthropod rests on a processed material such as a wall or furniture." []
synonym: "outdoors shelter catch - artificial" EXACT []
is_a: OBI:0002911 ! arthropod resting outdoors specimen collection by aspiration

[Term]
id: OBI:0002910
name: arthropod resting outdoors on natural support specimen collection by aspiration
def: "An arthropod resting outdoors specimen collection by aspiration that occurs while the arthropod rests on an unprocessed material such as a plant." []
synonym: "outdoors shelter catch - natural" EXACT []
is_a: OBI:0002911 ! arthropod resting outdoors specimen collection by aspiration

[Term]
id: OBI:0002911
name: arthropod resting outdoors specimen collection by aspiration
def: "An animal-biting arthropod specimen collection by aspiration that occurs while the arthropod is resting outside a building during a period of inactivity." []
synonym: "outdoors shelter catch" EXACT []
is_a: OBI:0002905 ! animal-biting arthropod specimen collection by aspiration

[Term]
id: OBI:0002912
name: arthropod specimen collection by aspiration
def: "A live arthropod specimen collection process that involves the use of an aspirator, a device which draws an arthropod by suction into a container." []
synonym: "catch by aspiration" EXACT []
is_a: OBI:0002904 ! adult arthropod specimen collection process

[Term]
id: OBI:0002913
name: arthropod specimen collection process
def: "A specimen collection process that has the objective of collecting arthropods as specimens." []
synonym: "collection of arthropods" EXACT []
synonym: "field population catch" EXACT []
is_a: OBI:0000659 ! specimen collection process

[Term]
id: OBI:0002914
name: human-biting arthropod specimen collection by aspiration
def: "An arthropod specimen collection by aspiration that occurs while the arthropod is biting a human." []
synonym: "man biting catch" EXACT []
is_a: OBI:0002912 ! arthropod specimen collection by aspiration

[Term]
id: OBI:0002915
name: human-biting indoor arthropod specimen collection by aspiration
def: "An arthropod specimen collection by aspiration that occurs while the arthropod is biting a human inside a building." []
synonym: "man biting catch - indoors" EXACT []
is_a: OBI:0002914 ! human-biting arthropod specimen collection by aspiration

[Term]
id: OBI:0002916
name: human-biting outdoor arthropod specimen collection by aspiration
def: "An arthropod specimen collection by aspiration designed to catch specimens that are in the process of biting a human outside a building." []
synonym: "man biting catch - outdoors" EXACT []
is_a: OBI:0002914 ! human-biting arthropod specimen collection by aspiration

[Term]
id: OBI:0002917
name: knockdown arthropod specimen collection by pyrethrum spray
def: "A knockdown arthropod specimen collection process in which the pesticide is pyrethrum." []
synonym: "pyrethrum spray catch" EXACT []
is_a: OBI:0002918 ! knockdown arthropod specimen collection process

[Term]
id: OBI:0002918
name: knockdown arthropod specimen collection process
def: "An arthropod specimen collection process that involves exposing arthropods to pesticide, then collecting them once they become dead or immobilized." []
synonym: "knockdown collection" EXACT []
is_a: OBI:0002919 ! live arthropod specimen collection process

[Term]
id: OBI:0002919
name: live arthropod specimen collection process
def: "An arthropod specimen collection process meant to collect live specimens." []
synonym: "catch of live specimens" EXACT []
is_a: OBI:0002913 ! arthropod specimen collection process

[Term]
id: OBI:0002920
name: arthropod trap
def: "A device designed to catch arthropods." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0002921
name: artificial pit shelter
def: "An arthropod trap, consisting of a pit dug in the ground to provide a space for arthropods to rest and be collected." []
is_a: OBI:0002939 ! resting arthropod trap

[Term]
id: OBI:0002922
name: baited net trap
def: "An arthropod trap designed to work with an animal (which could be human) inside a netted structure. This structure is designed so that an arthropod, attracted by the animal, can fly into the netted structure but can neither escape nor reach the animal." []
is_a: OBI:0002920 ! arthropod trap

[Term]
id: OBI:0002923
name: barrier trap
def: "An arthropod trap consisting of a static physical barrier designed to funnel arthropods in flight into a container." []
is_a: OBI:0002920 ! arthropod trap

[Term]
id: OBI:0002924
name: BG-Counter
def: "A device manufactured by BioGents that is designed to count mosquitoes passing through the device, differentiating the mosquitoes from other arthropods." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0002925
name: BG-Sentinel trap
def: "An arthropod trap that is manufactured by Biogents and is designed to attract arthropods through the use of a motorized fan to mimic convection currents produced by a human. The current also pulls arthropods into the trap, where a layer of gauze prevents the arthropods from escaping along with the air current." []
is_a: OBI:0002920 ! arthropod trap

[Term]
id: OBI:0002926
name: Centers for Disease Control and Prevention light trap
def: "A light trap that is designed similarly to the New Jersey trap—in that it uses motorized suction and light attractant—and is powered by a six-volt battery." []
synonym: "CDC light trap" EXACT []
is_a: OBI:0002930 ! light trap

[Term]
id: OBI:0002927
name: dipper for arthropod immatures
def: "A device that is designed for the collection of arthropod larvae or pupae from water and has the shape of a ladle or a pan." []
synonym: "dipper for immatures" EXACT []
is_a: COB:0001300 ! device

[Term]
id: OBI:0002928
name: encephalitis virus surveillance trap
def: "A light trap that uses carbon dioxide as attractant. The trap consists of a container of dry ice with holes in the bottom to allow the carbon dioxide to flow downward into a separate container, in which a motorized fan creates suction to collect arthropods." []
synonym: "EVS trap" EXACT []
is_a: OBI:0002930 ! light trap

[Term]
id: OBI:0002929
name: gravid trap
def: "An arthropod trap that is designed to collect gravid female arthropods or their eggs." []
is_a: OBI:0002920 ! arthropod trap

[Term]
id: OBI:0002930
name: light trap
def: "An arthropod trap that uses light as an attractant." []
is_a: OBI:0002920 ! arthropod trap

[Term]
id: OBI:0002931
name: light trap for indoor use
def: "A light trap designed to be placed inside a building." []
synonym: "indoor light trap" EXACT []
is_a: OBI:0002930 ! light trap

[Term]
id: OBI:0002932
name: light trap for outdoor use
def: "A light trap designed to be placed outside a building." []
synonym: "outdoor light trap" EXACT []
is_a: OBI:0002930 ! light trap

[Term]
id: OBI:0002933
name: Mosquito Magnet Pro trap
def: "An arthropod trap that is powered by propane and is designed to emit a combination of carbon dioxide, heat, water, and oct-1-en-3-ol attractants while simultaneously using suction to trap arthropods." []
is_a: OBI:0002920 ! arthropod trap

[Term]
id: OBI:0002934
name: MosquiTRAP
def: "A gravid trap consisting of an arthropod attractant and adhesive surface." []
is_a: OBI:0002929 ! gravid trap

[Term]
id: OBI:0002935
name: New Jersey light trap
def: "A light trap that is designed to use motorized suction to trap arthropods in a collection bag once they approach the light attractant." []
synonym: "New Jersey trap" EXACT []
is_a: OBI:0002930 ! light trap

[Term]
id: OBI:0002936
name: Onderstepoort Veterinary Institute light-suction trap
def: "A light trap that is designed to use motorized suction to trap arthropods in a collection bag once they approach the attractant. The light is supplied by an 8 watt tube, and the fan providing the suction has an 11-centimeter diameter." []
synonym: "OVI light-suction trap" EXACT []
is_a: OBI:0002920 ! arthropod trap

[Term]
id: OBI:0002937
name: outlet window trap
def: "An arthropod trap that is positioned adjacent to a window of a building and is designed to collect arthropods flying out of the building." []
synonym: "outlet window trap" EXACT []
is_a: OBI:0002920 ! arthropod trap

[Term]
id: OBI:0002938
name: ovitrap
def: "An arthropod trap that consists of a container holding a mesh layer above water and is designed to trap arthropods hatched from eggs dropped over the water by gravid females." []
synonym: "oviposition trap" EXACT []
is_a: OBI:0002920 ! arthropod trap

[Term]
id: OBI:0002939
name: resting arthropod trap
def: "An arthropod trap that is designed to be attractive to an arthropod as a place to rest during a period of inactivity." []
is_a: OBI:0002920 ! arthropod trap

[Term]
id: OBI:0002940
name: resting box trap
def: "An arthropod trap that consists of a box that is open on one end. The placement of the box and modifications to it are done in such a way that it becomes attractive to an arthropod as a place to rest during a period of inactivity." []
synonym: "resting box catch" EXACT []
is_a: OBI:0002939 ! resting arthropod trap

[Term]
id: OBI:0002941
name: resting bucket
def: "An arthropod trap that consists of a bucket, which is lined with fabric and placed on its side, and a wet cloth inside the bucket. The placement of the box and modifications to it are done in such a way that it becomes attractive to an arthropod as a place to rest during a period of inactivity (not actively seeking a host)." []
synonym: "resting bucket catch" EXACT []
is_a: OBI:0002939 ! resting arthropod trap

[Term]
id: OBI:0002942
name: Shannon trap
def: "An arthropod trap that is made of cloth and netting and is designed to be suspended from above (e.g. from a tree). It is also designed so that the arthropod enters the trap from beneath, being attracted to some bait, and is prevented from escaping upward by the suspended cloth, which allows them to be collected from the upper interior of the trap." []
synonym: "shannon trap catch" EXACT []
is_a: OBI:0002920 ! arthropod trap

[Term]
id: OBI:0002943
name: sticky resting bucket
def: "An arthropod trap that consists of a bucket, which is lined with adhesive and placed on its side, and a wet cloth inside the bucket. The placement of the box and modifications to it are done in such a way that it becomes attractive to an arthropod as a place to rest during a period of inactivity. The trap is designed for arthropods to become caught in the adhesive so that they can be collected." []
synonym: "sticky resting bucket catch" EXACT []
is_a: OBI:0002939 ! resting arthropod trap

[Term]
id: OBI:0002944
name: sticky trap
def: "An arthropod trap that is designed to capture arthropods resting on a surface by coating the surface with adhesive." []
synonym: "sticky trap catch" EXACT []
is_a: OBI:0002939 ! resting arthropod trap

[Term]
id: OBI:0002945
name: population based design
def: "A study design where the selection of the individuals that are included into the study are intended to be representative of all individuals in the a priori defined specific population and is done at the population level or among the population groups, generally to find the cause, incidence or spread of the disease or to see the response to the treatment, nutrition or environment." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0002946
name: fluorescence imaging-based apoptosis assay
def: "A type of cytometry assay in which fluorescent dyes are used to label and detect proteins or structures associated with molecular processes of apoptosis." []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0002947
name: fluorescence imaging-based cell proliferation assay
def: "A type of cell proliferation assay in which fluorescent dyes are ued to label and detect proteins or structures that can be used to count cells." []
synonym: "fluorescence imaging-based cell count assay" EXACT []
is_a: OBI:0000891 ! cell proliferation assay

[Term]
id: OBI:0002948
name: fluorescence imaging-based cell cycle state assay
def: "A type of cytometry assay in which fluorescent dyes are used to label and detect proteins or structures associated with particular cell cycle states." []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0002949
name: fluorescence imaging-based cell viability assay
def: "A type of cytometry assay in which fluorescent dyes are used to label and detect proteins or structures associated with cell viability." []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0002950
name: fluorescence imaging-based drug synergy assay
def: "A type of cytometry assay in which fluorescent dyes are used to label and detect proteins or structures to determine if drugs applied to cells in combination have a greater effect together than the sum of their separate effects." []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0002951
name: fluorescence imaging-based cell morphology assay
def: "A type of cytometry assay in which fluorescent dyes are used to label and detect proteins or structures in order to determine cell morphology." []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0002952
name: fluorescence imaging multiplex cytological profiling
def: "A type of cytometry assay in which fluorescent dyes are used to stain seven major cellular components followed by automatic image capture and analysis which extracts shape, texture, and intensity parameters." []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0002953
name: protein state assay
def: "A type of assay that measures the quantity and/or identity of proteins in their modficied and unmodified states where modifications include phosphorylation, methylation, acetylation, etc." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002954
name: fluorescence imaging-based protein phosphorylation state assay
def: "A type of protein state assay that employs high-throughput microscopy to measure levels of proteins in different phosphorylation states." []
is_a: OBI:0002953 ! protein state assay

[Term]
id: OBI:0002955
name: mass spectrometry-based protein state assay
def: "A type of protein state assay that employs mass spectrometry to measure levels of proteins in different phosphorylation states." []
is_a: OBI:0002953 ! protein state assay

[Term]
id: OBI:0002956
name: targeted, drug-modulated, mass spectrometry-based protein phoshporylation-state assay
def: "A type of mass spectrometry protein state assay that measures levels of a targeted set of proteins in different phosphorylation states in response to drug perturbations." []
synonym: "P100 phosphoprotein quantification assay" EXACT []
is_a: OBI:0002955 ! mass spectrometry-based protein state assay

[Term]
id: OBI:0002957
name: reverse phase protein array profiling assay
def: "A type of protein state assay where tissue or cell samples are lysed and then spotted onto a slide which is probed with antibodies specific to proteins with and without post-translational modifications." []
synonym: "reverse phase lysate array profiling assay" EXACT []
synonym: "RPLA assay" EXACT []
synonym: "RPPA assay" EXACT []
is_a: OBI:0002953 ! protein state assay

[Term]
id: OBI:0002958
name: SWATH-MS protein profiling assay
def: "A type of mass spectrometry assay using a data-independent acquisition method to identify target peptides." []
synonym: "sequential window acquisition of all theoretical mass spectra protein profiling assay" EXACT []
is_a: OBI:0000615 ! protein expression profiling assay

[Term]
id: OBI:0002959
name: tandem mass tag mass spectrometry assay
def: "A type of tandem mass spectrometry where isotopomer labels are employed for accurate quantification and identification of specific proteins." []
is_a: OBI:0003540 ! tandem mass spectrometry assay

[Term]
id: OBI:0002960
name: fluorescence imaging-based reporter gene assay
def: "A type of reporter gene assay that employs fluorescence imaging to detect a reporter gene's expression." []
is_a: OBI:0002082 ! reporter gene assay

[Term]
id: OBI:0002961
name: global chromatin profiling by mass spectrometry assay
def: "A type of epigenetic modification assay that employs targeted quantitative mass spectrometry to profile modifications of the core histones of chromatin." []
synonym: "GCP" EXACT []
synonym: "global chromatin epigenetic profiling" EXACT []
synonym: "global chromatin profiling" EXACT []
is_a: OBI:0002020 ! epigenetic modification assay

[Term]
id: OBI:0002962
name: kinase inhibitor assay
def: "A type of assay that identifies compounds that inhibit the activity of kinases." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0002963
name: KINOMEscan assay
def: "A type of proprietary kinase inhibitor assay that and employs a panel of kinases against which one can test compounds for their selectivity and potency in interactions with kinases, without the need to add ATP to the reactions." []
is_a: OBI:0002962 ! kinase inhibitor assay

[Term]
id: OBI:0002964
name: KiNativ assay
def: "A type of proprietary in situ kinase inhibitor assay that employs biotinylated acyl phosphates of ATP and ADP." []
is_a: OBI:0002962 ! kinase inhibitor assay

[Term]
id: OBI:0002965
name: landmark transcript profiling assay
def: "A type of transcription profiling assay in which a set of landmark transcripts that have been determined to provide a comprehensive profile of cell activity, plus numerous steady-state controls, are assayed via ligation-mediated amplification followed by capture on fluorescently labeled microspheres followed by detection of fluorescence." []
synonym: "L1000 mRNA profiling assay" EXACT []
is_a: OBI:0000424 ! transcription profiling assay

[Term]
id: OBI:0002966
name: microenvironment microarray assay
def: "A type of cytometry assay where cells are incubated for three days with a standardized set of extracellular matrix proteins in combination with various ligands creating varying microenvironment perterbations for the cells. Immunofluorescent imaging of cells is used to measure features such as morphology, metabolism, cell cycle, and nuclear activity." []
synonym: "MEMA assay" EXACT []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0002967
name: microwestern meso-scale quantitative western blot assay
def: "A western blot assay that provides a high-throughput, sensitive, and quantitative measurement of proteins from numerous samples via an array of small western blots on a single sheet of nitrocellulose." []
is_a: OBI:0000854 ! western blot assay

[Term]
id: OBI:0002968
name: positive/negative ion switching metabolite profiling assay
def: "A type of metabolic profiling assay which employs a hybrid dual quadrupole linear ion trap mass spectrometer for steady-state profiling of endogenous polar metabolites from organic extractions from biological samples." []
synonym: "positive/negative ion switching metabolomic assay" EXACT []
is_a: OBI:0000366 ! metabolite profiling assay

[Term]
id: OBI:0002969
name: cyclic immunofluoroescence assay
def: "A type of microscopy assay resulting in highly multiplexed immunofluorescence imaging through sequential rounds of imaging followed by fluorophore inactivation." []
is_a: OBI:0002119 ! microscopy assay

[Term]
id: OBI:0002970
name: multiplex bead-based protein state immunoassay
def: "A type of protein state assay in which antibodies attached to different colored beads and fluorescent reporter dye labels are used in a multiplexed mixture to assay for proteins in specific states." []
is_a: OBI:0002953 ! protein state assay

[Term]
id: OBI:0002971
name: endotracheal tube specimen
def: "A specimen that derives from a biofilm that forms on the inner surface of an endotracheal tube while the tube is in the trachea. The specimen is collected upon removal of the tube from the trachea." []
is_a: OBI:0002783 ! lower respiratory tract specimen

[Term]
id: OBI:0002972
name: endotracheal aspirate specimen
def: "A specimen that derives from a biofilm that forms on the inner surface of an endotracheal tube while the tube is in the trachea. The specimen is collected by suction without removing the tube." []
is_a: OBI:0002781 ! lower respiratory tract aspirate specimen

[Term]
id: OBI:0002975
name: input protein sequence start site
def: "The position of the first amino acid in a protein sequence being analyzed (input protein sequence)." []
synonym: "input protein start" EXACT []
synonym: "query protein start site" EXACT []
is_a: OBI:0000973 ! sequence data

[Term]
id: OBI:0002976
name: input protein sequence stop site
def: "The position of the last amino acid in a protein sequence being analyzed (input protein sequence)." []
synonym: "input protein stop" EXACT []
synonym: "query protein stop site" EXACT []
is_a: OBI:0000973 ! sequence data

[Term]
id: OBI:0002977
name: input gene sequence start site
def: "The position of the first nucleotide in a gene sequence being analyzed (input gene sequence)." []
synonym: "input gene start" EXACT []
synonym: "query gene start site" EXACT []
is_a: OBI:0000973 ! sequence data

[Term]
id: OBI:0002978
name: input gene sequence stop site
def: "The position of the last nucelotide in a gene sequence being analyzed (input gene sequence)." []
synonym: "input gene stop" EXACT []
synonym: "query gene stop site" EXACT []
is_a: OBI:0000973 ! sequence data

[Term]
id: OBI:0002979
name: reference protein sequence start site
def: "The position of the first amino acid in a reference protein sequence (sequence being used for comparison)." []
synonym: "reference protein start" EXACT []
synonym: "subject protein start site" EXACT []
is_a: OBI:0000973 ! sequence data

[Term]
id: OBI:0002980
name: reference protein sequence stop site
def: "The position of the last amino acid in a reference protein sequence (sequence being used for comparison)." []
synonym: "reference protein stop" EXACT []
synonym: "subject protein stop site" EXACT []
is_a: OBI:0000973 ! sequence data

[Term]
id: OBI:0002981
name: reference gene sequence start site
def: "The position of the first nucleotide in a reference gene sequence (sequence being used for comparison)." []
synonym: "reference gene start" EXACT []
synonym: "subject gene start site" EXACT []
is_a: OBI:0000973 ! sequence data

[Term]
id: OBI:0002982
name: reference gene sequence stop site
def: "The position of the last nucelotide in a reference sequence (sequence being used for comparison)." []
synonym: "reference gene stop" EXACT []
synonym: "subject gene stop site" EXACT []
is_a: OBI:0000973 ! sequence data

[Term]
id: OBI:0002983
name: altitude measurement datum
def: "A length measurement datum between a point at sea or ground level and some point above it." []
is_a: IAO:0000408 ! length measurement datum

[Term]
id: OBI:0002984
name: capture Hi-C assay
def: "A Hi-C assay in which a selection step is performed on ligated fragments in order to enrich for ligation products containing specific regions of interest." []
synonym: "cHi-C" EXACT []
is_a: OBI:0002440 ! Hi-C assay

[Term]
id: OBI:0002985
name: magnetic resonance imaging assay
def: "An imaging assay in which nuclear magnetic resonance is used to produce information about the interior structure and composition of an input material entity." []
synonym: "MRI" EXACT []
is_a: OBI:0000185 ! imaging assay

[Term]
id: OBI:0002986
name: computed tomography imaging assay
def: "An imaging assay that uses a series of X-ray images to produce information about the interior structure and composition of an input material entity." []
synonym: "CAT scan" EXACT []
synonym: "computed tomography scan" EXACT []
synonym: "CT scan" EXACT []
is_a: OBI:0000185 ! imaging assay

[Term]
id: OBI:0002987
name: positron emission tomography imaging assay
def: "An imaging assay in which positron-emitting radionuclides are used to visualize functional processes of an input material entity." []
synonym: "PET scan" EXACT []
synonym: "positron emission tomography scan" EXACT []
is_a: OBI:0000185 ! imaging assay

[Term]
id: OBI:0002988
name: specimen collection duration
def: "A time measurement datum that is the count of collection cycles over which a specimen collection process occurs." []
synonym: "specimen collection duration" EXACT []
is_a: IAO:0000416 ! time measurement datum

[Term]
id: OBI:0002989
name: material supplier
def: "A person or organization that provides material supplies to other people or organizations." []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0002990
name: T cell receptor repertoire sequencing assay
def: "A sequencing assay that determines the sequences of DNA or RNA molecules that encode the repertoire of T cell receptors within an input sample." []
synonym: "bulk TCR assay" EXACT []
synonym: "TCR repertoire sequencing assay" EXACT []
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0002991
name: B cell receptor repertoire sequencing assay
def: "A sequencing assay that determines the sequence of a DNA or RNA molecules that encode the repertoire of B cell receptors within an input sample." []
synonym: "Antibody repertoire sequencing assay" EXACT []
synonym: "BCR repertoire sequencing assay" EXACT []
synonym: "bulk BCR assay" EXACT []
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0002992
name: prevalence of pathogen in specimens
def: "A data item that is the frequency of detection of a specified pathogenic organism in collected specimens." []
synonym: "prevalence of pathogen" EXACT []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0002993
name: prevalence of blood meal specimens from a host organism
def: "A data item that is the frequency of blood whose source is from a specified host organism in collected blood meal specimens." []
synonym: "host blood index" EXACT []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0002994
name: presence of blood from host organism in blood meal specimen
def: "A data item that indicates whether blood in a blood meal specimen came from a specified host organism." []
synonym: "presence of blood meal host organism" EXACT []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0002995
name: blood meal source organism
def: "An organism that is the source of a blood meal." []
synonym: "blood meal host organism" EXACT []
is_a: COB:0000022 ! organism

[Term]
id: OBI:0002996
name: blood meal source role
def: "A role borne by an organism that is gained during a process in which another organism ingests blood as food from the organism." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0002997
name: arthropod attractor role
def: "A role of a material entity realized in drawing an arthropod in the direction of the material." []
synonym: "attractant" EXACT []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0002998
name: arthropod collection process with automated identification
def: "An arthropod specimen collection process that involves a device that produces data specifying the types of arthropod collected." []
is_a: OBI:0002913 ! arthropod specimen collection process

[Term]
id: OBI:0002999
name: gravid female arthropod specimen collection process
def: "An arthropod specimen collection process that has the objective of collecting gravid female arthropods." []
is_a: OBI:0002913 ! arthropod specimen collection process

[Term]
id: OBI:0003000
name: resting flight-capable arthropod specimen collection process
def: "An arthropod specimen collection process that occurs while an arthropod that is capable of flight is resting outdoors during a period of inactivity." []
is_a: OBI:0002913 ! arthropod specimen collection process

[Term]
id: OBI:0003001
name: daytime arthropod specimen collection by aspiration
def: "An arthropod specimen collection by aspiration that occurs in the daytime." []
is_a: OBI:0002912 ! arthropod specimen collection by aspiration

[Term]
id: OBI:0003002
name: arthropod resting in human house specimen collection by aspiration
def: "An arthropod specimen collection by aspiration that catches specimens resting inside a human house." []
is_a: OBI:0002912 ! arthropod specimen collection by aspiration

[Term]
id: OBI:0003003
name: landing arthropod specimen collection process
def: "An arthropod specimen collection process that occurs while the arthropods land on a surface." []
synonym: "collection of landing insects" EXACT []
is_a: OBI:0002904 ! adult arthropod specimen collection process

[Term]
id: OBI:0003004
name: flying adult arthropod collection process by passive interception
def: "An adult arthropod specimen collection process that has the objective of collecting arthropods capable of flight, through the use of a barrier trap." []
is_a: OBI:0002904 ! adult arthropod specimen collection process

[Term]
id: OBI:0003005
name: device for collection of resting adult arthropods
def: "A device that is designed to provide a solid surface that is attractive to an arthropod as a place to rest during a period of inactivity." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0003006
name: well net for arthropod immatures
def: "A device that is designed for the collection of arthropod larvae or pupae from water and consists of a conical net." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0003007
name: arthropod trap containing small non-human animal bait
def: "An arthropod trap that uses as attractant an animal that is not human and is the size of a chicken or smaller." []
synonym: "trap containing small non-human animal bait" EXACT []
is_a: OBI:0002920 ! arthropod trap

[Term]
id: OBI:0003008
name: trap for emerging adult arthropods
def: "An arthropod trap that is designed to trap an arthropod as it emerges from water at the beginning of its adult stage." []
is_a: OBI:0002920 ! arthropod trap

[Term]
id: OBI:0003009
name: ferritin assay
def: "An assay that measures ferritin" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003010
name: fibrinogen assay
def: "An assay that measures fibrinogen" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003011
name: iron assay
def: "An analyte assay that measures the abundance of iron" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003012
name: ionized calcium assay
def: "An analyte assay that measures the abundance of ionized calcium" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003013
name: transferrin assay
def: "An analyte assay that measures the abundance of transferrin" []
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:0003014
name: uric acid assay
def: "An analyte assay that measures the abundance of uric acid" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003015
name: globulin assay
def: "An analyte assay that measures the abundance of globulin" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003016
name: myelocyte assay
def: "A cytometry assay that measures the abundance and/or characteristics of myelocytes" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003017
name: metamyelocyte assay
def: "A cytometry assay that measures the abundance and/or characteristics of metamyelocytes" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003018
name: hematocrit assay
def: "A cytometry assay that measures the proportion of red blood cells" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003019
name: promyelocyte assay
def: "A cytometry assay that measures the abundance and/or characteristics of promyelocytes" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003021
name: basophil assay
def: "A cytometry assay that measures the abundance and/or characteristics of basophils" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003022
name: neutrophil assay
def: "A cytometry assay that measures the abundance and/or characteristics of neutrophils" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003023
name: eosinophil assay
def: "A cytometry assay that measures the abundance and/or characteristics of eosinophils" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003024
name: lymphocyte assay
def: "A cytometry assay that measures the abundance and/or characteristics of lymphocytes" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003025
name: monocyte assay
def: "A cytometry assay that measures the abundance and/or characteristics of monocytes" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003026
name: reticulocyte assay
def: "A cytometry assay that measures the abundance and/or characteristics of reticulocytes" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003027
name: macrophage assay
def: "A cytometry assay that measures the abundance and/or characteristics of macrophages" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003028
name: platelet assay
def: "A cytometry assay that measures the abundance and/or characteristics of platelets" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003029
name: barcode target locus role
def: "An evaluant role that is realized in a taxonomic diversity assessment by targeted gene survey involving sequencing a small defined region of genome amplified by PCR." []
is_a: OBI:0000067 ! evaluant role

[Term]
id: OBI:0003030
name: oligonucleotide primer set
def: "A processed material that consists of oligonucleotides that bear a primer role." []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0003031
name: fluorogenic PCR assay
def: "A polymerase chain reaction assay that uses target specific probes labeled with fluorogenic chromophores." []
synonym: "TaqMan" EXACT []
is_a: OBI:0002692 ! polymerase chain reaction assay

[Term]
id: OBI:0003032
name: genotyping by PCR assay
def: "A genotyping assay that uses polymerase chain reaction." []
is_a: OBI:0000435 ! genotyping assay
is_a: OBI:0002692 ! polymerase chain reaction assay

[Term]
id: OBI:0003033
name: cleavage under targets and release using nuclease assay
def: "A type of DNA sequencing assay employing in situ chromatin profiling in which antibody-targeted controlled cleavage by micrococcal nuclease releases specific protein-DNA complexes into the the supernatant for sequencing." []
synonym: "CUT&RUN assay" EXACT []
is_a: OBI:0000626 ! DNA sequencing assay

[Term]
id: OBI:0003034
name: cleavage under targets and tagmentation
def: "A type of DNA sequencing assay employing in situ chromatin profiling in which a chromatin protein is bound in situ by a specific antibody, which then tethers to a protein A-Tn5 hyperactive transposase fusion protein (pA-Tn5) loaded with sequence adapters. Activation of pA-Tn5 results in factor-targeted tagmentation, generating fragments ready for PCR enrichment and DNA sequencing." []
synonym: "CUT&Tag assay" EXACT []
is_a: OBI:0000626 ! DNA sequencing assay

[Term]
id: OBI:0003035
name: coma severity assay
def: "A physical examination of an organism that has the objective to determine the severity of coma in a patient." []
is_a: OBI:0002441 ! physical examination of an organism

[Term]
id: OBI:0003036
name: Plasmodium gametocyte detection assay
def: "An assay that detects Plasmodium gametocytes in a specimen." []
is_a: OBI:0003038 ! parasite detection assay

[Term]
id: OBI:0003037
name: malaria rapid diagnosis assay
def: "An assay that is quick and easy in the diagnosis of malaria by detecting evidence of malaria parasites (antigens) in human blood." []
synonym: "malaria rapid diagnosis test" EXACT []
is_a: OBI:0003038 ! parasite detection assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:0003038
name: parasite detection assay
def: "An assay that detects parasite in a specimen." []
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0003039
name: feces microbiology assay
def: "An organism detection assay that detects microorganisms in a feces specimen." []
synonym: "stool test for microorganisms" EXACT []
is_a: OBI:0003237 ! feces assay
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0003040
name: blood assay
def: "An assay that has a blood specimen as evaulant." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003041
name: falcivax rapid diagnostic test
def: "A parasite detection assay that can quickly establish the diagnosis of P. falciparum or P. vivax malaria infection by detecting the antigens in a person's blood." []
is_a: OBI:0003038 ! parasite detection assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:0003042
name: optimal-IT rapid diagnostic test
def: "A parasite detection assay that is rapid, sensitive, and able to differentiate between P. falciparum and other malaria parasites." []
is_a: OBI:0003038 ! parasite detection assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:0003043
name: urine assay
def: "An assay that has a urine specimen as evaluant." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003044
name: parasite species identification by PCR assay
def: "A parasite detection by PCR assay that identifies the species of parasite." []
is_a: OBI:0003045 ! parasite detection by PCR assay

[Term]
id: OBI:0003045
name: parasite detection by PCR assay
def: "A parasite detection assay that uses PCR." []
is_a: OBI:0002692 ! polymerase chain reaction assay
is_a: OBI:0003038 ! parasite detection assay

[Term]
id: OBI:0003046
name: free-standing window trap
def: "An arthropod trap that consists of a transparent window placed in a box that holds a liquid solution deadly to arthropods. This trap is designed to stop an arthropod in flight, causing it to fall into the liquid and die." []
is_a: OBI:0002920 ! arthropod trap

[Term]
id: OBI:0003048
name: BG-lure scent dispenser
def: "A device manufactured by BioGents that is designed for operation with the BG-Sentinel trap and releases an attractant that mimics the scent of human skin." []
synonym: "BG-lure" EXACT []
is_a: COB:0001300 ! device

[Term]
id: OBI:0003049
name: hand-held sweep net
def: "A device that consists of a network of mesh and is designed to capture adult arthropods." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0003050
name: Centers for Disease Control and Prevention gravid trap
def: "A gravid trap that consists of a pan holding a hay infusion, motorized fan, and collection bag. This trap is designed to attract gravid female arthropods to the infused material, which would serve as an oviposition medium, and then draw them into the bag with the current generated by the fan." []
synonym: "CDC gravid trap" EXACT []
is_a: OBI:0002929 ! gravid trap

[Term]
id: OBI:0003051
name: egg specimen collection process
def: "An arthropod specimen collection process in which the arthropods are in the embryo stage." []
synonym: "collection of eggs" EXACT []
is_a: OBI:0002907 ! aquatic arthropod specimen collection process

[Term]
id: OBI:0003052
name: larval specimen collection process
def: "An arthropod specimen collection process in which the arthropods are in the larval stage." []
synonym: "collection of larvae" EXACT []
is_a: OBI:0002907 ! aquatic arthropod specimen collection process

[Term]
id: OBI:0003053
name: pupal specimen collection process
def: "An arthropod specimen collection process in which the arthropods are in the pupal stage." []
synonym: "collection of pupae" EXACT []
is_a: OBI:0002907 ! aquatic arthropod specimen collection process

[Term]
id: OBI:0003054
name: blood specimen in vacutainer
def: "A blood specimen that is located in a vacutainer." []
synonym: "Vacutainer sample" EXACT []
is_a: OBI:0000655 ! blood specimen

[Term]
id: OBI:0003055
name: blood specimen on filter paper
def: "A blood specimen that is located on a filter paper." []
synonym: "Filter paper sample" EXACT []
is_a: OBI:0000655 ! blood specimen

[Term]
id: OBI:0003056
name: proportion mapped reads
def: "A sequence datum that is the specified output of a read mapping and is the ratio of the count of mapped reads to the total count of reads." []
is_a: OBI:0000973 ! sequence data

[Term]
id: OBI:0003057
name: antibiotic administration process
def: "Administering substance in vivo where an antibiotic substance is administered to a living organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003063
name: insecticide resistance datum
def: "A data item that is about resistance to an insecticide." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0003064
name: organism detection datum
def: "A data item that is the specified output of an organism detection assay." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0003066
name: easting coordinate measurement datum
def: "A one dimensional Cartesian spatial coordinate datum that is the eastward component of a distance from a point on a map projection." []
is_a: IAO:0000401 ! one dimensional cartesian spatial coordinate datum

[Term]
id: OBI:0003067
name: northing coordinate measurement datum
def: "A one dimensional Cartesian spatial coordinate datum that is the northward component of a distance from a point on a map projection." []
is_a: IAO:0000401 ! one dimensional cartesian spatial coordinate datum

[Term]
id: OBI:0003068
name: clinical study center
def: "Organization that undertakes a clinical study at some point in time." []
is_a: OBI:0000245 ! organization

[Term]
id: OBI:0003069
name: sequencing protocol
def: "A protocol that, when concretized, is realized in an assay that uses chemical or biological means to infer the sequence of a biomaterial." []
is_a: OBI:0000272 ! protocol

[Term]
id: OBI:0003070
name: specimen collection protocol
def: "A protocol that specifies processes to fulfill a specimen collection objective." []
is_a: OBI:0000272 ! protocol

[Term]
id: OBI:0003071
name: participant identifier
def: "A symbol that denotes a participant under investigation." []
is_a: IAO:0000028 ! symbol

[Term]
id: OBI:0003072
name: axillary temperature measurement datum
def: "A temperature measurement datum that is about an axilla." []
is_a: OBI:0003079 ! temperature measurement datum

[Term]
id: OBI:0003073
name: organismal body temperature measurement datum
def: "A temperature measurement datum that is about an organism." []
is_a: OBI:0003079 ! temperature measurement datum

[Term]
id: OBI:0003074
name: common name of organism
def: "A textual entity refers to a taxon or organism that is based on the normal language of everyday life; this kind of name is often contrasted with the scientific name for the same organism, which is Latinized." []
is_a: IAO:0000300 ! textual entity

[Term]
id: OBI:0003075
name: age since birth at time of enrollment
def: "An age since birth measurement datum at the time of subject enrollment." []
is_a: OBI:0001169 ! age since birth measurement datum

[Term]
id: OBI:0003076
name: age since birth at time of visit
def: "An age since birth measurement datum at the time of a clinical visit." []
is_a: OBI:0001169 ! age since birth measurement datum

[Term]
id: OBI:0003077
name: entomological data item
def: "A data item that is about a collection of insects." []
synonym: "entomological measurement datum" EXACT []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0003079
name: temperature measurement datum
def: "A scalar measurement datum that is the result of measuring temperature." []
is_a: IAO:0000032 ! scalar measurement datum

[Term]
id: OBI:0003080
name: organismal body temperature measurement assay
def: "An assay that detects body temperature of an organism." []
is_a: OBI:0002140 ! temperature measurement assay

[Term]
id: OBI:0003081
name: extraction date
def: "A time measurement datum that specifies when some material was extracted from an input material." []
is_a: IAO:0000416 ! time measurement datum

[Term]
id: OBI:0003082
name: extraction duration time
def: "A time measurement datum that is the result of measuring the duration of an extraction process." []
is_a: IAO:0000416 ! time measurement datum

[Term]
id: OBI:0003083
name: specimen collection time post disease onset
def: "A specimen collection time measurement datum that is the measure of a time when specimens are collected after the onset of disease in a host." []
is_a: OBI:0001619 ! specimen collection time measurement datum

[Term]
id: OBI:0003084
name: specimen collection time post infection
def: "A specimen collection time measurement datum that is the measure of a time when specimens are collected after an infection starts." []
is_a: OBI:0001619 ! specimen collection time measurement datum

[Term]
id: OBI:0003085
name: laboratory postal address
def: "A postal address used as a directive to deliver something to a laboratory." []
synonym: "laboratory address" EXACT []
is_a: IAO:0000422 ! postal address

[Term]
id: OBI:0003086
name: laboratory-based population
def: "A population where the collection of individuals is located and maintained in a laboratory, research, or production facility." []
is_a: OBI:0000181 ! population

[Term]
id: OBI:0003087
name: autofluorescence assay
def: "A fluorescence detection assay in which the light that is naturally emitted by a sample is visualized after excitation of the sample with light at a suitable wavelength." []
synonym: "intrinsic fluorescence assay" EXACT []
is_a: OBI:0001501 ! fluorescence detection assay

[Term]
id: OBI:0003088
name: autofluorescence microscopy assay
def: "An autofluorescence assay in which the light that is naturally emitted by a sample is visualized via microscopy after excitation of the sample with light at a suitable wavelength." []
is_a: OBI:0003087 ! autofluorescence assay

[Term]
id: OBI:0003089
name: bulk assay for transposase-accessible chromatin using sequencing
def: "An assay for transposase-accessible chromatin using sequencing in which the sample that is sequenced is derived from a collection of cells, such as a tissue sample or entire cell culture, and therefore provides results representative of the aggregate of sample cells." []
synonym: "bulk ATAC-seq" EXACT []
is_a: OBI:0002039 ! assay for transposase-accessible chromatin using sequencing

[Term]
id: OBI:0003090
name: bulk RNA-seq assay
def: "An RNA-seq assay in which the sample that is sequenced is derived from a collection of cells, such as a tissue sample or entire cell culture, and therefore provides results representative of the aggregate of sample cells." []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0003091
name: multiplexed fluorescent antibody imaging assay
def: "An imaging assay in which multiple cycles consisting of fluorescent labeling, imaging, and fluorophor deactivation are used to detect multiple proteins and their locations in a given sample of tissues or cells." []
is_a: OBI:0000185 ! imaging assay

[Term]
id: OBI:0003092
name: Cell DIVE multiplexed imaging assay
def: "A multiplexed fluorescent antibody imaging assay that involves an iterative staining, imaging and dye inactivation workflow for over 60 biomarkers on a single fixed tissue section." []
is_a: OBI:0003091 ! multiplexed fluorescent antibody imaging assay

[Term]
id: OBI:0003093
name: co-detection by indexing assay
def: "A multiplexed fluorescent antibody imaging assay that involves a highly multiplexed analysis of up to 40 proteins in a tissue using cyclic detection of DNA-indexed antibody panels." []
synonym: "CODEX" EXACT []
is_a: OBI:0003091 ! multiplexed fluorescent antibody imaging assay

[Term]
id: OBI:0003094
name: fluorescence in-situ hybridization assay
def: "An in-situ hybridization assay in which fluorescently labeled molecules are used to localize specific DNA or RNA sequences." []
synonym: "FISH" EXACT []
is_a: OBI:0001686 ! in-situ hybridization assay

[Term]
id: OBI:0003095
name: decoding amplified targeted transcripts with fluorescence in situ hybridization assay
def: "A fluorescence in-situ hybridization assay which involves multiplex in situ digital quantification of targeted RNA transcripts in fresh or frozen tissue providing an understanding of the spatial organization of different cell types." []
synonym: "DARTFISH" EXACT []
is_a: OBI:0000424 ! transcription profiling assay
is_a: OBI:0003094 ! fluorescence in-situ hybridization assay

[Term]
id: OBI:0003096
name: imaging mass cytometry assay
def: "A cytometry time of flight assay in which molecules of interest on or in cells are imaged through a system in which samples are labeled with multiple different rare-earth tagged antibodies. The sample is then ablated with a laser and the labeled material is detected by cytometry time of flight mass spectrometry." []
synonym: "imaging CyTOF" EXACT []
synonym: "IMC" EXACT []
is_a: OBI:0002115 ! cytometry time of flight assay

[Term]
id: OBI:0003097
name: liquid chromatography mass spectrometry assay
def: "A mass spectrometry assay where a sample mixture is first separated by liquid chromatography before being converted into ions which are characterized by using mass spectrometry based on their mass-to-charge ratio and relative abundance." []
synonym: "LC-MS" EXACT []
is_a: OBI:0000470 ! mass spectrometry assay

[Term]
id: OBI:0003098
name: lightsheet fluorescence microscopy assay
def: "A fluorescence microscopy that involves capturing of photons emitted by fluorophores excited with a thin sheet of laser light in a sample only in a relatively narrow plane by a detection objective oriented perpendicularly to the light sheet and imaged onto a detection device such as a CCD camera." []
is_a: CHMO:0000087 ! fluorescence microscopy assay

[Term]
id: OBI:0003099
name: matrix assisted laser desorption ionization imaging mass spectrometry assay
def: "A mass spectrometry assay that involves collection of spatially resolved mass spectra of a sample during microscopy where a pulse laser is used to produce both ionisation and vaporization. The sample is held in a matrix (such as dihydrobenzoic acid) to protect it from direct laser illumination and to separate the sample molecules. The spectra are used to visualise the spatial distribution of biomolecules by their molecular masses." []
synonym: "MALDI-IMS" EXACT []
is_a: OBI:0000470 ! mass spectrometry assay

[Term]
id: OBI:0003100
name: multiplexed ion beam imaging assay
def: "A cytometry time of flight assay in which molecules of interest on or in cells are imaged through a system in which samples are labeled with multiple different rare-earth tagged antibodies. A primary ion beam is ued to rasterize sections under vacuum, releasing showers of secondary ions detected by cytometry time of flight mass spectrometry." []
synonym: "MIBI" EXACT []
is_a: OBI:0002115 ! cytometry time of flight assay

[Term]
id: OBI:0003101
name: nanospray desorption electrospray ionization assay
def: "A mass spectrometry assay that analyzes organic and biological molecules on a substrate by desorption of an analyte into a solvent bridge formed between two capillaries and the analysis surface. One capillary supplies solvent to create and maintain the bridge, while the second capillary transports the dissolved analyte from the bridge to the mass spectrometer. A high voltage applied between the inlet of mass spectrometer and the primary capillary creates a self-aspirating nanospray." []
synonym: "NanoDESI" EXACT []
is_a: OBI:0000470 ! mass spectrometry assay

[Term]
id: OBI:0003102
name: nanodroplet processing in one pot for trace samples assay
def: "A protein expression profiling assay in which proteomics sample processing is performed in nanoliter volumes. Flow cytometry or laser microdissection is employed to isolate a small population or single cells into a nanoPOTS chip. Then, liquid chromatography mass spectrometry is used to measure the global protein expression." []
synonym: "NanoPOTS" EXACT []
is_a: OBI:0000615 ! protein expression profiling assay

[Term]
id: OBI:0003103
name: periodic acid-Schiff staining assay
def: "A histological assay which is used on tissue samples to demonstrate the presence of carbohydrates and carbohydrate compounds such as polysaccharides, mucin, glycogen, or fungal cell wall components." []
synonym: "PAS staining" EXACT []
is_a: OBI:0600020 ! histological assay

[Term]
id: OBI:0003104
name: single cell combinatorial indexing assay for transposase-accessessable chromatin using sequencing
def: "An assay for transposase-accessible chromatin that uses sequencing which involves single cell combinatorial indexing ('sci-') strategy where nucleic acids from each of many cells are uniquely tagged through several rounds of split-pool barcoding which enables identification of single cells without single cell isolation." []
synonym: "sciATACseq" EXACT []
is_a: OBI:0002039 ! assay for transposase-accessible chromatin using sequencing

[Term]
id: OBI:0003105
name: single-cell combinatorial indexing RNA sequencing assay
def: "A single-cell RNA sequencing assay that involves single cell combinatorial indexing ('sci-') strategy to profile the transcriptomes of single cells or nuclei without single cell isolation." []
synonym: "sciRNAseq" EXACT []
is_a: OBI:0002631 ! single-cell RNA sequencing assay

[Term]
id: OBI:0003106
name: sequential fluorescence in-situ hybridization assay
def: "A fluorescence in-situ hybridization assay that involves ultra-resolution imaging of cell activity by targetting thousands of single molecules with fluorescent probes which find and hybridize with complementary DNA or RNA sequences in the tissue sample, thus enabling identification of those molecules directly in single cells with their spatial context preserved." []
synonym: "seqFISH" EXACT []
is_a: OBI:0003094 ! fluorescence in-situ hybridization assay

[Term]
id: OBI:0003107
name: slide-seq assay
def: "An RNA-seq assay that involves transfer of RNA from tissue sections onto a surface covered in DNA-barcoded beads with known positions, allowing the locations of the RNA to be inferred by sequencing." []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0003108
name: single-nucleus chromatin accessibility and mRNA expression sequencing assay
def: "A single-nucleus RNA sequencing assay that involves joint profiling of accessible chromatin and RNA within the same cells which enables direct matching of transcriptional regulation to its outputs." []
synonym: "SNARE-seq" EXACT []
synonym: "SNAREseq" EXACT []
is_a: OBI:0003109 ! single-nucleus RNA sequencing assay

[Term]
id: OBI:0003109
name: single-nucleus RNA sequencing assay
def: "A RNA-seq assay that is used for profiling gene expression in individual nuclei with optimized next generation sequencing (NGS) technologies. This allows the RNA-seq profiling of cell types that are more vulnerable to the tissue dissociation process, and that are therefore underrepresented in the final data set in single cell sequencing." []
synonym: "single nuclei RNA sequencing" EXACT []
synonym: "snRNA-seq" EXACT []
synonym: "sNuc-seq" EXACT []
is_a: OBI:0001271 ! RNA-seq assay

[Term]
id: OBI:0003110
name: gas chromatography mass spectrometry assay
def: "A mass spectrometry assay combining mass spectrometry and gas chromatography for the qualitative as well as quantitative determination of compounds." []
synonym: "GC-MS" EXACT []
is_a: OBI:0000470 ! mass spectrometry assay

[Term]
id: OBI:0003111
name: SOMAscan assay
def: "An analyte assay that uses aptamers to detect protein analytes in serum." []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003112
name: Olink assay
def: "A proximity extension assay that uses quantitative polymerase chain reaction (qPCR) technology to determine the concentration/presence of proteins using a high-multiplex, high-throughput protein biomarker platform. The assay utilizes two distinct oligonucleotide-labeled antibodies (‘probes’) that bind at different sites for each detected protein. When the two probes are in close proximity, a new PCR target sequence is formed by a proximity-dependent DNA polymerization event. The resulting sequence is subsequently detected and quantified using standard real-time PCR." []
is_a: OBI:0003113 ! proximity extension assay

[Term]
id: OBI:0003113
name: proximity extension assay
def: "An analyte assay that uses quantitative polymerase chain reaction (qPCR) technology to determine the concentration/presence of an analyte or analyte complex." []
is_a: OBI:0000443 ! analyte assay
is_a: OBI:0002692 ! polymerase chain reaction assay

[Term]
id: OBI:0003114
name: Illumina MiniSeq
def: "A small benchtop DNA sequencer which is manufactured by the Illumina corporation with integrated cluster generation, sequencing and data analysis. The sequencer accommodates various flow cell configurations and can produce up to 25M single reads or 50M paired-end reads per run." []
synonym: "MiniSeq" EXACT []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0003115
name: antigen detection by cytometric bead array assay
def: "A cytometric bead array assay in which a series of beads are coated with antibodies specific to antigens of interest. Antigens of interest attach to antibodies on the beads. Fluorescent labeled secondary antibodies are used to detect the antigens of interest." []
is_a: OBI:0000920 ! cytometric bead array assay

[Term]
id: OBI:0003116
name: antibody detection by cytometric bead array assay
def: "A cytometric bead array assay that detects antigen-specific antibodies. In the assay a series of beads are coated with antigens which capture antibodies specific to the antigens. Fluorescent labeled secondary antibodies are used to detect the antibodies of interest." []
is_a: OBI:0000920 ! cytometric bead array assay

[Term]
id: OBI:0003117
name: 3D molecular structure determination assay
def: "An assay that determines the 3-dimensional configuration of a molecular entity or molecular complex." []
is_a: OBI:0600045 ! 3D structure determination assay

[Term]
id: OBI:0003118
name: electron-microscopy 3D molecular structure determination assay
def: "A 3D molecular structure determination assay that uses electron microscopy imaging." []
is_a: OBI:0003117 ! 3D molecular structure determination assay

[Term]
id: OBI:0003119
name: antigen:antibody complex
def: "A complex of molecular entitites which is the result of an antibody binding to an antigen." []
is_a: COB:0000080 ! complex of molecules

[Term]
id: OBI:0003120
name: epitope:MHC:TCR complex
def: "A complex of molecular entities which is the result of a T cell receptor binding to a MHC-epitope complex." []
is_a: COB:0000080 ! complex of molecules

[Term]
id: OBI:0003121
name: MHC:ligand complex
def: "A complex of molecular entities which is the result of a MHC molecule binding with a ligand." []
is_a: COB:0000080 ! complex of molecules

[Term]
id: OBI:0003122
name: 3D cell structure determination assay
def: "A 3D structure determination assay that determines the 3-dimensional configuration of a cell." []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0600045 ! 3D structure determination assay

[Term]
id: OBI:0003123
name: 3D neural cell structure determination assay
def: "A 3D cell structure determination assay that determines the 3-dimensional configuration of a neural cell." []
is_a: OBI:0003122 ! 3D cell structure determination assay

[Term]
id: OBI:0003124
name: neuron morphology assay
def: "A 3D neural cell structure determination assay that determines the 3-dimensional configuration of a neuron." []
is_a: OBI:0003123 ! 3D neural cell structure determination assay

[Term]
id: OBI:0003125
name: mosaicism with repeat frameshift genetic sparse labeling
def: "A 3D neural cell structure determination assay where sparse and stochastic methods are used to label genetically-defined neurons." []
synonym: "MORF genetic sparse labeling" EXACT []
is_a: OBI:0003123 ! 3D neural cell structure determination assay

[Term]
id: OBI:0003126
name: neuron morphology reconstruction assay
def: "A neuron morphology assay where the morphology or structure of a neuron is represented. Often, this assay is a combination of different assays (sparse labelling, fluorescent labeling, fMOST)." []
is_a: OBI:0003124 ! neuron morphology assay

[Term]
id: OBI:0003127
name: B cell epitope assay
def: "An immune epitope assay that characterizes the structrue of an antibody-epitope complex, or measures the binding of an antibody receptor to epitope, or the immune response process resulting from such a binding event or the recognition of the epitope." []
synonym: "B cell assay|any method" EXACT []
is_a: OBI:1110128 ! immune epitope assay

[Term]
id: OBI:0003128
name: T cell epitope assay
def: "An immune epitope assay that characterizes the structrue of an epitope-T cell receptor complex, or measures the binding of a T cell receptor to epitope, or the immune response process resulting from such a binding event or the recognition of the epitope." []
synonym: "T cell assay|any method" EXACT []
is_a: OBI:1110128 ! immune epitope assay

[Term]
id: OBI:0003129
name: chemical mutagenesis
def: "A form of random mutagenesis that produces a mutation by introducing the organism to a chemical mutagen." []
is_a: OBI:0002620 ! random mutagenesis

[Term]
id: OBI:0003130
name: irradiation mutagenesis
def: "A form of random mutagenesis that produces a random mutation by exposing the organism to radiation." []
synonym: "radiation induced mutagenesis" EXACT []
is_a: OBI:0002620 ! random mutagenesis

[Term]
id: OBI:0003131
name: directed mutagenesis
def: "An induced mutation in which a specific gene(s) or part of a gene(s) is altered." []
is_a: OBI:0001154 ! induced mutagenesis

[Term]
id: OBI:0003132
name: endonuclease mediated mutagenesis
def: "A directed mutagenesis in which guide RNAs and an endonuclease (cas9, TALEN) are used to introduce a mutation at a specific location in a gene." []
is_a: OBI:0003131 ! directed mutagenesis

[Term]
id: OBI:0003133
name: cas mediated mutagenesis
def: "An endonuclease mediated mutagenesis in which guide RNAs and cas are used to introduce a mutation at a specific location in the genome." []
synonym: "CRISPR mediated mutagenesis" EXACT []
synonym: "CRISPR/cas mediated mutagenesis" EXACT []
is_a: OBI:0003132 ! endonuclease mediated mutagenesis

[Term]
id: OBI:0003134
name: TALEN mediated mutagenesis
def: "An endonuclease mediated mutagenesis in which guide RNAs and transcription activator-like effector nucleases (TALENs) are used to introduce a mutation at a specific location in the genome." []
is_a: OBI:0003132 ! endonuclease mediated mutagenesis

[Term]
id: OBI:0003135
name: zinc finger mediated mutagenesis
def: "An endonuclease mediated mutagenesis in which synthetic zinc-finger proteins designed to target specific DNA sequences are used to introduce a mutation at a specific location in the genome." []
synonym: "ZFN mediated mutagenesis" EXACT []
is_a: OBI:0003132 ! endonuclease mediated mutagenesis

[Term]
id: OBI:0003136
name: transgenic mutagenesis
def: "A form of random mutagenesis that produces a mutation by introducing a construct into the genome of an organism in a random or semi-random fashion." []
is_a: OBI:0002620 ! random mutagenesis

[Term]
id: OBI:0003137
name: gene-trap mutagenesis
def: "A transgenic mutagenesis that produces a mutation by introducing a construct designed to capture the expression of an endogenous gene by creating a spliced fusion transcript when inserted into the genome of an organism." []
is_a: OBI:0003136 ! transgenic mutagenesis

[Term]
id: OBI:0003138
name: enhancer-trap mutagenesis
def: "A transgenic mutagenesis that produces a mutation by introducing a construct designed to monitor transcriptionally active regions when inserted into the genome of an organism by inserting a reporter gene that requires cis-acting DNA sequences in the genome to activate reporter gene expression." []
is_a: OBI:0003136 ! transgenic mutagenesis

[Term]
id: OBI:0003139
name: targeted mutagenesis
def: "A directed mutation in which a construct is used to introduce a mutation into a specific genome location through homologous recombination." []
synonym: "gene targeting by homologous recombination" EXACT []
is_a: OBI:0003131 ! directed mutagenesis

[Term]
id: OBI:0003140
name: transposon-induced mutagenesis
def: "A random mutagenesis in which expression of a transposase causes the mobilization of an artificial or modified transposable element with the insertion of the element into the genome creating a mutation." []
is_a: OBI:0002620 ! random mutagenesis

[Term]
id: OBI:0003141
name: categorical binding datum
def: "A binding datum that is expressed as a categorical value." []
synonym: "qualitative binding datum" EXACT []
is_a: OBI:0001181 ! binding datum

[Term]
id: OBI:0003142
name: quantitative binding datum
def: "A binding datum that is expressed using numbers." []
is_a: OBI:0001181 ! binding datum

[Term]
id: OBI:0003143
name: EC50 binding datum
def: "A quantitative binding datum that is expressed as a half-maximal effective concentration (EC50)." []
is_a: OBI:0001180 ! half maximal effective concentration (EC50)
is_a: OBI:0003142 ! quantitative binding datum

[Term]
id: OBI:0003144
name: IC50 binding datum
def: "A quantitative binding datum that is expressed as a half-maximal inhibitory concentration (IC50)." []
is_a: OBI:0001191 ! half maximal inhibitory concentration (IC50)
is_a: OBI:0003142 ! quantitative binding datum

[Term]
id: OBI:0003145
name: assay measuring quantitative binding of a MHC:ligand complex
def: "An assay that detects the binding of a MHC molecule with a ligand, and produces a quantitative measurement of the binding as an output." []
synonym: "quantitative binding|binding assay" EXACT []
is_a: OBI:1110126 ! assay measuring binding of a MHC:ligand complex

[Term]
id: OBI:0003146
name: assay measuring quantitative binding of an antigen:antibody complex
def: "An assay that detects the binding of an antigen with an antibody, and produces a quantitative measurement of the binding as an output." []
synonym: "quantitative binding|binding assay" EXACT []
is_a: OBI:1110127 ! assay measuring binding of a B cell epitope:antibody complex

[Term]
id: OBI:0003147
name: assay measuring quantitative binding of an epitope:MHC:TCR complex
def: "An assay that detects the binding of a MHC:epitope complex with a T cell receptor, and produces a quantitative measurement of the binding as an output." []
synonym: "quantitative binding|binding assay" EXACT []
is_a: OBI:1110037 ! assay measuring binding of a T cell epitope:MHC:TCR complex

[Term]
id: OBI:0003148
name: albumin concentration assay
def: "An albumin assay that measures the concentration of albumin in a specimen." []
is_a: OBI:2100022 ! albumin assay

[Term]
id: OBI:0003149
name: basophil percentage assay
def: "A basophil assay that measures the percentage of basophils in a specimen." []
is_a: OBI:0003021 ! basophil assay

[Term]
id: OBI:0003150
name: calcium cation concentration assay
def: "A calcium cation assay that measures the concentration of calcium cations in a specimen." []
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:0003151
name: chloride concentration assay
def: "A chloride assay that measures the concentration of chloride in a specimen." []
is_a: OBI:2100010 ! chloride assay

[Term]
id: OBI:0003152
name: cholesterol concentration assay
def: "A cholesterol assay that measures the concentration of cholesterol in a specimen." []
is_a: OBI:2100031 ! cholesterol assay

[Term]
id: OBI:0003153
name: creatinine concentration assay
def: "A creatinine assay that measures the concentration of creatinine in a specimen." []
is_a: OBI:2100003 ! creatinine assay

[Term]
id: OBI:0003154
name: eosinophil percentage assay
def: "An eosinophil assay that measures the percentage of eosinophils in a specimen." []
is_a: OBI:0003023 ! eosinophil assay

[Term]
id: OBI:0003155
name: globulin concentration assay
def: "A globulin assay that measures the concentration of globulin in a specimen." []
is_a: OBI:0003015 ! globulin assay

[Term]
id: OBI:0003156
name: hemoglobin concentration assay
def: "A hemoglobin assay that measures the amount of hemoglobin in a specimen." []
is_a: OBI:2100014 ! hemoglobin assay

[Term]
id: OBI:0003157
name: high-density lipoprotein cholesterol concentration assay
def: "A high-density lipoprotein cholesterol assay that measures the concentration of high-density lipoprotein cholesterol in a specimen." []
is_a: OBI:2100030 ! high-density lipoprotein cholesterol assay

[Term]
id: OBI:0003158
name: iron concentration assay
def: "An iron assay that measures the concentration of iron cation in a specimen." []
is_a: OBI:0003011 ! iron assay

[Term]
id: OBI:0003159
name: low-density lipoprotein cholesterol concentration assay
def: "A low-density lipoprotein cholesterol assay that measures the concentration of low-density lipoprotein cholesterol in a specimen." []
is_a: OBI:2100032 ! low-density lipoprotein cholesterol assay

[Term]
id: OBI:0003160
name: lymphocyte percentage assay
def: "A lymphocyte assay that measures the percentage of lymphocytes in a specimen." []
is_a: OBI:0003024 ! lymphocyte assay

[Term]
id: OBI:0003161
name: metamyelocyte count assay
def: "A metamyelocyte assay that measures the number of metamyelocytes in a specimen." []
is_a: OBI:0003017 ! metamyelocyte assay

[Term]
id: OBI:0003162
name: metamyelocyte percentage assay
def: "A metamyelocyte assay that measures the percentage of metamyelocytes in a specimen." []
is_a: OBI:0003017 ! metamyelocyte assay

[Term]
id: OBI:0003163
name: methemoglobin percentage assay
def: "A methemoglobin assay that measures the percentage of methemoglobin in a specimen." []
is_a: OBI:2100040 ! methemoglobin assay

[Term]
id: OBI:0003164
name: monocyte percentage assay
def: "A monocyte assay that measures the percentage of monocytes in a specimen." []
is_a: OBI:0003025 ! monocyte assay

[Term]
id: OBI:0003165
name: myelocyte count assay
def: "A myelocyte assay that measures the number of myelocytes in a specimen." []
is_a: OBI:0003016 ! myelocyte assay

[Term]
id: OBI:0003166
name: neutrophil percentage assay
def: "A neutrophil assay that measures the percentage of neutrophils in a specimen." []
is_a: OBI:0003022 ! neutrophil assay

[Term]
id: OBI:0003167
name: phosphate ion concentration assay
def: "A phosphate ion assay that measures the concentration of phosphate ions in a specimen." []
is_a: OBI:2100015 ! phosphate ion assay

[Term]
id: OBI:0003168
name: potassium(1+) concentration assay
def: "A potassium(1+) assay that measures the concentration of potassium(1+) in a specimen." []
is_a: OBI:2100004 ! potassium(1+) assay

[Term]
id: OBI:0003170
name: reticulocyte percentage assay
def: "A reticulocyte assay that measures the percentage of reticulocytes in a specimen." []
is_a: OBI:0003026 ! reticulocyte assay

[Term]
id: OBI:0003171
name: sodium(1+) concentration assay
def: "A sodium(1+) assay that measures the concentration of sodium(1+) in a specimen." []
is_a: OBI:2100002 ! sodium(1+) assay

[Term]
id: OBI:0003172
name: thyroid stimulating hormone concentration assay
def: "A thyroid stimulating hormone assay that measures the concentration of thyroid stimulating hormone in a specimen." []
is_a: OBI:2100033 ! thyroid stimulating hormone assay

[Term]
id: OBI:0003173
name: triglyceride concentration assay
def: "A triglyceride assay that measures the concentration of triglycerides in a specimen." []
is_a: OBI:2100029 ! triglyceride assay

[Term]
id: OBI:0003174
name: 3,3',5'-triiodothyronine concentration assay
def: "A 3,3',5'-triiodothyronine assay that measures the concentration of 3,3',5'-triiodothyronine in a specimen." []
is_a: OBI:2100046 ! 3,3',5'-triiodothyronine assay

[Term]
id: OBI:0003175
name: fibrinogen concentration assay
def: "A fibrinogen assay that measures the concentration of fibrinogen in a specimen." []
is_a: OBI:0003010 ! fibrinogen assay

[Term]
id: OBI:0003176
name: free thyroxine concentration assay
def: "A thyroxine assay that measures the concentration of free thyroxine in a specimen." []
is_a: OBI:2100035 ! thyroxine assay

[Term]
id: OBI:0003177
name: total thyroxine concentration assay
def: "A thyroxine assay that measures the concentration of total thyroxine in a specimen." []
is_a: OBI:2100035 ! thyroxine assay

[Term]
id: OBI:0003180
name: direct bilirubin concentration assay
def: "A bilirubin IXalpha assay that measures the concentration of direct bilirubin in a specimen." []
is_a: OBI:2100018 ! bilirubin IXalpha assay

[Term]
id: OBI:0003181
name: indirect bilirubin concentration assay
def: "A bilirubin IXalpha assay that measures the concentration of indirect bilirubin in a specimen." []
is_a: OBI:2100018 ! bilirubin IXalpha assay

[Term]
id: OBI:0003182
name: total bilirubin concentration assay
def: "A bilirubin IXalpha assay that measures the concentration of total bilirubin in a specimen." []
is_a: OBI:2100018 ! bilirubin IXalpha assay

[Term]
id: OBI:0003183
name: mean cell hemoglobin assay
def: "A hemoglobin assay that measures the average concentration of hemoglobin in a population of erythrocytes." []
is_a: OBI:2100014 ! hemoglobin assay

[Term]
id: OBI:0003184
name: mean cell hemoglobin concentration assay
def: "A hemoglobin assay that measures the concentration of hemoglobin in a specimen." []
is_a: OBI:2100014 ! hemoglobin assay

[Term]
id: OBI:0003185
name: mean platelet volume assay
def: "A platelet assay that measures the average volume of platelets in a specimen." []
is_a: OBI:0003028 ! platelet assay

[Term]
id: OBI:0003186
name: immature neutrophil count assay
def: "A neutrophil assay that measures the number of immature neutrophils in a specimen." []
is_a: OBI:0003022 ! neutrophil assay

[Term]
id: OBI:0003187
name: immature neutrophil percentage assay
def: "An neutrophil assay that measures the percentage of immature neutrophils in a specimen." []
is_a: OBI:0003022 ! neutrophil assay

[Term]
id: OBI:0003188
name: nucleated erythrocyte percentage assay
def: "An erythrocyte assay that measures the percentage of nucleated erythrocytes in a specimen." []
is_a: OBI:0003190 ! erythrocyte assay

[Term]
id: OBI:0003189
name: mean cell volume assay
def: "An erythrocyte assay that measures the average volume of erythrocytes in a specimen." []
is_a: OBI:0003190 ! erythrocyte assay

[Term]
id: OBI:0003190
name: erythrocyte assay
def: "A cytometry assay that measures the abundance and/or characteristics of erythrocytes." []
is_a: OBI:0003018 ! hematocrit assay

[Term]
id: OBI:0003191
name: manual hematocrit assay
def: "A hematocrit assay that measures the percentage of erythrocytes in a specimen by manual processes." []
is_a: OBI:0003018 ! hematocrit assay

[Term]
id: OBI:0003192
name: adiponectin assay
def: "An analyte assay that measures the abundance of adiponectin" []
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:0003193
name: adiponectin concentration assay
def: "An adiponectin assay that measures the concentration of adiponectin in a specimen." []
is_a: OBI:0003192 ! adiponectin assay

[Term]
id: OBI:0003194
name: creatine assay
def: "An analyte assay that measures the abundance of creatine" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003195
name: creatine concentration assay
def: "A creatine assay that measures the concentration of creatine in a specimen." []
is_a: OBI:0003194 ! creatine assay

[Term]
id: OBI:0003196
name: estradiol assay
def: "An analyte assay that measures the abundance of estradiol" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003197
name: estradiol concentration assay
def: "An estradiol assay that measures the concentration of estradiol in a specimen." []
is_a: OBI:0003196 ! estradiol assay

[Term]
id: OBI:0003202
name: leptin assay
def: "An analyte assay that measures the abundance of leptin" []
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:0003203
name: leptin concentration assay
def: "An leptin assay that measures the concentration of leptin in a specimen." []
is_a: OBI:0003202 ! leptin assay

[Term]
id: OBI:0003204
name: lipoprotein concentration assay
def: "An analyte assay that measures the abundance of lipoprotein" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003205
name: high-density lipoprotein concentration assay
def: "A lipoprotein concentration assay that measures the concentration of high-density lipoprotein in a specimen." []
is_a: OBI:0003204 ! lipoprotein concentration assay

[Term]
id: OBI:0003206
name: low-density lipoprotein concentration assay
def: "A lipoprotein concentration assay that measures the concentration of low-density lipoprotein in a specimen." []
is_a: OBI:0003204 ! lipoprotein concentration assay

[Term]
id: OBI:0003207
name: very-low-density lipoprotein concentration assay
def: "A lipoprotein concentration assay that measures the concentration of very-low-density lipoprotein in a specimen." []
is_a: OBI:0003204 ! lipoprotein concentration assay

[Term]
id: OBI:0003208
name: luteinizing hormone assay
def: "An analyte assay that measures the abundance of luteinizing hormone" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003209
name: luteinizing hormone concentration assay
def: "A luteinizing hormone assay that measures the concentration of luteinizing hormone in a specimen." []
is_a: OBI:0003208 ! luteinizing hormone assay

[Term]
id: OBI:0003210
name: nitrite assay
def: "An analyte assay that measures the abundance of nitrite" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003211
name: nitrite concentration assay
def: "A nitrite assay that measures the concentration of nitrite in a specimen." []
is_a: OBI:0003210 ! nitrite assay

[Term]
id: OBI:0003212
name: phospholipid assay
def: "An analyte assay that measures the abundance of phospholipid" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003213
name: phospholipid concentration assay
def: "A phospholipid assay that measures the concentration of phospholipids in a specimen." []
is_a: OBI:0003212 ! phospholipid assay

[Term]
id: OBI:0003214
name: progesterone assay
def: "An analyte assay that measures the abundance of progesterone" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003215
name: progesterone concentration assay
def: "A progesterone assay that measures the concentration of progesterone in a specimen." []
is_a: OBI:0003214 ! progesterone assay

[Term]
id: OBI:0003216
name: testosterone assay
def: "An analyte assay that measures the abundance of testosterone" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003217
name: testosterone concentration assay
def: "A testosterone assay that measures the concentration of testosterone in a specimen." []
is_a: OBI:0003216 ! testosterone assay

[Term]
id: OBI:0003218
name: bile salt assay
def: "An analyte assay that measures the abundance of bile salt" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003219
name: bile salt concentration assay
def: "A bile salt assay that measures the concentration of bile salt in a specimen." []
is_a: OBI:0003218 ! bile salt assay

[Term]
id: OBI:0003220
name: fatty acid assay
def: "An analyte assay that measures the abundance of fatty acid" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003221
name: free fatty acid concentration assay
def: "A fatty acid assay that measures the concentration of free fatty acids in a specimen." []
is_a: OBI:0003220 ! fatty acid assay

[Term]
id: OBI:0003222
name: insulin assay
def: "An analyte assay that measures the abundance of insulin" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003223
name: insulin concentration assay
def: "A insulin assay that measures the concentration of insulin in a specimen." []
is_a: OBI:0003222 ! insulin assay

[Term]
id: OBI:0003224
name: follicle stimulating hormone assay
def: "An analyte assay that measures the abundance of follicle stimulating hormone" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003225
name: follicle stimulating hormone concentration assay
def: "A follicle stimulating hormone assay that measures the concentration of follicle stimulating hormone in a specimen." []
is_a: OBI:0003224 ! follicle stimulating hormone assay

[Term]
id: OBI:0003226
name: total lymphocyte count assay
def: "A lymphocyte assay that measures the number of lymphocytes and large unstained cells in a specimen." []
is_a: OBI:0003024 ! lymphocyte assay

[Term]
id: OBI:0003227
name: total lymphocyte percentage assay
def: "A lymphocyte assay that measures the percentage of lymphocytes and large unstained cells in a specimen." []
is_a: OBI:0003024 ! lymphocyte assay

[Term]
id: OBI:0003228
name: fluorescent immunospot assay
def: "A cytometry assay that detects the presence of cells that secrete a material of interest (analyte). In the assay, a plate is coated with an antibody specific to the analyte of interest. These antibodies capture the analytes secreted by the cells. The analytes are then detected using fluorescent labeled secondary antibodies." []
synonym: "FLUOROSPOT" EXACT []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003229
name: plasma proteomics assay
def: "A proteomics profiling assay that detects proteins in a blood plasma specimen." []
is_a: OBI:0001318 ! proteomic profiling by array assay

[Term]
id: OBI:0003230
name: T cell activation induced marker assay
def: "A flow cytometry assay that detects the presence/amount of antigen-specific T cells without the need to identify their cytokine production. Instead, antigen-specific T cells are detected on the basis of upregulation of TCR stimulation-induced surface markers." []
is_a: OBI:0000916 ! flow cytometry assay

[Term]
id: OBI:0003231
name: leukapheresis
def: "A blood specimen collection in which white blood cells are separated from a blood specimen." []
is_a: OBI:1110095 ! blood specimen collection

[Term]
id: OBI:0003232
name: cerebrospinal fluid assay
def: "An assay that has a cerebrospinal fluid specimen as evaluant." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003233
name: endotracheal aspirate assay
def: "An assay that has an endotracheal aspirate specimen as evaluant." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003234
name: induced sputum assay
def: "An assay that has an induced sputum specimen as evaluant." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003235
name: lung assay
def: "An assay that has a lung specimen as evaluant." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003236
name: milk assay
def: "An assay that has a milk specimen as evaluant." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003237
name: feces assay
def: "An assay that has a feces specimen as evaluant." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003238
name: umbilical cord blood assay
def: "An assay that has an umbilical cord blood specimen as evaluant." []
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:0003239
name: saliva assay
def: "An assay that has a saliva specimen as evaluant." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003240
name: cerebrospinal fluid microbiology assay
def: "An organism detection assay that detects microorganisms in a cerebrospinal fluid specimen." []
is_a: OBI:0003232 ! cerebrospinal fluid assay
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0003241
name: endotracheal tube aspirate microbiology assay
def: "An organism detection assay that detects microorganisms in an endotracheal aspirate specimen." []
is_a: OBI:0003233 ! endotracheal aspirate assay
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0003242
name: induced sputum microbiology assay
def: "An organism detection assay that detects microorganisms in an induced sputum specimen." []
is_a: OBI:0003234 ! induced sputum assay
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0003243
name: blood assay datum
def: "A data entity that is the specified output of a blood assay." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0003244
name: blood microbiology datum
def: "An organism detection datum that is the specified output of a blood microbiology assay." []
is_a: OBI:0003064 ! organism detection datum
is_a: OBI:0003243 ! blood assay datum

[Term]
id: OBI:0003245
name: feces assay datum
def: "A data entity that is the specified output of a feces assay." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0003246
name: feces microbiology datum
def: "An organism detection datum that is the specified output of a feces microbiology assay." []
is_a: OBI:0003064 ! organism detection datum
is_a: OBI:0003245 ! feces assay datum

[Term]
id: OBI:0003247
name: urine assay datum
def: "A data entity that is the specified output of a urine assay." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0003248
name: urine microbiology datum
def: "An organism detection datum that is the specified output of a urine microbiology assay." []
is_a: OBI:0003064 ! organism detection datum
is_a: OBI:0003247 ! urine assay datum

[Term]
id: OBI:0003249
name: induced sputum assay datum
def: "A data entity that is the specified output of a induced sputum assay." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0003250
name: biomedical laboratory organization
def: "An organization that performs assays, processes specimens, analyses data and conducts planned processes relevant to the life sciences." []
synonym: "laboratory" EXACT []
is_a: OBI:0000245 ! organization

[Term]
id: OBI:0003251
name: induced sputum microbiology datum
def: "An organism detection datum that is the specified output of an induced sputum microbiology assay." []
is_a: OBI:0003064 ! organism detection datum
is_a: OBI:0003249 ! induced sputum assay datum

[Term]
id: OBI:0003252
name: cerebrospinal fluid assay datum
def: "A data entity that is the specified output of a cerebrospinal fluid assay." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0003253
name: cerebrospinal fluid microbiology datum
def: "An organism detection datum that is the specified output of a cerebrospinal fluid microbiology assay." []
is_a: OBI:0003064 ! organism detection datum
is_a: OBI:0003252 ! cerebrospinal fluid assay datum

[Term]
id: OBI:0003254
name: endotracheal aspirate assay datum
def: "An organism detection datum that is the specified output of an endotracheal aspirate assay." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0003255
name: endotracheal tube aspirate microbiology datum
def: "An organism detection datum that is the specified output of an endotracheal tube aspirate microbiology assay." []
is_a: OBI:0003064 ! organism detection datum
is_a: OBI:0003254 ! endotracheal aspirate assay datum

[Term]
id: OBI:0003256
name: lung microbiology datum
def: "An organism detection datum that is the specified output of a lung microbiology assay." []
is_a: OBI:0003064 ! organism detection datum

[Term]
id: OBI:0003257
name: nasopharyngeal or oropharyngeal swab microbiology datum
def: "An organism detection datum that is the specified output of a nasopharyngeal or oropharyngeal swab microbiology assay." []
is_a: OBI:0003064 ! organism detection datum

[Term]
id: OBI:0003258
name: pleural fluid microbiology datum
def: "An organism detection datum that is the specified output of a pleural fluid microbiology assay." []
is_a: OBI:0003064 ! organism detection datum

[Term]
id: OBI:0003259
name: umbilical cord blood assay datum
def: "A data entity that is the specified output of an umbilical cord blood assay." []
is_a: OBI:0003243 ! blood assay datum

[Term]
id: OBI:0003260
name: umbilical cord blood microbiology datum
def: "An organism detection datum that is the specified output of an umbilical cord blood microbiology assay." []
is_a: OBI:0003244 ! blood microbiology datum
is_a: OBI:0003259 ! umbilical cord blood assay datum

[Term]
id: OBI:0003261
name: bacteria in blood datum
def: "A blood microbiology datum that is about bacteria." []
is_a: OBI:0003244 ! blood microbiology datum

[Term]
id: OBI:0003262
name: virus in blood datum
def: "A blood microbiology datum that is about a virus." []
is_a: OBI:0003244 ! blood microbiology datum

[Term]
id: OBI:0003263
name: eukaryota in blood datum
def: "A blood microbiology datum that is about eukaryota." []
is_a: OBI:0003244 ! blood microbiology datum

[Term]
id: OBI:0003264
name: bacteria in feces datum
def: "A feces microbiology datum that is about bacteria." []
is_a: OBI:0003246 ! feces microbiology datum

[Term]
id: OBI:0003265
name: eukaryota in feces datum
def: "A feces microbiology datum that is about eukaryota." []
is_a: OBI:0003246 ! feces microbiology datum

[Term]
id: OBI:0003266
name: virus in feces datum
def: "A feces microbiology datum that is about a virus." []
is_a: OBI:0003246 ! feces microbiology datum

[Term]
id: OBI:0003267
name: eukaryota in urine datum
def: "A urine microbiology datum that is about eukaryota." []
is_a: OBI:0003248 ! urine microbiology datum

[Term]
id: OBI:0003268
name: bacteria in induced sputum datum
def: "An induced sputum microbiology datum that is about bacteria." []
is_a: OBI:0003251 ! induced sputum microbiology datum

[Term]
id: OBI:0003269
name: eukaryota in induced sputum datum
def: "An induced sputum microbiology datum that is about eukaryota." []
is_a: OBI:0003251 ! induced sputum microbiology datum

[Term]
id: OBI:0003270
name: virus in induced sputum datum
def: "An induced sputum microbiology datum that is about a virus." []
is_a: OBI:0003251 ! induced sputum microbiology datum

[Term]
id: OBI:0003271
name: bacteria in endotracheal tube aspirate datum
def: "An endotracheal tube aspirate microbiology datum that is about bacteria." []
is_a: OBI:0003255 ! endotracheal tube aspirate microbiology datum

[Term]
id: OBI:0003272
name: bacteria in lung datum
def: "A lung microbiology datum that is about bacteria." []
is_a: OBI:0003256 ! lung microbiology datum

[Term]
id: OBI:0003273
name: eukaryota in lung datum
def: "A lung microbiology datum that is about eukaryota." []
is_a: OBI:0003256 ! lung microbiology datum

[Term]
id: OBI:0003274
name: virus in lung datum
def: "A lung microbiology datum that is about a virus." []
is_a: OBI:0003256 ! lung microbiology datum

[Term]
id: OBI:0003275
name: bacteria in nasopharyngeal or oropharyngeal swab datum
def: "A nasopharyngeal or oropharyngeal swab microbiology datum that is about bacteria." []
is_a: OBI:0003257 ! nasopharyngeal or oropharyngeal swab microbiology datum

[Term]
id: OBI:0003276
name: eukaryota in nasopharyngeal or oropharyngeal swab datum
def: "A nasopharyngeal or oropharyngeal swab microbiology datum that is about eukaryota." []
is_a: OBI:0003257 ! nasopharyngeal or oropharyngeal swab microbiology datum

[Term]
id: OBI:0003277
name: virus in nasopharyngeal or oropharyngeal swab datum
def: "A nasopharyngeal or oropharyngeal swab microbiology datum that is about a virus." []
is_a: OBI:0003257 ! nasopharyngeal or oropharyngeal swab microbiology datum

[Term]
id: OBI:0003278
name: bacteria in pleural fluid datum
def: "A pleural fluid microbiology datum that is about bacteria." []
is_a: OBI:0003258 ! pleural fluid microbiology datum

[Term]
id: OBI:0003279
name: eukaryota in pleural fluid datum
def: "A pleural fluid microbiology datum that is about eukaryota." []
is_a: OBI:0003258 ! pleural fluid microbiology datum

[Term]
id: OBI:0003280
name: virus in pleural fluid datum
def: "A pleural fluid microbiology datum that is about a virus." []
is_a: OBI:0003258 ! pleural fluid microbiology datum

[Term]
id: OBI:0003281
name: eukaryota in umbilical cord blood datum
def: "An umbilical cord blood microbiology datum that is about eukaryota." []
is_a: OBI:0003260 ! umbilical cord blood microbiology datum
is_a: OBI:0003263 ! eukaryota in blood datum

[Term]
id: OBI:0003282
name: lung microbiology assay
def: "An organism detection assay that detects microorganisms in a lung specimen." []
is_a: OBI:0003235 ! lung assay
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0003283
name: pleural fluid microbiology assay
def: "An organism detection assay that detects microorganisms in a pleural fluid specimen." []
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0003284
name: umbilical cord blood microbiology assay
def: "An organism detection assay that detects microorganisms in an umbilical cord blood specimen." []
is_a: OBI:0002649 ! blood microbiology assay
is_a: OBI:0003238 ! umbilical cord blood assay

[Term]
id: OBI:0003285
name: nasopharyngeal or oropharyngeal swab microbiology assay
def: "An organism detection assay that detects microorganisms in a nasopharyngeal or oropharyngeal swab specimen." []
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0003286
name: urine microbiology assay
def: "An organism detection assay that detects microorganisms in a urine specimen." []
is_a: OBI:0003043 ! urine assay
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0003287
name: multiplex real time polymerase chain reaction assay
def: "A real time polymerase chain reaction assay in which multiple DNA sequences are amplified in a single cycle." []
synonym: "multiplexed real time polymerase chain reaction assay" EXACT []
is_a: OBI:0000893 ! real time polymerase chain reaction assay

[Term]
id: OBI:0003288
name: multiplex real time reverse-transcription polymerase chain reaction assay
def: "A real time reverse-transcription polymerase chain reaction assay in which multiple DNA sequences are amplified in a single cycle." []
synonym: "multiplexed real time reverse-transcription polymerase chain reaction assay" EXACT []
is_a: OBI:0000911 ! real time reverse-transcription polymerase chain reaction assay

[Term]
id: OBI:0003289
name: mosquito membrane feeding device
def: "A device that contains blood in a membrane penetrable to mosquitoes, designed to feed mosquitoes without the need for an animal host." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0003290
name: mosquito membrane feeding assay
def: "An assay that evaluates host-to-mosquito transmission of a parasite organism by feeding a specimen of host blood infected with the parasite organism to a collection of mosquitoes through a mosquito membrane feeding device and, after a given time, dissecting the mosquitoes and counting the number of parasite organisms within them." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003291
name: in silico design
def: "A study design that is executed primarily on a computer." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0003292
name: cytometric bead array assay measuring epitope specific granulysin release by T cells
def: "A cytometric bead array assay that detects epitope specific granulysin release by T cells." []
synonym: "granulysin release|cytometric bead array" EXACT []
is_a: OBI:0001810 ! assay measuring epitope specific granulysin release by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0003293
name: cytometric bead array assay measuring epitope specific perforin release by T cells
def: "A cytometric bead array assay that detects epitope specific perforin release by T cells." []
synonym: "perforin release|cytometric bead array" EXACT []
is_a: OBI:0001497 ! assay measuring epitope specific perforin release by T cells
is_a: OBI:0003115 ! antigen detection by cytometric bead array assay

[Term]
id: OBI:0003294
name: modified acid-fast stain microscopy assay
def: "A microscopy assay that uses staining to identify acid-fast organisms in a specimen and does not require heating." []
is_a: OBI:0002119 ! microscopy assay

[Term]
id: OBI:0003295
name: positive binding datum
def: "A categorical binding datum that states that there is a significant disposition of two or more entities to form a complex." []
is_a: OBI:0003141 ! categorical binding datum

[Term]
id: OBI:0003296
name: antibodies from lymphocyte secretions assay
def: "An assay that evaluates a blood specimen for antibodies currently being produced by lymphocytes in the specimen, by separating peripheral blood mononuclear cells, culturing them, and then collecting the supernatant containing the antibodies secreted from those cells." []
synonym: "ALS assay" EXACT []
synonym: "antibodies from lymphocyte supernatant assay" EXACT []
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:0003297
name: tyramide signal amplification sequencing assay
def: "A DNA sequencing assay that uses tyramide signal amplification (TSA) to assess distance of DNA regions to a targeted nuclear compartment or protein, typically on a scale of 100-1000 nm." []
synonym: "TSA-seq" EXACT []
is_a: OBI:0000626 ! DNA sequencing assay

[Term]
id: OBI:0003298
name: DNA adenine methyltransferase identification assay
def: "An assay for identifying DNA binding sites for a protein by fusing it to Dam methylase, and expressing it so that bound DNA gets methylated. The methylated DNA can then be isolated and analyzed." []
synonym: "DamID assay" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003299
name: DamID-seq
def: "A DNA adenine methyltransferase identification (DamID) assay in which DamID-generated DNA fragments undergo high-throughput sequencing to determine a protein's DNA-binding site." []
is_a: OBI:0003298 ! DNA adenine methyltransferase identification assay

[Term]
id: OBI:0003300
name: nucleolus-associated domain sequencing assay
def: "A DNA sequencing assay in which nucleoli are isolated and the DNA associated with them is sequenced to identify nucleoli-associating domains." []
synonym: "NAD-seq" EXACT []
is_a: OBI:0000626 ! DNA sequencing assay

[Term]
id: OBI:0003301
name: DNase Hi-C assay
def: "A Hi-C assay in which DNase I is used for digesting DNA fragments rather than a restriction enzyme, which can result in a higher resolution of mapped chromosome contacts." []
is_a: OBI:0002440 ! Hi-C assay

[Term]
id: OBI:0003302
name: micro-C assay
def: "A Hi-C assay which uses micrococcal nuclease digestion in place of the restriction enzyme digestion step." []
is_a: OBI:0002440 ! Hi-C assay

[Term]
id: OBI:0003303
name: single cell combinatorial indexing Hi-C assay
def: "A Hi-C assay performed on massively multiplexed single-cell samples." []
synonym: "sci-Hi-C" EXACT []
is_a: OBI:0002440 ! Hi-C assay

[Term]
id: OBI:0003304
name: single nucleus Hi-C assay
def: "A Hi-C assay performed on isolated nuclei." []
synonym: "sn-Hi-C" EXACT []
is_a: OBI:0002440 ! Hi-C assay

[Term]
id: OBI:0003305
name: single cell Hi-C assay
def: "A Hi-C assay performed on a single cell." []
is_a: OBI:0002440 ! Hi-C assay

[Term]
id: OBI:0003306
name: bulk Hi-C assay
def: "A Hi-C assay in which the sample that is sequenced is derived from a collection of cells, such as a tissue sample or entire cell culture, and therefore provides results representative of the aggregate of sample cells." []
is_a: OBI:0002440 ! Hi-C assay

[Term]
id: OBI:0003307
name: multi-contact Hi-C assay
def: "A Hi-C assay that assesses interactions between multiple DNA fragments rather than only pairwise interactions as in traditional Hi-C. The experimental procedure of cross-linking, digestion, and ligation is performed similarly to traditional Hi-C, but after DNA is purified a long-read library is produced in which many ligated fragments may be contained in a single molecule. The library is then sequenced on a long read sequencer." []
synonym: "MC-3C" EXACT []
synonym: "MC-HI-C" EXACT []
is_a: OBI:0002440 ! Hi-C assay

[Term]
id: OBI:0003309
name: transposase-mediated analysis of chromatin looping assay
def: "A DNA sequencing assay designed to detect interacting genomic regions. Rather than the traditional Hi-C approach of digestion and proximity ligation, the procedure involves transposase-mediated insertion of an oligonucleotide linker between the pair of interacting regions." []
synonym: "TrAC-Loop" EXACT []
is_a: OBI:0000626 ! DNA sequencing assay

[Term]
id: OBI:0003310
name: split-pool recognition of interactions and tag extension assay
def: "A sequencing assay designed to detect multi-way interactions between nucleic acids. The procedure involves crosslinking nuclei, and then splitting the lysate among wells in a 96-well or other multi-well plate. A different barcode is ligated to the fragments in each well, and the lysates are pooled together again. This sequence of splitting, tagging, and re-combining is repeated several times so that fragments with the same sequences of barcodes represent fragments that have co-associated throughout the experiment. Finally, a sequencing library is constructed and high-throughput sequencing is performed." []
synonym: "SPRITE" EXACT []
is_a: OBI:0600047 ! sequencing assay

[Term]
id: OBI:0003311
name: DNA split-pool recognition of interactions and tag extension assay
def: "A split-pool recognition of interactions and tag extension (SPRITE) assay that only assays interactions between regions of genomic DNA." []
synonym: "DNA SPRITE" EXACT []
is_a: OBI:0003310 ! split-pool recognition of interactions and tag extension assay

[Term]
id: OBI:0003312
name: RNA-DNA split-pool recognition of interactions and tag extension assay
def: "A split-pool recognition of interactions and tag extension (SPRITE) assay in which RNA in the cross-linked complexes is converted to cDNA before the initial splitting step, allowing analysis of RNA-DNA interactions." []
synonym: "RNA-DNA SPRITE" EXACT []
is_a: OBI:0003310 ! split-pool recognition of interactions and tag extension assay

[Term]
id: OBI:0003313
name: genome architecture mapping assay
def: "A DNA sequencing assay designed to analyze 3D chromatin structure without relying on digestion and ligation. The procedure involves cryosectioning samples in random orientation, and then single nuclear profiles are isolated by laser microdissection. Each nuclear profile then undergoes high-throughput sequencing, and subsequent analysis can generate a matrix of inferred proximity between genomic regions." []
synonym: "GAM" EXACT []
is_a: OBI:0000626 ! DNA sequencing assay

[Term]
id: OBI:0003314
name: mapping RNA-genome interactions assay
def: "A nuclear ligation assay for probing RNA-DNA interactions in the nucleus. Nuclei are crosslinked, and RNA fragments are ligated to proximal DNA fragments via a special linker molecule. After reverse transcription, high-throughput sequencing is performed." []
synonym: "MARGI" EXACT []
is_a: OBI:0002438 ! nuclear ligation assay

[Term]
id: OBI:0003315
name: assay measuring epitope specific amphiregulin production by T cells
def: "A T cell epitope specific cytokine production assay that detects amphiregulin production by T cells." []
synonym: "amphiregulin release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0003316
name: ELISA measuring epitope specific amphiregulin production by T cells
def: "An enzyme-linked immunosorbent assay that detects amphiregulin production by T cells." []
synonym: "amphiregulin release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0003315 ! assay measuring epitope specific amphiregulin production by T cells

[Term]
id: OBI:0003317
name: perforin release during T cell degranulation
def: "The release of perforin during cytotoxic T cell degranulation." []
is_a: GO:0035944 ! perforin production

[Term]
id: OBI:0003318
name: granzyme A release during T cell degranulation
def: "The release of granzyme A during cytotoxic T cell degranulation." []
is_a: GO:0035746 ! granzyme A production

[Term]
id: OBI:0003319
name: granzyme B release during T cell degranulation
def: "The release of granzyme B during cytotoxic T cell degranulation." []
is_a: GO:0071613 ! granzyme B production

[Term]
id: OBI:0003320
name: granulysin release during T cell degranulation
def: "The release of granulysin during cytotoxic T cell degranulation." []
is_a: GO:0036262 ! granulysin production

[Term]
id: OBI:0003321
name: venous blood microbiology assay
def: "A blood microbiology assay that detects a microorganism in a venous blood specimen." []
is_a: OBI:0002649 ! blood microbiology assay

[Term]
id: OBI:0003323
name: high throughput multiplexed assay measuring binding of a B cell epitope:antibody complex
def: "A B cell epitope assay that measures the binding of an antibody receptor to an epitope using a high throughput multiplexed assay." []
synonym: "antibody binding|High throughput multiplexed assay" EXACT []
is_a: OBI:1110127 ! assay measuring binding of a B cell epitope:antibody complex

[Term]
id: OBI:0003324
name: high throughput multiplexed assay measuring binding of a T cell epitope:MHC:TCR complex
def: "A T cell epitope assay that measures the binding of T cell receptor to an epitope using a high throughput multiplexed assay." []
synonym: "T cell binding|High throughput multiplexed assay" EXACT []
is_a: OBI:1110037 ! assay measuring binding of a T cell epitope:MHC:TCR complex

[Term]
id: OBI:0003325
name: high throughput multiplexed assay measuring binding of a MHC:ligand complex
def: "A MHC ligand assay that detects the binding of a ligand to an MHC molecule using a high throughput multiplexed assay." []
synonym: "MHC binding|High throughput multiplexed assay" EXACT []
is_a: OBI:1110126 ! assay measuring binding of a MHC:ligand complex

[Term]
id: OBI:0003326
name: high throughput multiplexed assay measuring MHC ligand processing and presentation
def: "A MHC ligand assay that determines what ligands are processed and loaded onto MHC molecules by eluting ligands and identifying them using a high throughput multiplexed assay." []
synonym: "ligand presentation|High throughput multiplexed assay" EXACT []
is_a: OBI:1110125 ! assay measuring MHC ligand processing and presentation

[Term]
id: OBI:0003327
name: image data set
def: "A data set that is comprised of multidimensional structured measurements and metadata required for a morphological representation of an entity. An image data set can be the source from which an image (such as a 2D image using pixels or a 3D image using voxels) is produced." []
is_a: IAO:0000100 ! homogenous data collection

[Term]
id: OBI:0003328
name: magnetic resonance image data set
def: "An image data set whose information content originates from some MR imaging assay and is about some MRI participant." []
is_a: OBI:0003327 ! image data set

[Term]
id: OBI:0003329
name: magnetic resonance imaging participant
def: "The subject being scanned in an MRI study, and bearor of data derived from that study." []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0003330
name: magnetic resonance imaging evaluant role
def: "An evaluant role that inheres in a material entity that is realized in a MR imaging assay in which MR imaging data is generated about the bearer of the evaluant role." []
is_a: OBI:0000067 ! evaluant role

[Term]
id: OBI:0003331
name: raw image data set
def: "An image data set that encodes measurement values produced by some instrument before undergoing a data transformation." []
is_a: OBI:0003327 ! image data set

[Term]
id: OBI:0003332
name: magnetic resonance pulse sequence protocol
def: "The NMR/MRI machine protocol about the radiofrequency pulse sequence." []
is_a: OBI:0000272 ! protocol

[Term]
id: OBI:0003333
name: computed image data set
def: "An image data set that is the output of an image data set analysis." []
is_a: OBI:0003327 ! image data set

[Term]
id: OBI:0003334
name: reconstructed magnetic resonance image data set
def: "An image data set that is the direct output of a raw magnetic resonance image data set reconstruction or a transformation of another MR image data set." []
is_a: OBI:0003328 ! magnetic resonance image data set
is_a: OBI:0003333 ! computed image data set

[Term]
id: OBI:0003335
name: diffusion weighted magnetic resonance image data set
def: "A type of magnetic resonance image data set collected using at least three diffusion gradients of some factor \"b,\" which is a function of the amplitude, duration, and interval of the gradiants." []
is_a: OBI:0003334 ! reconstructed magnetic resonance image data set

[Term]
id: OBI:0003336
name: functional magnetic resonance image data set
def: "An magnetic resonance image data set collected as a 4D time series representing changes in brain metabolism (i.e. BOLD), typically used as a proxy for brain activity." []
is_a: OBI:0003334 ! reconstructed magnetic resonance image data set

[Term]
id: OBI:0003337
name: resting state functional magnetic resonance image data set
def: "A type of functional MRI in which the participant is not given a task, but just rests during acquisision" []
is_a: OBI:0003336 ! functional magnetic resonance image data set

[Term]
id: OBI:0003338
name: task-based functional magnetic resonance image data set
def: "A type of functional MRI in which the participant is given a task or tasks, which are timed with the acquisition" []
is_a: OBI:0003336 ! functional magnetic resonance image data set

[Term]
id: OBI:0003339
name: perfusion weighted magnetic resonance image data set
def: "An magnetic resonance image data set that captures volume and flow of blood in the brain." []
is_a: OBI:0003334 ! reconstructed magnetic resonance image data set

[Term]
id: OBI:0003340
name: proton density magnetic resonance image data set
def: "An magnetic resonance image data set in which the contrast emphasizes density of protons, supressing T1 and T2 effects" []
is_a: OBI:0003334 ! reconstructed magnetic resonance image data set

[Term]
id: OBI:0003341
name: T1 weighted magnetic resonance image data set
def: "An magnetic resonance image acquired using a T1 weighted magnetic resonance image acquisition sequence." []
is_a: OBI:0003334 ! reconstructed magnetic resonance image data set

[Term]
id: OBI:0003342
name: post-Gd T1 weighted magnetic resonance image data set
def: "A T1 weighted image data set where gadolidium contrast agent has been administered to the participant before image acquistion." []
is_a: OBI:0003341 ! T1 weighted magnetic resonance image data set

[Term]
id: OBI:0003343
name: T1 weighted GRE magnetic resonance image data set
def: "T1 weighted image data set collected using a gradient recall echo sequence." []
is_a: OBI:0003341 ! T1 weighted magnetic resonance image data set

[Term]
id: OBI:0003344
name: high resolution T1 weighted magnetic resonance image data set
def: "A T1-weighted image data set acquired from an NMR/MRI machine with at least a 3 Tesla magnet and in which the voxel size is isotropic." []
is_a: OBI:0003343 ! T1 weighted GRE magnetic resonance image data set

[Term]
id: OBI:0003345
name: baseline high resolution T1 weighted magnetic resonance image data set
def: "A T1w image data set collected at an evaluant's first visit in a study." []
is_a: OBI:0003343 ! T1 weighted GRE magnetic resonance image data set

[Term]
id: OBI:0003346
name: follow-up high resolution T1 weighted magnetic resonance image data set
def: "A T1w image data set collected at a later time than the evaluant's first scan." []
is_a: OBI:0003343 ! T1 weighted GRE magnetic resonance image data set

[Term]
id: OBI:0003347
name: T1 weighted SE magnetic resonance image data set
def: "A T1 weighted image data set acquired using a spin echo sequence." []
is_a: OBI:0003341 ! T1 weighted magnetic resonance image data set

[Term]
id: OBI:0003348
name: T2 weighted magnetic resonance image data set
def: "A magnetic resonance image produced by a T2 weighted magnetic resonance image acquisition sequence." []
is_a: OBI:0003334 ! reconstructed magnetic resonance image data set

[Term]
id: OBI:0003349
name: T2 weighted FLAIR magnetic resonance image data set
def: "A T2 weighted image data set collected using a FLAIR sequence." []
is_a: OBI:0003348 ! T2 weighted magnetic resonance image data set

[Term]
id: OBI:0003350
name: T2 weighted FSE  magnetic resonance image data set
def: "T2 weighted image collected using a fast/turbo spin echo sequence." []
synonym: "T2 weighted TSE magnetic resonance image data set" EXACT []
is_a: OBI:0003348 ! T2 weighted magnetic resonance image data set

[Term]
id: OBI:0003351
name: T2 weighted SE magnetic resonance image data set
def: "A type of T2-weighted image in which the acquisition is performed using a 2D spin-echo technique" []
is_a: OBI:0003348 ! T2 weighted magnetic resonance image data set

[Term]
id: OBI:0003352
name: T2 weighted STIR magnetic resonance image data set
def: "A T2 weighted magnetic resonance image data set collected using a STIR sequence to suppress the signal coming from fat." []
is_a: OBI:0003348 ! T2 weighted magnetic resonance image data set

[Term]
id: OBI:0003353
name: T2* weighted GRE magnetic resonance image data set
def: "T2* weighted image data set collected using a gradient echo sequence." []
is_a: OBI:0003348 ! T2 weighted magnetic resonance image data set

[Term]
id: OBI:0003354
name: raw magnetic resonance image data set
def: "An image data set that is the direct output of an magnetic resonance imaging assay and whose values encode spatial frequencies produced by the NMR or MRI instrument." []
is_a: OBI:0003328 ! magnetic resonance image data set
is_a: OBI:0003331 ! raw image data set

[Term]
id: OBI:0003355
name: image data set analysis
def: "The process of deriving a data item from an image data set using computer algorithms. The produced data item can be an image data set, data measurement, or any other data item." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0003356
name: raw magnetic resonance image data set reconstruction
def: "A process that transforms raw magnetic resonance image data from an NMR/MRI machine into a reconstructed magnetic resonance image data set." []
is_a: OBI:0003355 ! image data set analysis

[Term]
id: OBI:0003357
name: brain region atlas image data set
def: "An image data set consisting of values computed from multiple image data sets encoded to represent the spatial location of individual functional or structural regions of a canonical brain." []
is_a: OBI:0003333 ! computed image data set

[Term]
id: OBI:0003358
name: probabilistic brain region atlas image dataset
def: "A brain atlas consisting of weighted values that respresent the probability that a voxel X is part of some brain component Y, typically derived from multiple image data sets." []
is_a: OBI:0003357 ! brain region atlas image data set

[Term]
id: OBI:0003359
name: deterministic brain region atlas image data set
def: "A brain atlas consisting of discrete integer values where a value X denotes a voxel is part of some brain component Y." []
is_a: OBI:0003357 ! brain region atlas image data set

[Term]
id: OBI:0003360
name: image segmentation map
def: "An image data set of integer values in which each value corresponds to some shared characteristic or computed property. The values often belong to a group of pixels or voxels that share the same characteristic, such as a tissue type or anatomical region." []
is_a: OBI:0003333 ! computed image data set

[Term]
id: OBI:0003361
name: lesion mask
def: "An image data set where voxel intensity values greater than zero encode the location of some brain lesion and voxels outside the lesion have an intensity value of zero." []
is_a: OBI:0003360 ! image segmentation map

[Term]
id: OBI:0003362
name: T1 lesion mask
def: "A lesion mask where the lesions are derived from a T1 weighted image data set." []
is_a: OBI:0003361 ! lesion mask

[Term]
id: OBI:0003363
name: T2 FLAIR lesion mask
def: "A lesion mask where the lesions are derived from a T2 FLAIR image data set." []
is_a: OBI:0003361 ! lesion mask

[Term]
id: OBI:0003365
name: milk assay datum
def: "A data entity that is the specified output of a milk assay." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0003366
name: organism diagnostic process
def: "A drawing a conclusion based on data that involves the interpretation of data about a given organism (human, animal, or plant) and the assertion to the effect that the organism has or had a disease, disorder, or syndrome of a certain type, or none of these as output." []
is_a: OBI:0000338 ! drawing a conclusion based on data

[Term]
id: OBI:0003367
name: diagnosis of an organism
def: "A conclusion based on data about that an organism has a disease, disorder, or syndrome of a certain type, or none of these." []
is_a: OBI:0001909 ! conclusion based on data

[Term]
id: OBI:0003368
name: detection technique
def: "An assay (A) that is part of another assay (B), where the target entities of A and B are disjoint, and the target entity of A is a proxy for the target of assay B." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003369
name: assay kit
def: "A device that consists of reagents and devices that enable the performance of a specific type of assay, which could, in addition, require specific instruments not included in the kit." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0003371
name: epitope specific XCL1 release by T cells
def: "A biological process where T cells produce XCL1 resulting from the recognition of a T cell epitope." []
is_a: GO:0140779 ! XCL1 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:0003372
name: assay measuring epitope specific lymphotactin production by T cells
def: "A T cell epitope specific cytokine production assay that detects lymphotactin production by T cells." []
synonym: "lymphotactin release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0003373
name: ELISA measuring epitope specific lymphotactin production by T cells
def: "An enzyme-linked immunosorbent assay that detects lymphotactin production by T cells." []
synonym: "lymphotactin release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0003372 ! assay measuring epitope specific lymphotactin production by T cells

[Term]
id: OBI:0003374
name: remote patient assessment
def: "An organism diagnostic process which involves a remote assessment of a patient by a clinician." []
synonym: "telehealth patient assessment" EXACT []
is_a: OBI:0003366 ! organism diagnostic process

[Term]
id: OBI:0003380
name: placental blood specimen
def: "A specimen that is derived from placental blood." []
is_a: OBI:0000655 ! blood specimen

[Term]
id: OBI:0003381
name: placental blood microbiology assay
def: "A blood microbiology assay that detects microorganisms in a placental blood specimen." []
is_a: OBI:0002649 ! blood microbiology assay

[Term]
id: OBI:0003382
name: placental blood microbiology datum
def: "An organism detection datum that is the specified output of a placental blood microbiology assay." []
is_a: OBI:0003244 ! blood microbiology datum

[Term]
id: OBI:0003383
name: eukaryota in placental blood datum
def: "A placental blood microbiology datum that is about eukaryota." []
is_a: OBI:0003263 ! eukaryota in blood datum
is_a: OBI:0003382 ! placental blood microbiology datum

[Term]
id: OBI:0003384
name: synaptosome preparation process
def: "A material component separation process where a synaptic terminal is isolated from a neuron by mild homogenization of nervous tissue under isotonic conditions and subsequent fractionation using differential and density gradient centrifugation." []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0003386
name: Illumina HiSeq 1500
def: "A DNA sequencer which is manufactured by the Illumina corporation, with a single flow cell. Built upon sequencing by synthesis technology, the machine employs dual surface imaging and offers two high-output options and one rapid-run option." []
synonym: "HiSeq 1500" EXACT []
is_a: OBI:0003683 ! Illumina HiSeq series instrument

[Term]
id: OBI:0003387
name: Illumina NextSeq 550
def: "A DNA sequencer manufactured by the Illumina corporation, which provides the increased flexibility of microarray scanning in addition to sequencing." []
is_a: OBI:0003684 ! Illumina NextSeq series instrument

[Term]
id: OBI:0003388
name: Agilent-026655 Whole Mouse Genome Microarray 4x44K v2
def: "A DNA microarray manufactured with Agilent 60-mer SurePrint Technology .The SurePrint G3 Mouse Gene Expression 4x44K v2 Microarray provide full coverage of the mouse transcriptome using the latest annotation databases, including long non-coding RNA(lncRNA). Each glass slide is formatted with four high-definition 44K arrays." []
is_a: OBI:0400148 ! DNA microarray

[Term]
id: OBI:0003389
name: Agilent-030493 SurePrint G3 Mouse Exon 4x180K Microarray
def: "A DNA microarray manufactured with Agilent 60-mer SurePrint Technology for studying exon-level gene expression changes. The SurePrint G3 Mouse Exon 4x180K Microarray include probes targeting individual exons. Each glass slide formatted with four 180K arrays." []
is_a: OBI:0400148 ! DNA microarray

[Term]
id: OBI:0003390
name: Agilent-074809 SurePrint G3 Mouse GE v2 8x60K Microarray
def: "A DNA microarray manufactured with Agilent 60-mer SurePrint technology which provides comprehensive coverage of genes and transcripts using the latest annotation databases. The SurePrint G3 Mouse Gene Expression 8x60K v2 Microarray features complete coverage of established RefSeq coding transcripts (NM) from the latest build and updated long non-coding RNA (lncRNA) content to ensure relevant research.Each glass slide formatted with eight high-definition 60K arrays." []
is_a: OBI:0400148 ! DNA microarray

[Term]
id: OBI:0003391
name: Affymetrix Mouse Genome 430 2.0 Array
def: "A DNA microarray manufactured by Affymetrix, which includes complete coverage of the GeneChip Mouse Expression Set 430, for analysis of over 39,000 transcripts and variants from more than 34,000 well-characterized mouse genes and UniGene clusters, on a single array. The sequences for this array were selected from GenBank™, dbEST, and RefSeq., and sequence clusters cretaed from the UniGene database." []
synonym: "GeneChip Mouse Genome 430 2.0 Array" EXACT []
is_a: OBI:0400148 ! DNA microarray

[Term]
id: OBI:0003392
name: Affymetrix Mouse Genome 430A 2.0 Array
def: "A DNA microarray manufactured by Affymetrix for gene expression analysis focusing on approximately 14,000 well-characterized genes in the transcribed mouse genome using single-array cartridge. Sequences used in the design of the array were selected from GenBank™, dbEST, and RefSeq. The sequence clusters were created from the UniGene database." []
synonym: "GeneChip Mouse Genome 430A 2.0 Array" EXACT []
is_a: OBI:0400148 ! DNA microarray

[Term]
id: OBI:0003393
name: Affymetrix Mouse Gene 1.0 ST Array
def: "A DNA microarray manufactured by Affymetrix, which is a whole-transcript array that includes probes to measure both messenger (mRNA) and long intergenic non-coding RNA transcripts (lincRNA). This whole-transcript array design provides a complete expression profile of mRNA as well as the intermediary lincRNA transcripts that impact the mRNA expression profile." []
synonym: "GeneChip Mouse Gene 1.0 ST Array" EXACT []
is_a: OBI:0400148 ! DNA microarray

[Term]
id: OBI:0003394
name: Affymetrix Mouse Gene 2.1 ST Array
def: "A DNA microarray manufactured by Affymetrix, which is a whole-transcript array that includes probes to measure both messenger (mRNA) and long intergenic non-coding RNA transcripts (lincRNA).To supplement the lincRNA data contained in RefSeq, we used sequence and transcript data from lncRNA db." []
synonym: "GeneChip Mouse Gene 2.1 ST Array" EXACT []
is_a: OBI:0400148 ! DNA microarray

[Term]
id: OBI:0003395
name: Affymetrix Rhesus Macaque Genome Array
def: "A DNA microarray manufactured by Affymetrix,which is a single-labeled high-density oligonucleotide array, designed to study gene expression in the rhesus animal model and to interrogate rhesus transcripts orthologous to the 3' end of human transcripts. The array consists of over 52,000 probe sets representing more than 20,000 genes, and several relevant viral organisms for studying host-disease immune response." []
synonym: "GeneChip Rhesus Macaque Genome Array" EXACT []
is_a: OBI:0400148 ! DNA microarray

[Term]
id: OBI:0003396
name: Affymetrix Human Transcriptome Array 2.0
def: "A DNA microarray manufactured by Affymetrix, to go beyond gene-level expression profiling to accurately detect all known transcript isoforms produced by a gene. The array design covers >245,000 coding transcripts, >40,000 non-coding transcripts and >339,000 probe sets covering exon-exon junctions, thus ensuring uniform coverage of the transcriptome." []
synonym: "GeneChip Human Transcriptome Array 2.0" EXACT []
is_a: OBI:0400148 ! DNA microarray

[Term]
id: OBI:0003397
name: Affymetrix Human Genome U219 Array
def: "A DNA microarray manufactured by Affymetrix, which comprises more than 530,000 probes covering more than 36,000 transcripts and variants, which represent more than 20,000 genes mapped through RefSeq or via UniGene annotation. Sequences used in the design of the array were selected from the RefSeq version 36, UniGene database 219, and full-length human mRNAs from GenBank™." []
synonym: "Applied Biosystems GeneChip PrimeView Human Gene Expression Array" EXACT []
is_a: OBI:0400148 ! DNA microarray

[Term]
id: OBI:0003398
name: Affymetrix Human Gene 2.0 ST Array
def: "A DNA microarray manufactured by Affymetrix, which provides the most accurate, sensitive, and comprehensive measurement of protein coding (mRNA) and long intergenic non-coding RNA (lincRNA) transcripts. The array design covers >33,500 coding transcripts and >11,000 lincRNA transcripts thus enabling researchers to understand whole-transcriptome gene expression at the gene and exon levels, which allows the study of transcript variants and alternative splicing events." []
synonym: "GeneChip Human Gene 2.0 ST Array" EXACT []
is_a: OBI:0400148 ! DNA microarray

[Term]
id: OBI:0003399
name: Affymetrix Clariom S Assay, Human
def: "A DNA microarray manufactured by Affymetrix, to obtain a gene-level view of the human transcriptome. The assay design covers >20,000 well-annotated genes, providing researchers with the ability to perform gene-level expression profiling studies, to identify expression biomarkers , and to quickly assess changes in key genes and pathways." []
is_a: OBI:0400148 ! DNA microarray

[Term]
id: OBI:0003400
name: Affymetrix Clariom S Assay, Mouse
def: "A DNA microarray manufactured by Affymetrix, to obtain a gene-level view of the mouse transcriptome. The assay design covers >20,000 well-annotated genes, providing researchers with the ability to perform gene-level expression profiling studies, to identify expression biomarkers, and to quickly assess changes in key genes and pathways." []
is_a: OBI:0400148 ! DNA microarray

[Term]
id: OBI:0003401
name: Illumina HumanHT-12 V4.0 expression beadchip
def: "An Illumina BeadChip which employs direct-hybridization assay, for whole-genome expression profiling and expression-based quantitative trait loci (eQTL) studies. This BeadChip contains 12 arrays, each featuring more than 48,000 probes, targeting more than 31,000 annotated genes, providing genome-wide coverage of well-characterized genes, gene candidates, and splice variants." []
is_a: OBI:0001869 ! Illumina BeadChip

[Term]
id: OBI:0003402
name: Illumina MouseRef-8 v2.0 beadchip
def: "An Illumina BeadChip which employs direct-hybridization assay, for whole-genome expression profiling in the mouse.This Beadchip contains 8 microarrays, featuring more than 25,000 probes per array, derived from the NCBI RefSeq database and supplemented with MEEBO and RIKEN FANTOM2 content." []
is_a: OBI:0001869 ! Illumina BeadChip

[Term]
id: OBI:0003403
name: Affymetrix Mouse Exon Junction Array
def: "A DNA microarray manufactured by Affymetrix, used to identify exon-exon junctions associated with alternate splice variants in the mouse transcriptome." []
is_a: OBI:0400148 ! DNA microarray

[Term]
id: OBI:0003404
name: Affymetrix Human Exon Junction Array
def: "A DNA microarray manufactured by Affymetrix, used to identify exon-exon junctions associated with alternate splice variants in the human transcriptome." []
is_a: OBI:0400148 ! DNA microarray

[Term]
id: OBI:0003412
name: linked-read sequencing assay
def: "A DNA sequencing assay that uses microfluidics to partition and barcode high molecular weight DNA such that short reads derived from fragments of the large piece of DNA can be assembled within the context of the high molecular weight piece of DNA they are derived from, facilitating the use of short read data to sequence and assemble large genomes." []
is_a: OBI:0000626 ! DNA sequencing assay

[Term]
id: OBI:0003413
name: administering substance in vivo to cause disease
def: "An administration of substance in vivo with the intention to induce disease in the organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003414
name: administering substance in vivo to reduce or prevent disease
def: "An administration of substance in vivo with the intention to reduce the symptoms of or prevent development of a disease in the organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003415
name: peripheral blood mononuclear cell specimen
def: "A processed specimen that is extracted from whole blood using gradient centrifugation that separates the blood into a layer of peripheral blood mononuclear cells under the top layer of plasma. It contains lymphocytes, monocytes or macrophages that are critical components in the immune system." []
synonym: "PBMC specimen" EXACT []
is_a: OBI:0000655 ! blood specimen

[Term]
id: OBI:0003416
name: mid-upper arm circumference datum
def: "A length measurement datum that is the specified output of an assay measuring the length around an upper arm, taken midway along the upper arm." []
is_a: IAO:0000408 ! length measurement datum

[Term]
id: OBI:0003417
name: antigen specific antibodies assay datum
def: "A data entity that is the specified output of an antigen specific antibodies assay." []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0003418
name: antigen specific antibodies in blood assay
def: "An antigen specific antibodies assay that has a blood specimen as evaluant." []
is_a: OBI:0002145 ! antigen specific antibodies assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:0003419
name: antigen specific antibodies in milk assay
def: "An antigen specific antibodies assay that has a milk specimen as evaluant." []
is_a: OBI:0002145 ! antigen specific antibodies assay
is_a: OBI:0003236 ! milk assay

[Term]
id: OBI:0003420
name: antigen specific antibodies in blood assay datum
def: "An antigen specific antibodies assay datum that is the specified output of an antigen specific antibodies in blood assay." []
is_a: OBI:0003243 ! blood assay datum
is_a: OBI:0003417 ! antigen specific antibodies assay datum

[Term]
id: OBI:0003421
name: antigen specific antibodies in milk assay datum
def: "An antigen specific antibodies assay datum that is the specified output of an antigen specific antibodies in milk assay." []
is_a: OBI:0003365 ! milk assay datum
is_a: OBI:0003417 ! antigen specific antibodies assay datum

[Term]
id: OBI:0003422
name: enzymatic activity level assay
def: "An assay in which the level of catalytic activity of an enzyme is determined." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003423
name: 5'-nucleotidase activity level assay
def: "An enzymatic activity level assay that measures the activity of 5'-nucleotidase in a sample." []
is_a: OBI:0003422 ! enzymatic activity level assay

[Term]
id: OBI:0003424
name: alanine aminotransferase activity level assay
def: "An enzymatic activity level assay that measures the activity of alanine aminotransferase in a sample." []
is_a: OBI:0003422 ! enzymatic activity level assay

[Term]
id: OBI:0003425
name: alkaline phosphatase activity level assay
def: "An enzymatic activity level assay that measures the activity of alkaline phosphatase in a sample." []
is_a: OBI:0003422 ! enzymatic activity level assay

[Term]
id: OBI:0003426
name: amylase activity level assay
def: "An enzymatic activity level assay that measures the activity of amylase in a sample." []
is_a: OBI:0003422 ! enzymatic activity level assay

[Term]
id: OBI:0003427
name: aspartate aminotransferase activity level assay
def: "An enzymatic activity level assay that measures the activity of aspartate aminotransferase in a sample." []
is_a: OBI:0003422 ! enzymatic activity level assay

[Term]
id: OBI:0003428
name: cholinesterase activity level assay
def: "An enzymatic activity level assay that measures the activity of cholinesterase in a sample." []
is_a: OBI:0003422 ! enzymatic activity level assay

[Term]
id: OBI:0003429
name: creatine kinase activity level assay
def: "An enzymatic activity level assay that measures the activity of creatine kinase in a sample." []
is_a: OBI:0003422 ! enzymatic activity level assay

[Term]
id: OBI:0003430
name: gamma-glutamyltransferase activity level assay
def: "An enzymatic activity level assay that measures the activity of gamma-glutamyltransferase in a sample." []
is_a: OBI:0003422 ! enzymatic activity level assay

[Term]
id: OBI:0003431
name: glutamate dehydrogenase activity level assay
def: "An enzymatic activity level assay that measures the activity of glutamate dehydrogenase in a sample." []
is_a: OBI:0003422 ! enzymatic activity level assay

[Term]
id: OBI:0003432
name: isocitrate dehydrogenase activity level assay
def: "An enzymatic activity level assay that measures the activity of isocitrate dehydrogenase in a sample." []
is_a: OBI:0003422 ! enzymatic activity level assay

[Term]
id: OBI:0003433
name: lactate dehydrogenase activity level assay
def: "An enzymatic activity level assay that measures the activity of lactate dehydrogenase in a sample." []
is_a: OBI:0003422 ! enzymatic activity level assay

[Term]
id: OBI:0003434
name: sorbitol dehydrogenase activity level assay
def: "An enzymatic activity level assay that measures the activity of sorbitol dehydrogenase in a sample." []
is_a: OBI:0003422 ! enzymatic activity level assay

[Term]
id: OBI:0003435
name: acyl-CoA oxidase activity level assay
def: "An enzymatic activity level assay that measures the activity of Acyl-CoA oxidase in a sample." []
is_a: OBI:0003422 ! enzymatic activity level assay

[Term]
id: OBI:0003436
name: N-acetyl-beta-glucosaminidase activity level assay
def: "An enzymatic activity level assay that measures the activity of N-acetyl-beta-glucosaminidase in a sample." []
is_a: OBI:0003422 ! enzymatic activity level assay

[Term]
id: OBI:0003437
name: ribonuclease activity level assay
def: "An enzymatic activity level assay that measures the activity of ribonuclease in a sample." []
is_a: OBI:0003422 ! enzymatic activity level assay

[Term]
id: OBI:0003438
name: galactosidase activity level assay
def: "An enzymatic activity level assay that measures the activity of galactosidase in a sample." []
is_a: OBI:0003422 ! enzymatic activity level assay

[Term]
id: OBI:0003454
name: Mosquito Magnet Liberty Plus trap
def: "An arthropod trap that is designed to emit a combination of carbon dioxide, heat, water, and oct-1-en-3-ol attractants while simultaneously using suction to trap arthropods. This trap has the same design as the Mosquito Magnet Pro trap but is smaller, is more lightweight, and uses a main line electricity supply instead of propane to power itself. Both use propane to produce the arthropod attractor." []
is_a: OBI:0002920 ! arthropod trap

[Term]
id: OBI:0003455
name: tumor challenge
def: "The administration of a malignant cell to a host." []
is_a: OBI:0003456 ! in vivo challenge

[Term]
id: OBI:0003456
name: in vivo challenge
def: "The administration of a challenge to a live host." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003457
name: epitope protection from infectious challenge experiment based on survival
def: "An epitope protection from infectious challenge experiment that determines the success of the epitope intervention based on increased survival of the host compared to controls." []
synonym: "survival after infectious challenge" EXACT []
is_a: OBI:0001179 ! epitope protection from infectious challenge experiment

[Term]
id: OBI:0003458
name: epitope protection from tumor challenge experiment based on burden
def: "An epitope protection from tumor challenge experiment in which the readout is a reduction in the presence of malignant cells in the host compared to controls." []
synonym: "burden after tumor challenge" EXACT []
is_a: OBI:0001183 ! epitope protection from tumor challenge experiment

[Term]
id: OBI:0003459
name: epitope protection from tumor challenge experiment based on survival
def: "An epitope protection from tumor challenge experiment that determines the success of the epitope intervention based on increased survival of the host compared to controls." []
synonym: "survival after tumor challenge" EXACT []
is_a: OBI:0001183 ! epitope protection from tumor challenge experiment

[Term]
id: OBI:0003460
name: in vivo assay measuring T cell epitope specific protection from pathogen challenge
def: "An in vivo assay measuring T cell epitope specific protection from pathogen challenge." []
synonym: "protection from pathogen challenge|in vivo assay" EXACT []
is_a: OBI:0001179 ! epitope protection from infectious challenge experiment
is_a: OBI:0002073 ! in vivo assay measuring T cell epitope specific protection from challenge

[Term]
id: OBI:0003461
name: in vivo assay measuring T cell epitope specific protection from tumor challenge
def: "An in vivo assay measuring T cell epitope specific protection from tumor challenge." []
synonym: "protection from tumor challenge|in vivo assay" EXACT []
is_a: OBI:0001183 ! epitope protection from tumor challenge experiment
is_a: OBI:0002073 ! in vivo assay measuring T cell epitope specific protection from challenge

[Term]
id: OBI:0003462
name: in vivo assay measuring T cell epitope specific protection from other challenge
def: "An in vivo assay measuring T cell epitope specific protection from a challenge other than pathogen, infection, or tumor." []
synonym: "protection from other challenge|in vivo assay" EXACT []
is_a: OBI:0002073 ! in vivo assay measuring T cell epitope specific protection from challenge

[Term]
id: OBI:0003463
name: in vivo assay measuring T cell epitope specific survival after tumor challenge
def: "An in vivo assay measuring T cell epitope specific protection from tumor challenge using survival." []
synonym: "survival from tumor challenge|in vivo assay" EXACT []
is_a: OBI:0003459 ! epitope protection from tumor challenge experiment based on survival
is_a: OBI:0003461 ! in vivo assay measuring T cell epitope specific protection from tumor challenge

[Term]
id: OBI:0003464
name: in vivo assay measuring T cell epitope specific survival after pathogen challenge
def: "An in vivo assay measuring T cell epitope specific protection from pathogen challenge using survival." []
synonym: "survival from pathogen challenge|in vivo assay" EXACT []
is_a: OBI:0003457 ! epitope protection from infectious challenge experiment based on survival
is_a: OBI:0003460 ! in vivo assay measuring T cell epitope specific protection from pathogen challenge

[Term]
id: OBI:0003465
name: in vivo assay measuring B cell epitope specific protection from pathogen challenge
def: "An in vivo assay measuring B cell epitope specific protection from pathogen challenge." []
synonym: "protection from pathogen challenge|in vivo assay" EXACT []
is_a: OBI:0001179 ! epitope protection from infectious challenge experiment
is_a: OBI:0001710 ! in vivo assay measuring B cell epitope specific protection from challenge

[Term]
id: OBI:0003466
name: in vivo assay measuring B cell epitope specific protection from tumor challenge
def: "An in vivo assay measuring B cell epitope specific protection from tumor challenge." []
synonym: "protection from tumor challenge|in vivo assay" EXACT []
is_a: OBI:0001183 ! epitope protection from tumor challenge experiment
is_a: OBI:0001710 ! in vivo assay measuring B cell epitope specific protection from challenge

[Term]
id: OBI:0003467
name: in vivo assay measuring B cell epitope specific protection from other challenge
def: "An in vivo assay measuring B cell epitope specific protection from a challenge other than pathogen, infection, or tumor." []
synonym: "protection from other challenge|in vivo assay" EXACT []
is_a: OBI:0001710 ! in vivo assay measuring B cell epitope specific protection from challenge

[Term]
id: OBI:0003468
name: in vivo assay measuring B cell epitope specific survival after pathogen challenge
def: "An in vivo assay measuring B cell epitope specific protection from pathogen challenge using survival." []
synonym: "survival from pathogen challenge|in vivo assay" EXACT []
is_a: OBI:0003457 ! epitope protection from infectious challenge experiment based on survival
is_a: OBI:0003465 ! in vivo assay measuring B cell epitope specific protection from pathogen challenge

[Term]
id: OBI:0003469
name: in vivo assay measuring B cell epitope specific survival after tumor challenge
def: "An in vivo assay measuring B cell epitope specific protection from tumor challenge using survival." []
synonym: "survival from tumor challenge|in vivo assay" EXACT []
is_a: OBI:0003459 ! epitope protection from tumor challenge experiment based on survival
is_a: OBI:0003466 ! in vivo assay measuring B cell epitope specific protection from tumor challenge

[Term]
id: OBI:0003470
name: in vivo assay measuring T cell epitope specific protection from pathogen challenge resulting from the adoptive transfer of epitope specific T cells
def: "An in vivo assay measuring a T cell epitope specific protection from a pathogen challenge after adoptive transfer of epitope specific antibodies or B cells." []
synonym: "protection from pathogen challenge after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001179 ! epitope protection from infectious challenge experiment
is_a: OBI:0002637 ! in vivo assay measuring T cell epitope specific protection from challenge resulting from the adoptive transfer of epitope specific T cells

[Term]
id: OBI:0003471
name: in vivo assay measuring T cell epitope specific pathogen protection from challenge resulting from the adoptive transfer of epitope specific T cells based on survival
def: "An in vivo assay measuring T cell epitope specific protection from pathogen challenge resulting from the adoptive transfer of epitope specific T cells using survival." []
synonym: "survival after pathogen challenge after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0003464 ! in vivo assay measuring T cell epitope specific survival after pathogen challenge
is_a: OBI:0003470 ! in vivo assay measuring T cell epitope specific protection from pathogen challenge resulting from the adoptive transfer of epitope specific T cells

[Term]
id: OBI:0003472
name: in vivo assay measuring T cell epitope specific protection from tumor challenge resulting from the adoptive transfer of epitope specific T cells
def: "An in vivo assay measuring a T cell epitope specific protection from a tumor challenge after adoptive transfer of epitope specific T cells." []
synonym: "protection from tumor challenge after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001183 ! epitope protection from tumor challenge experiment
is_a: OBI:0002637 ! in vivo assay measuring T cell epitope specific protection from challenge resulting from the adoptive transfer of epitope specific T cells

[Term]
id: OBI:0003473
name: in vivo assay measuring T cell epitope specific protection from tumor challenge resulting from the adoptive transfer of epitope specific T cells based on survival
def: "An in vivo assay measuring T cell epitope specific protection from tumor challenge resulting from the adoptive transfer of epitope specific T cells using survival." []
synonym: "survival after tumor challenge after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0003463 ! in vivo assay measuring T cell epitope specific survival after tumor challenge
is_a: OBI:0003472 ! in vivo assay measuring T cell epitope specific protection from tumor challenge resulting from the adoptive transfer of epitope specific T cells

[Term]
id: OBI:0003474
name: in vivo assay measuring T cell epitope specific protection from other challenge resulting from the adoptive transfer of epitope specific T cells
def: "An in vivo assay measuring a T cell epitope specific protection from other challenge after adoptive transfer of epitope specific T cells." []
synonym: "protection from other challenge after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0002637 ! in vivo assay measuring T cell epitope specific protection from challenge resulting from the adoptive transfer of epitope specific T cells

[Term]
id: OBI:0003475
name: in vivo assay measuring B cell epitope specific protection from pathogen challenge resulting from the adoptive transfer of epitope specific antibodies or B cells
def: "An in vivo assay measuring a B cell epitope specific protection from a pathogen challenge after adoptive transfer of epitope specific antibodies or B cells." []
synonym: "protection from pathogen challenge after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001179 ! epitope protection from infectious challenge experiment
is_a: OBI:0002638 ! in vivo assay measuring B cell epitope specific protection from challenge resulting from adoptive transfer of epitope specific antibodies or B cells

[Term]
id: OBI:0003476
name: in vivo assay measuring B cell epitope specific pathogen protection from challenge resulting from the adoptive transfer of epitope specific antibodies or B cells based on survival
def: "An in vivo assay measuring B cell epitope specific protection from pathogen challenge resulting from the adoptive transfer of epitope specific antibodies or B cells using survival." []
synonym: "survival after pathogen challenge after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0003468 ! in vivo assay measuring B cell epitope specific survival after pathogen challenge
is_a: OBI:0003475 ! in vivo assay measuring B cell epitope specific protection from pathogen challenge resulting from the adoptive transfer of epitope specific antibodies or B cells

[Term]
id: OBI:0003477
name: in vivo assay measuring B cell epitope specific protection from tumor challenge resulting from the adoptive transfer of epitope specific antibodies or B cells
def: "An in vivo assay measuring a B cell epitope specific protection from a tumor challenge after adoptive transfer of epitope specific antibodies or B cells." []
synonym: "protection from tumor challenge after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0001183 ! epitope protection from tumor challenge experiment
is_a: OBI:0002638 ! in vivo assay measuring B cell epitope specific protection from challenge resulting from adoptive transfer of epitope specific antibodies or B cells

[Term]
id: OBI:0003478
name: in vivo assay measuring B cell epitope specific protection from tumor challenge resulting from the adoptive transfer of epitope specific antibodies or B cells based on survival
def: "An in vivo assay measuring B cell epitope specific protection from tumor challenge resulting from the adoptive transfer of epitope specific antibodies or B cells using survival." []
synonym: "survival after tumor challenge after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0003469 ! in vivo assay measuring B cell epitope specific survival after tumor challenge
is_a: OBI:0003477 ! in vivo assay measuring B cell epitope specific protection from tumor challenge resulting from the adoptive transfer of epitope specific antibodies or B cells

[Term]
id: OBI:0003479
name: in vivo assay measuring B cell epitope specific protection from other challenge resulting from the adoptive transfer of epitope specific antibodies or B cells
def: "An in vivo assay measuring a B cell epitope specific protection from other challenge after adoptive transfer of epitope specific antibodies or B cells." []
synonym: "protection from other challenge after adoptive transfer|in vivo assay" EXACT []
is_a: OBI:0002638 ! in vivo assay measuring B cell epitope specific protection from challenge resulting from adoptive transfer of epitope specific antibodies or B cells

[Term]
id: OBI:0003480
name: Gram stain assay
def: "An organism detection assay that identifies bacteria based on the differential retention of a crystal violet-iodine complex within the cell wall." []
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0003481
name: cow-baited arthropod trap
def: "A resting arthropod trap that consists of a tent inside which an adult cow is tethered to the ground, in order to attract arthropods and collect those that rest on the interior walls of the tent." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0003482
name: lymph specimen
def: "A specimen that is derived from a portion of lymph collected from an organism." []
is_a: OBI:2000009 ! bodily fluid specimen

[Term]
id: OBI:0003483
name: digestive tract specimen
def: "A specimen that is derived from part of a digestive tract." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0003484
name: assay measuring epitope specific interleukin-25 production by T cells
def: "A T cell epitope specific cytokine production assay that detects interleukin-25 production by T cells." []
synonym: "IL-25 release|biological activity" EXACT []
is_a: OBI:1110129 ! assay measuring epitope specific cytokine production by T cells

[Term]
id: OBI:0003485
name: detection of specific nucleic acids with complementary probes assay measuring epitope specific interleukin-25 production by T cells
def: "A detection of specific nucleic acid polymers with complementary probes that detects interleukin-25 production by T cells." []
synonym: "IL-25 release|RNA/DNA detection" EXACT []
is_a: OBI:0000874 ! detection of specific nucleic acid polymers with complementary probes
is_a: OBI:0003484 ! assay measuring epitope specific interleukin-25 production by T cells

[Term]
id: OBI:0003486
name: intracellular cytokine staining assay measuring epitope specific interleukin-25 production by T cells
def: "A flow cytometry assay that detects interleukin-25 production by T cells." []
synonym: "IL-25 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0003484 ! assay measuring epitope specific interleukin-25 production by T cells

[Term]
id: OBI:0003487
name: ELISA measuring epitope specific interleukin-25 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-25 production by T cells." []
synonym: "IL-25 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0003484 ! assay measuring epitope specific interleukin-25 production by T cells

[Term]
id: OBI:0003488
name: cell culture analyte detection bioassay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells
def: "A reporter cell line analyte detection bioassay that detects tumor necrosis factor superfamily cytokine production by T cells." []
synonym: "TNF release|bioassay" EXACT []
is_a: OBI:0000904 ! reporter cell line analyte detection bioassay
is_a: OBI:0001400 ! assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells

[Term]
id: OBI:0003489
name: Scrub Typhus Detect IgM ELISA kit
def: "An assay kit that is manufactured by InBios International to use ELISA to test for IgM antibodies for Orientia tsutsugamushi strains Karp, Kato, Gilliam, and TA 716, with a protein microarray that has a 96-well plate and the 56-kDa type-specific antigen." []
is_a: OBI:0003369 ! assay kit

[Term]
id: OBI:0003490
name: Panbio Dengue IgM capture ELISA kit
def: "An assay kit that is manufactured by Abbott to test for IgM antibodies for Dengue with a two-plate protein microarray. One plate contains stabilized Dengue viruses 1 through 4, and the other plate contains anti-human IgM antibody." []
is_a: OBI:0003369 ! assay kit

[Term]
id: OBI:0003491
name: Panbio Dengue Early ELISA kit
def: "An assay kit that is manufactured by Abbott to detect the NS1 Dengue viral protein with a protein microarray and an anti-NS1 monoclonal antibody." []
is_a: OBI:0003369 ! assay kit

[Term]
id: OBI:0003492
name: SD Bioline Chikungunya IgM RDT kit
def: "A device manufactured by Abbott for rapid detection of human IgM antibodies for Chikungunya virus in blood, using analytical chromatography." []
is_a: OBI:0003369 ! assay kit

[Term]
id: OBI:0003493
name: SD Bioline Chikungunya IgM capture ELISA kit
def: "An assay kit that is manufactured by Abbott to detect human IgM antibodies for Chikungunya with a protein microarray and ELISA." []
is_a: OBI:0003369 ! assay kit

[Term]
id: OBI:0003494
name: Advantage Chikungunya IgM Card kit
def: "An assay kit that is manufactured by J. Mitra to detect human IgM antibodies for Chikungunya virus with a protein microarray and double-antigen sandwich ELISA." []
is_a: OBI:0003369 ! assay kit

[Term]
id: OBI:0003498
name: organism detection assay
def: "An assay that detects a type of organism and/or the quantity of individuals of a type of organism." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003501
name: functional assessment of individual
def: "A physical examination of an organism's ability to perform functional activities." []
is_a: OBI:0002441 ! physical examination of an organism

[Term]
id: OBI:0003502
name: facial atrophy assessment
def: "An observational assessment of the loss of facial muscle tissue due to inactivity or disease." []
is_a: OBI:0003536 ! observational assessment of individual

[Term]
id: OBI:0003503
name: tongue atrophy assessment
def: "An observational assessment of the loss of muscle tissue related to tongue movement due to inactivity or disease." []
is_a: OBI:0003536 ! observational assessment of individual

[Term]
id: OBI:0003504
name: forced cough assessment
def: "A functional assessment of an individual's ability to cough forcefully." []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003505
name: speech test assessment
def: "A functional assessment of an individual's ability to understandably repeat spoken sentences." []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003506
name: finger to finger assessment
def: "A functional assessment of an individual's ability to touch index fingers together in front of the sternum without oscillation for a specified duration of time" []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003507
name: nose to finger assessment
def: "A functional assessment of an individual's ability to touch their own nose and then touch an examiners finger in front of them and then touch their own nose once more." []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003508
name: dysmetria assessment
def: "A functional assessment of an individual's ability to accurately touch a moving target with their finger and then touch their own chin a number of times in a row." []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003509
name: rapid alternating hands assessment
def: "A functional assessment of an individual's ability to alternate the forearm between pronation and suppination as quickly as possible during a specified duration of time" []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003510
name: finger taps assessment
def: "A functional assessment of an individual's ability to touch their finger-tip to thumb as many times as possible during a specified duration of time." []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003511
name: heel along shin assessment
def: "A functional assessment of an individual's ability to slide their heel back and forth along their contralateral tibia from the patella to the ankle with the contralateral leg extended." []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003512
name: heel to shin assessment
def: "A functional assessment of an individual's ability to tap their heel to the midpoint of the contralateral shin a number of times." []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003513
name: muscle atrophy assessment
def: "An observational assesment of an individual's muscle tissue loss due to inactivity or disease." []
is_a: OBI:0003536 ! observational assessment of individual

[Term]
id: OBI:0003514
name: muscle weakness assessment
def: "A functional assessment of an individual's ability to perform muscle movement to overcome gravity or physical resistence." []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003515
name: vibratory sense assessment
def: "A functional assessment of an individual's ability to sense vibration." []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003516
name: position sense assessment
def: "A functional assessment of an individual's ability to sense the position of a finger or toe that has been manipulated by minimal random movements." []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003517
name: deep tendon reflex assessment
def: "A functional assessment of an individual's muscle contraction when a muscle is triggered by a signal from a muscle spindle in response to a stimulus applied to a specific trigger point on the body." []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003518
name: limits of stability assessment
def: "The functional assessment of an individual's ability to maintain balance, posture or upright stability." []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003519
name: sitting posture assessment
def: "A limits of stability assessment designed to assess an individual's ability to maintain unsupported posture while sitting over a given time period." []
is_a: OBI:0003518 ! limits of stability assessment

[Term]
id: OBI:0003520
name: stance feet apart assessment
def: "A limits of stability assessment designed to assess an individual's ability to maintain a stable stance with feet 20 cm apart." []
is_a: OBI:0003518 ! limits of stability assessment

[Term]
id: OBI:0003521
name: stance feet apart assessment, with eyes closed
def: "A limits of stability assessment designed to assess an individual's ability to maintain a stable stance with their eyes closed." []
is_a: OBI:0003518 ! limits of stability assessment

[Term]
id: OBI:0003522
name: stance feet together assessment
def: "A limits of stability assessment designed to assess an individual's ability to maintain a stable stance with feet together." []
is_a: OBI:0003518 ! limits of stability assessment

[Term]
id: OBI:0003523
name: stance feet together assessment, with eyes closed
def: "A limits of stability assessment designed to assess an individual's ability to maintain a stable stance with feet together and eyes closed." []
is_a: OBI:0003518 ! limits of stability assessment

[Term]
id: OBI:0003524
name: tandem stance assessment
def: "A limits of stability assessment designed to assess an individual's ability to maintain a stable stance with feet in tandem placement." []
is_a: OBI:0003518 ! limits of stability assessment

[Term]
id: OBI:0003525
name: stance on one foot assessment
def: "A limits of stability assessment designed to assess an individual's ability to maintain a stable stance on one foot." []
is_a: OBI:0003518 ! limits of stability assessment

[Term]
id: OBI:0003526
name: tandem walk assessment
def: "A limits of stability assessment designed to assess an individual's ability to maintain balance while walking in a straight line placing steps in tandem." []
is_a: OBI:0003518 ! limits of stability assessment

[Term]
id: OBI:0003527
name: gait assessment
def: "A limits of stability assessment designed to assess an individual's manner or pattern of walking." []
is_a: OBI:0003518 ! limits of stability assessment

[Term]
id: OBI:0003528
name: bulbar assessment
def: "A functional assessment of an individual's lower cranial nerve function via proxy of facial muscle performance." []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003529
name: spontaneous speech assessment
def: "A functional assessment of an individual's ability to articulate spoken words." []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003530
name: limb coordination assessment
def: "A functional assessment of an individual's ability to coordinate limb movement." []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003531
name: upper limb coordination assessment
def: "A limb coordination assessment designed to assess an individual's ability to coordinate upper limb movement." []
is_a: OBI:0003530 ! limb coordination assessment

[Term]
id: OBI:0003532
name: lower limb coordination assessment
def: "A limb coordination assessment designed to assess an individual's ability to coordinate lower limb movement." []
is_a: OBI:0003530 ! limb coordination assessment

[Term]
id: OBI:0003533
name: nervous system functionality assessment
def: "A functional assesment of an individual's nerve performance. Specifically the nerves connecting the sensory and motor structures with the central nervous system." []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003534
name: upright stability assessment
def: "A functional assessment of an individual's ability to maintain upright body posture." []
is_a: OBI:0003501 ! functional assessment of individual

[Term]
id: OBI:0003535
name: deep tendon reflex assessment of the knee joint
def: "A deep tendon reflex assessment of an individual's reaction to stimulus applied to a knee joint." []
is_a: OBI:0003517 ! deep tendon reflex assessment

[Term]
id: OBI:0003536
name: observational assessment of individual
def: "A physical examination of an organism through visual assesment." []
is_a: OBI:0002441 ! physical examination of an organism

[Term]
id: OBI:0003537
name: deep tendon reflex assessment of the ankle joint
def: "A deep tendon reflex assessment of an individual's reaction to stimulus applied to an ankle joint." []
is_a: OBI:0003517 ! deep tendon reflex assessment

[Term]
id: OBI:0003538
name: deep tendon reflex assessment of the tendon of biceps brachii
def: "A deep tendon reflex assessment of an individual's reaction to stimulus applied to a tendon of biceps brachii." []
is_a: OBI:0003517 ! deep tendon reflex assessment

[Term]
id: OBI:0003539
name: deep tendon reflex assessment of the brachioradialis
def: "A deep tendon reflex assessment of an individual's reaction to stimulus applied to a brachioradialis." []
is_a: OBI:0003517 ! deep tendon reflex assessment

[Term]
id: OBI:0003540
name: tandem mass spectrometry assay
def: "A mass spectrometry assay that uses two or more analyzers separated by a region in which ions can be induced to fragment by transfer of energy (frequently by collision with other molecules)." []
is_a: OBI:0000470 ! mass spectrometry assay

[Term]
id: OBI:0003541
name: ELISA measuring Orientia tsutsugamushi IgM antibody
def: "An enzyme-linked immunosorbent assay that detects the IgM antibody that binds Orientia tsutsugamushi." []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay

[Term]
id: OBI:0003542
name: microarray assay measuring Dengue IgM antibody
def: "A microarray assay that detects the IgM antibody that binds Dengue." []
is_a: OBI:0001985 ! microarray assay

[Term]
id: OBI:0003543
name: microarray assay measuring NS1
def: "A microarray assay that detects NS1." []
is_a: OBI:0001985 ! microarray assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:0003544
name: analytical chromatography measuring Chikungunya IgM antibody
def: "Analytical chromatography that detects the IgM antibody that binds Chikungunya." []
is_a: OBI:0001630 ! analytical chromatography

[Term]
id: OBI:0003545
name: ELISA measuring Chikungunya IgM antibody
def: "An enzyme-linked immunosorbent assay that detects the IgM antibody that binds Chikungunya." []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay

[Term]
id: OBI:0003546
name: microarray ELISA measuring Chikungunya IgM antibody
def: "An enzyme-linked immunosorbent assay that uses a microarray as the solid support and detects the IgM antibody that binds Chikungunya." []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay

[Term]
id: OBI:0003547
name: liquid chromatography
def: "A preparative chromatography in which material components are separated in a liquid solution." []
is_a: OBI:0600046 ! preparative chromatography

[Term]
id: OBI:0003548
name: upper limit of detection
def: "A value specification that specifies the largest concentration/amount of a substance that can be quantified in an analyte assay." []
is_a: OBI:0001933 ! value specification

[Term]
id: OBI:0003549
name: lower limit of detection
def: "A value specification that specifies the smallest concentration/amount of a substance that can be detected in an analyte assay." []
is_a: OBI:0001933 ! value specification

[Term]
id: OBI:0003550
name: odor baited CDC light trap
def: "A CDC light trap that uses odorous gas from a human being as an attractant, by pumping it from the room where the human being sleeps into the trap." []
synonym: "human odour baited light trap" EXACT []
is_a: OBI:0002926 ! Centers for Disease Control and Prevention light trap

[Term]
id: OBI:0003551
name: resting clay pot trap
def: "A resting arthropod trap that consists of a container composed primarily of clay." []
synonym: "resting clay pot catch" EXACT []
is_a: OBI:0002939 ! resting arthropod trap

[Term]
id: OBI:0003552
name: proximity ligation-assisted ChIP-seq
def: "A chromosome conformation capture assay in which proximity ligation is conducted in nuclei prior to chromatin shearing and immunoprecipitation. Immunopreciptation with an antibody that targets a transcription factor or histone modification allows for selection and enrichment of specific genomic regions for investigation of long-range chromosomal interactions." []
synonym: "PLAC-seq" EXACT []
is_a: OBI:0002439 ! chromosome conformation capture assay

[Term]
id: OBI:0003553
name: intragastric administration
def: "An administration of a substance into the stomach of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003554
name: intracolonic administration
def: "An administration of a substance into the colon of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003555
name: vaginal administration
def: "An administration of a substance into the vagina of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003556
name: topical administration
def: "An administration of a substance onto the surface of the skin of an organism." []
synonym: "percutaneous administration" EXACT []
synonym: "transcutaneous administration" EXACT []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003557
name: cervical administration
def: "An administration of a substance to the cervix of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003558
name: conjunctival administration
def: "An administration of a substance to the conjunctiva of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003559
name: intratracheal administration
def: "An administration of a substance into the trachea of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003560
name: intra-amniotic administration
def: "An administration of a substance into the amnion of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003561
name: intra-arterial administration
def: "An administration of a substance into the artery of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003562
name: intracerebral administration
def: "An administration of a substance into the cerebrum of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003563
name: intracranial administration
def: "An administration of a substance into the cranium of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003564
name: intraepidermal administration
def: "An administration of a substance into the epidermis of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003565
name: intralymphatic administration
def: "An administration of a substance into the lymphatic system of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003566
name: lymph node administration
def: "An intralymphatic administration in which the substance is administered into a lymph node." []
is_a: OBI:0003565 ! intralymphatic administration

[Term]
id: OBI:0003567
name: urethral administration
def: "An administration of a substance into the urethra of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003568
name: skin scarification administration
def: "An intraepidermal administration in which the skin is scratched before the substance is administered to the skin." []
is_a: OBI:0003564 ! intraepidermal administration

[Term]
id: OBI:0003569
name: intrauteral administration
def: "An adminstration of a substance into the uterus of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003570
name: intracarotid administration
def: "An intra-arterial administration in which the substance is administered into the carotid artery." []
synonym: "i.c." EXACT []
synonym: "i.c. administration" EXACT []
is_a: OBI:0003561 ! intra-arterial administration

[Term]
id: OBI:0003571
name: intraocular administration
def: "An administration of a substance to the eye of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003572
name: intraplacental administration
def: "An administration of a substance into the placenta of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003573
name: intrarectal administration
def: "An administration of a substance into the rectum of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003574
name: intrasplenic administration
def: "An administration of a substance into the spleen of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003575
name: scratching
def: "A process in which the target material entity is scraped by another material entity." []
synonym: "abrading" EXACT []
is_a: BFO:0000015 ! process

[Term]
id: OBI:0003576
name: skin of body microbiology assay
def: "An organism detection assay that detects microorganisms in a skin of body specimen." []
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0003577
name: skin of body microbiology datum
def: "An organism detection datum that is the specified output of a skin of body microbiology assay." []
is_a: OBI:0003064 ! organism detection datum

[Term]
id: OBI:0003578
name: bone marrow microbiology assay
def: "An organism detection assay that detects microorganisms in a bone marrow specimen." []
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0003579
name: bone marrow microbiology datum
def: "An organism detection datum that is the specified output of a bone marrow microbiology assay." []
is_a: OBI:0003064 ! organism detection datum

[Term]
id: OBI:0003580
name: nasal aspirate microbiology assay
def: "An organism detection assay that detects microorganisms in a nasal aspirate specimen." []
is_a: OBI:0003498 ! organism detection assay

[Term]
id: OBI:0003581
name: nasal aspirate microbiology datum
def: "An organism detection datum that is the specified output of a nasal aspirate microbiology assay." []
is_a: OBI:0003064 ! organism detection datum

[Term]
id: OBI:0003582
name: cell proliferation assay using carboxyfluorescein succinimidyl ester staining
def: "A cell proliferation assay that uses carboxyfluorescein succinimidyl ester staining to detect cell division." []
is_a: OBI:0000891 ! cell proliferation assay
is_a: OBI:0002106 ! carboxyfluorescein succinimidyl ester staining assay

[Term]
id: OBI:0003583
name: cell viability assay
def: "A cytometry assay which measures the number of living cells in a population." []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003584
name: cell viability assay using Annexin V staining
def: "A cell viability assay that uses Annexin V staining to detect apoptotic cells." []
is_a: OBI:0003583 ! cell viability assay

[Term]
id: OBI:0003585
name: carboxyfluorescein succinimidyl ester staining
def: "Staining using carboxyfluorescein succinimidyl ester." []
is_a: OBI:0302887 ! staining

[Term]
id: OBI:0003586
name: Annexin V staining
def: "Staining using Annexin V to detect apoptotic cells." []
is_a: OBI:0302887 ! staining

[Term]
id: OBI:0003587
name: cell culture assay
def: "An assay that has cell culture as an input." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003589
name: serum anti-Epstein-Barr virus antibody level assay
def: "An antigen specific antibodies assay that is meant to detect antibodies that bind to Epstein-Barr virus (EBV) antigens in a serum sample." []
synonym: "EBV" EXACT []
is_a: OBI:0002145 ! antigen specific antibodies assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:0003590
name: serum anti-cytomegalovirus antibody level assay
def: "A CMV antibody assay that has serum as an input." []
synonym: "CMV" EXACT []
is_a: OBI:0002154 ! CMV antibody assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:0003591
name: chronic allograft damage index score
def: "A clinical data item that quantifies the degree of tissue damage in biopsies taken from transplanted kidneys." []
synonym: "CADI" EXACT []
is_a: OGMS:0000123 ! clinical data item

[Term]
id: OBI:0003592
name: sequential organ failure assessment score
def: "A clinical data item that quantifies the degree of function of a critically ill patient's organs." []
synonym: "SOFA score" EXACT []
is_a: OGMS:0000123 ! clinical data item

[Term]
id: OBI:0003593
name: physician's global assessment of disease activity
def: "A clinical data item that quantifies a physician's judgement of the overall activity of some specific disease in a patient." []
synonym: "MD global, PGA" EXACT []
is_a: OGMS:0000123 ! clinical data item

[Term]
id: OBI:0003594
name: human leukocyte antigen mismatch count
def: "A genetic characteristics information that is about the number of dissimilarities in the human leukocyte antigen gene complexes of two humans." []
synonym: "HLA mismatch count, HLA mismatch" EXACT []
is_a: OBI:0001404 ! genetic characteristics information

[Term]
id: OBI:0003595
name: nasal lavage fluid
def: "A specimen collected through nasal cavity lavage that contains the reagents used to for the lavage process, organisms, cells, cellular secretions, and other biomaterials present in the nasal cavity space." []
is_a: OBI:0003666 ! lavage fluid specimen

[Term]
id: OBI:0003598
name: single cell B cell receptor repertoire sequencing assay
def: "A B cell receptor repertoire sequencing assay that determines the sequence of DNA or RNA molecules that encode the repertoire of B cell receptors that can be traced to a single cell of origin." []
synonym: "single-cell BCR assay" EXACT []
is_a: OBI:0002991 ! B cell receptor repertoire sequencing assay

[Term]
id: OBI:0003599
name: single cell T cell receptor repertoire sequencing assay
def: "A T cell receptor repertoire sequencing assay that determines the sequence of DNA or RNA molecules that encode the repertoire of T cell receptors that can be traced to a single cell of origin." []
synonym: "single-cell TCR assay" EXACT []
is_a: OBI:0002990 ! T cell receptor repertoire sequencing assay

[Term]
id: OBI:0003600
name: hypertension grade
def: "A categorical value specification that indicates the severity of hypertension." []
is_a: OBI:0001930 ! categorical value specification

[Term]
id: OBI:0003601
name: quartz crystal microbalance assay
def: "An assay that measures the change in frequency of a quartz crystal resonator resulting from the addition or removal of a small mass of a ligand specifically binding at the surface of the resonator." []
synonym: "QCM" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003602
name: quartz crystal microbalance assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex
def: "A quartz crystal microbalance assay that measures the dissociation constant [KD] of an antigen binding with an antibody." []
synonym: "dissociation constant KD|quartz crystal microbalance|nM" EXACT []
synonym: "QCM measuring KD" EXACT []
is_a: OBI:0001708 ! assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex
is_a: OBI:0003601 ! quartz crystal microbalance assay

[Term]
id: OBI:0003603
name: intratumoral administration
def: "An administration of a substance into a tumor of an organism." []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:0003604
name: multiplexed error-robust fluorescence in situ hybridization assay
def: "A fluorescence in-situ hybridization assay that uses combinatorial FISH labeling with error resistant encoding schemes for highly multiplexed single-molecule imaging." []
synonym: "MERFISH" EXACT []
is_a: OBI:0003094 ! fluorescence in-situ hybridization assay

[Term]
id: OBI:0003605
name: single molecule fluorescence in situ hybridization
def: "A fluorescence in-situ hybridization assay that detects single RNA molecules in fixed cells, allowing for both the quantification and localization at the single-cell level and single-molecule resolution." []
synonym: "smFISH" EXACT []
is_a: OBI:0003094 ! fluorescence in-situ hybridization assay

[Term]
id: OBI:0003606
name: Illumina NextSeq 1000
def: "A DNA sequencer which is manufactured by the Illumina corporation using sequence-by-synthesis chemistry that fits on a benchtop and uses P1 and P2 flow cells." []
synonym: "NextSeq 1000" EXACT []
is_a: OBI:0003684 ! Illumina NextSeq series instrument

[Term]
id: OBI:0003607
name: disease causation objective
def: "An objective specification that is fulfilled by causing a disease in a particular organism." []
is_a: IAO:0000005 ! objective specification

[Term]
id: OBI:0003608
name: disease severity reduction objective
def: "An objective specification that is fulfilled by reducing the severity of a disease in a particular organism." []
is_a: IAO:0000005 ! objective specification

[Term]
id: OBI:0003609
name: disease prevention objective
def: "An objective specification that is fulfilled by preventing the development of a disease in a particular organism." []
is_a: IAO:0000005 ! objective specification

[Term]
id: OBI:0003610
name: reactant role
def: "A role borne by a biological or chemical entity that participates or has molecular components that participate in a chemical reaction." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0003611
name: precursor role
def: "A role borne by a biological or chemical entity which serves as the core component of a chemical reaction process, upon which other reactants, like reagents or solvents, act." []
is_a: OBI:0003610 ! reactant role

[Term]
id: OBI:0003612
name: electron microscopy assay determining the 3D structure of a T cell epitope:MHC:TCR complex
def: "An electron-microscopy 3D molecular structure determination assay that characterizes the 3-dimensional molecular structrue of a T cell epitope:MHC:TCR complex." []
synonym: "3D structure|electron microscopy" EXACT []
is_a: OBI:0001999 ! 3D molecular structure determination assay of a T cell epitope:MHC:TCR complex
is_a: OBI:0003118 ! electron-microscopy 3D molecular structure determination assay

[Term]
id: OBI:0003613
name: electron microscopy assay determining the 3D structure of a MHC:ligand complex
def: "An electron-microscopy 3D molecular structure determination assay that characterizes the 3-dimensional molecular structrue of a MHC:ligand complex." []
synonym: "3D structure|electron microscopy" EXACT []
is_a: OBI:0002050 ! 3D molecular structure determination assay of a MHC:ligand complex
is_a: OBI:0003118 ! electron-microscopy 3D molecular structure determination assay

[Term]
id: OBI:0003614
name: disease prevalence reduction objective
def: "An objective specification that is fulfilled by reducing the prevalence of a disease in a population of organisms." []
is_a: IAO:0000005 ! objective specification

[Term]
id: OBI:0003615
name: antibody purification of MHC protein complex
def: "A purification to separate a material entity into different compositions of which one fraction contains a higher concentration of MHC protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0001505 ! purification

[Term]
id: OBI:0003616
name: antibody purification of MHC class I protein complex
def: "An antibody purification of MHC protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of MHC class I protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003615 ! antibody purification of MHC protein complex

[Term]
id: OBI:0003617
name: antibody purification of human MHC class I protein complex
def: "An antibody purification of MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of human MHC class I protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003635 ! antibody purification of pig MHC class I protein complex, cattle MHC class I protein complex, and/or human MHC class I protein complex

[Term]
id: OBI:0003618
name: antibody purification of HLA protein complex with A2 serotype
def: "An antibody purification of human MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of HLA protein complex with A2 serotype, while others contain impurities and are not of interest." []
is_a: OBI:0003620 ! antibody purification of HLA protein complex with A2 serotype and/or HLA protein complex with A28 serotype

[Term]
id: OBI:0003619
name: antibody purification of HLA protein complex with A24 serotype
def: "An antibody purification of human MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of HLA protein complex with A24 serotype, while others contain impurities and are not of interest." []
is_a: OBI:0003617 ! antibody purification of human MHC class I protein complex

[Term]
id: OBI:0003620
name: antibody purification of HLA protein complex with A2 serotype and/or HLA protein complex with A28 serotype
def: "An antibody purification of human MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of HLA protein complex with A2 serotype and/or HLA protein complex with A28 serotype, while others contain impurities and are not of interest." []
is_a: OBI:0003617 ! antibody purification of human MHC class I protein complex

[Term]
id: OBI:0003621
name: antibody purification of HLA protein complex with A29 serotype
def: "An antibody purification of human MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of HLA protein complex with A29 serotype, while others contain impurities and are not of interest." []
is_a: OBI:0003617 ! antibody purification of human MHC class I protein complex

[Term]
id: OBI:0003622
name: antibody purification of HLA protein complex with B27 serotype
def: "An antibody purification of human MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of HLA protein complex with B27 serotype, while others contain impurities and are not of interest." []
is_a: OBI:0003617 ! antibody purification of human MHC class I protein complex

[Term]
id: OBI:0003623
name: antibody purification of HLA-C protein complex
def: "An antibody purification of human MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of HLA-C protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003617 ! antibody purification of human MHC class I protein complex

[Term]
id: OBI:0003624
name: antibody purification of pig MHC class I protein complex
def: "An antibody purification of MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of pig MHC class I protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003635 ! antibody purification of pig MHC class I protein complex, cattle MHC class I protein complex, and/or human MHC class I protein complex

[Term]
id: OBI:0003625
name: antibody purification of cattle MHC class I protein complex
def: "An antibody purification of MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of cattle MHC class I protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003635 ! antibody purification of pig MHC class I protein complex, cattle MHC class I protein complex, and/or human MHC class I protein complex

[Term]
id: OBI:0003626
name: antibody purification of rat MHC class I protein complex
def: "An antibody purification of MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of rat MHC class I protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003616 ! antibody purification of MHC class I protein complex

[Term]
id: OBI:0003627
name: antibody purification of mouse MHC class I protein complex
def: "An antibody purification of MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of mouse MHC class I protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003616 ! antibody purification of MHC class I protein complex

[Term]
id: OBI:0003628
name: antibody purification of H2-Dd protein complex
def: "An antibody purification of mouse MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of H2-Dd protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003632 ! antibody purification of H2-Dd protein complex and/or H2-Kd protein complex

[Term]
id: OBI:0003629
name: antibody purification of H2-Db protein complex
def: "An antibody purification of mouse MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of H2-Db protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003631 ! antibody purification of H2-Ld protein complex, H2-Db protein complex, and/or H2-Dq protein complex
is_a: OBI:0003633 ! antibody purification of mouse MHC class I protein complex with H2-b haplotype and/or mouse MHC protein complex with H2-p haplotype

[Term]
id: OBI:0003630
name: antibody purification of H2-Kd protein complex
def: "An antibody purification of mouse MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of H2-Kd protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003632 ! antibody purification of H2-Dd protein complex and/or H2-Kd protein complex

[Term]
id: OBI:0003631
name: antibody purification of H2-Ld protein complex, H2-Db protein complex, and/or H2-Dq protein complex
def: "An antibody purification of mouse MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of H2-Ld protein complex, H2-Db protein complex, and/or H2-Dq protein complex while others contain impurities and are not of interest." []
is_a: OBI:0003627 ! antibody purification of mouse MHC class I protein complex

[Term]
id: OBI:0003632
name: antibody purification of H2-Dd protein complex and/or H2-Kd protein complex
def: "An antibody purification of mouse MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of H2-Dd protein complex and/or H2-Kd protein complex while others contain impurities and are not of interest." []
is_a: OBI:0003627 ! antibody purification of mouse MHC class I protein complex

[Term]
id: OBI:0003633
name: antibody purification of mouse MHC class I protein complex with H2-b haplotype and/or mouse MHC protein complex with H2-p haplotype
def: "An antibody purification of mouse MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of mouse MHC class I protein complex with H2-b haplotype and/or mouse MHC protein complex with H2-p haplotype while others contain impurities and are not of interest." []
is_a: OBI:0003627 ! antibody purification of mouse MHC class I protein complex

[Term]
id: OBI:0003634
name: antibody purification of H2-Kb protein complex, H2-Ks protein complex, and/or H2-Kq protein complex
def: "An antibody purification of mouse MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of mouse H2-Kb protein complex, H2-Ks protein complex, and/or H2-Kq protein complex while others contain impurities and are not of interest." []
is_a: OBI:0003627 ! antibody purification of mouse MHC class I protein complex

[Term]
id: OBI:0003635
name: antibody purification of pig MHC class I protein complex, cattle MHC class I protein complex, and/or human MHC class I protein complex
def: "An antibody purification of MHC class I protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of pig MHC class I protein complex, cattle MHC class I protein complex, and/or human MHC class I protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003616 ! antibody purification of MHC class I protein complex

[Term]
id: OBI:0003636
name: antibody purification of MHC class II protein complex
def: "An antibody purification of MHC protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of MHC class II protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003615 ! antibody purification of MHC protein complex

[Term]
id: OBI:0003637
name: antibody purification of cattle MHC class II protein complex
def: "An antibody purification of MHC class II protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of cattle MHC class II protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003636 ! antibody purification of MHC class II protein complex

[Term]
id: OBI:0003638
name: antibody purification of human MHC class II protein complex
def: "An antibody purification of MHC class II protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of human MHC class II protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003636 ! antibody purification of MHC class II protein complex

[Term]
id: OBI:0003639
name: antibody purification of HLA-DP protein complex
def: "An antibody purification of human MHC class II protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of HLA-DP protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003638 ! antibody purification of human MHC class II protein complex

[Term]
id: OBI:0003640
name: antibody purification of HLA-DR protein complex
def: "An antibody purification of human MHC class II protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of HLA-DR protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003638 ! antibody purification of human MHC class II protein complex

[Term]
id: OBI:0003641
name: antibody purification of HLA protein complex with DQ3 serotype
def: "An antibody purification of human MHC class II protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of HLA protein complex with DQ3 serotype, while others contain impurities and are not of interest." []
is_a: OBI:0003638 ! antibody purification of human MHC class II protein complex

[Term]
id: OBI:0003642
name: antibody purification of mouse MHC class II protein complex
def: "An antibody purification of MHC class II protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of mouse MHC class II protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003646 ! antibody purification of mouse MHC class II protein complex and/or rat MHC class II protein complex with RT1-A haplotype

[Term]
id: OBI:0003643
name: antibody purification of H2-IA protein complex
def: "An antibody purification of mouse MHC class II protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of H2-IA protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003642 ! antibody purification of mouse MHC class II protein complex

[Term]
id: OBI:0003644
name: antibody purification of H2-IAg7 protein complex
def: "An antibody purification of mouse MHC class II protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of H2-IAg7 protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003643 ! antibody purification of H2-IA protein complex

[Term]
id: OBI:0003645
name: antibody purification of H2-IAd protein complex
def: "An antibody purification of mouse MHC class II protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of H2-IAd protein complex, while others contain impurities and are not of interest." []
is_a: OBI:0003643 ! antibody purification of H2-IA protein complex

[Term]
id: OBI:0003646
name: antibody purification of mouse MHC class II protein complex and/or rat MHC class II protein complex with RT1-A haplotype
def: "An antibody purification of MHC class II protein complex to separate a material entity into different compositions of which one fraction contains a higher concentration of mouse MHC class II protein complex and/or rat MHC class II protein complex with RT1-A haplotype, while others contain impurities and are not of interest." []
is_a: OBI:0003636 ! antibody purification of MHC class II protein complex

[Term]
id: OBI:0003647
name: tandem mass spectrometry analysis
is_a: OBI:0200085 ! mass spectrometry analysis

[Term]
id: OBI:0003648
name: liquid chromatrography mass spectrometry analysis
is_a: OBI:0200085 ! mass spectrometry analysis

[Term]
id: OBI:0003649
name: liquid chromatography-tandem mass spectrometry analysis
is_a: OBI:0003647 ! tandem mass spectrometry analysis
is_a: OBI:0003648 ! liquid chromatrography mass spectrometry analysis

[Term]
id: OBI:0003650
name: Illumina Infinium MethylationEPIC v2.0 BeadChip
def: "An Illumina methylation BeadChip that targets  935,000 methylation sites per sample at single-nucleotide resolution." []
is_a: OBI:0001870 ! Illumina methylation BeadChip

[Term]
id: OBI:0003651
name: multidimensional fatigue inventory score
def: "A clinical data item that quantifies the severity of a person's fatigue as measured by a 20-item self-report instrument." []
is_a: OGMS:0000123 ! clinical data item

[Term]
id: OBI:0003652
name: albumin-free serum
def: "A blood serum specimen that contains no albumin." []
is_a: OBI:0100017 ! blood serum specimen

[Term]
id: OBI:0003653
name: fasting
def: "A planned process in which an organism drinks only water and does not eat for a specified period of time." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0003654
name: overnight fasting
def: "A fasting with a duration of 8–12 hours, typically occurring overnight." []
is_a: OBI:0003653 ! fasting

[Term]
id: OBI:0003655
name: fasted
def: "An organismal quality that inheres in an organism that has completed a fasting process, and which ceases to inhere in that organism once that organism drinks a liquid other than water or eats." []
is_a: PATO:0001995 ! organismal quality

[Term]
id: OBI:0003656
name: water filtration
def: "A filtration process of water intended to remove or reduce the concentration of particulate matter, such as suspended particles, parasites, bacteria, algae, viruses, and fungi, as well as other undesirable chemical and biological contaminants." []
is_a: OBI:0302885 ! filtration

[Term]
id: OBI:0003657
name: minimum resolved unit of measurement
def: "An information content entity that indicates the smallest increment that can be resolved on the scale of a measurement instrument." []
synonym: "least count" EXACT []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0003658
name: ring trial design
def: "A study design with the objective of establishing the reproducibility of an experimental approach by performing experiments in different laboratories under the same conditions and comparing the experimental outcomes." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0003659
name: in vitro CRISPR screen assay
def: "An assay in which cells expressing a Cas system are infected with a library of guide RNAs with the intent of causing a perturbation at the target of the guide RNAs." []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003660
name: in vitro CRISPR screen using single-cell RNA-seq
def: "An in vitro CRISPR screen assay that uses single-cell RNA-Seq to detect induced changes in gene expression." []
is_a: OBI:0003659 ! in vitro CRISPR screen assay

[Term]
id: OBI:0003661
name: in vitro CRISPR screen using flow cytometry
def: "An in vitro CRISPR screen assay that uses flow cytometry to detect induced changes in gene expression of the targeted genes." []
is_a: OBI:0003659 ! in vitro CRISPR screen assay

[Term]
id: OBI:0003662
name: single-nucleus methylcytosine and transcriptome sequencing assay
def: "A DNA methylation profiling by high throughput sequencing assay that measures the cytosine DNA methylation and gene expression signature of single nuclei." []
synonym: "snmCT-seq" EXACT []
is_a: OBI:0001177 ! RNA sequencing assay
is_a: OBI:0001266 ! DNA methylation profiling by high throughput sequencing assay

[Term]
id: OBI:0003663
name: Illumina NovaSeq X
def: "A DNA sequencer with three flow cell types manufactured by Illumina. The NovaSeq X provides an output of up to 8 Tb (26-52 billion reads per run). The sequencer utilizes XLEAP-SBS chemistry, an advanced version of Illumina's sequencing by synthesis (SBS) technology, which enables faster and more accurate sequencing." []
synonym: "NovaSeq X Series" EXACT []
synonym: "NovaSeq X System" EXACT []
is_a: OBI:0003685 ! Illumina NovaSeq series instrument

[Term]
id: OBI:0003664
name: Illumina NovaSeq X Plus
def: "A DNA sequencer with three flow cell types manufactured by Illumina. It features a dual-flow cell configuration, allowing to reach an output of up to 16 Tb (52-104 billion reads per run). The sequencer utilizes XLEAP-SBS chemistry, an advanced version of Illumina's sequencing by synthesis (SBS) technology, which enables faster and more accurate sequencing." []
synonym: "NovaSeq X Series" EXACT []
synonym: "NovaSeq X System" EXACT []
is_a: OBI:0003685 ! Illumina NovaSeq series instrument

[Term]
id: OBI:0003666
name: lavage fluid specimen
def: "A specimen obtained through a lavage process which includes fluid in addition to cells and/or cellular secretions." []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:0003667
name: oral lavage fluid
def: "A specimen collected through oral cavity lavage that contains the reagents used to for the lavage process, organisms, cells, cellular secretions, and other biomaterials present in the oral cavity space." []
synonym: "mouth rinse specimen" EXACT []
is_a: OBI:0003666 ! lavage fluid specimen

[Term]
id: OBI:0003683
name: Illumina HiSeq series instrument
def: "A DNA Sequencer manufactured and/or marketed by Illumina and branded with the word HiSeq." []
synonym: "HiSeq series" EXACT []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0003684
name: Illumina NextSeq series instrument
def: "A DNA Sequencer manufactured and/or marketed by Illumina and branded with the word NextSeq." []
synonym: "NextSeq series" EXACT []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0003685
name: Illumina NovaSeq series instrument
def: "A DNA Sequencer manufactured and/or marketed by Illumina and branded with the word NovaSeq." []
synonym: "NovaSeq series" EXACT []
is_a: OBI:0400103 ! DNA sequencer

[Term]
id: OBI:0003686
name: chromatin accessibility assay
def: "An assay that determines which regions of a DNA molecule are in the form of euchromatin and thus able to make direct physical contact with (i.e. are accessible to) other molecules such as RNA polymerase, transcription factors, etc." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003687
name: m6A-MTase sequencing assay
def: "A DNA methylation profiling assay in which chromatin stencils are created by treating nuclei with m6A methyltransferase (MTase) and then sequenced using single-molecule circular consensus sequencing to identify regions of accessible DNA at nucleotide resolution." []
synonym: "Fiber-seq" EXACT []
is_a: OBI:0003686 ! chromatin accessibility assay

[Term]
id: OBI:0003688
name: sand bath
def: "A temperature control bath in which sand acts as contact medium for the temperature transfer (from heating or cooling elements to the sample)." []
is_a: OBI:0400120 ! temperature control bath

[Term]
id: OBI:0003689
name: ice bath
def: "A temperature control bath in which a water ice mixture acts as contact medium at constant temperature of 0 degrees Celsius or below if salt solutions are used." []
is_a: OBI:0400120 ! temperature control bath

[Term]
id: OBI:0003690
name: dry ice bath
def: "A temperature control bath in which a dry ice solvent mixture acts as contact medium at a constant temperatures significantly below 0 degrees Celsius." []
is_a: OBI:0400120 ! temperature control bath

[Term]
id: OBI:0003691
name: liquid nitrogen bath
def: "A temperature control bath in which liquid nitrogen acts as contact medium providing a constant temperature of −195.8 °C at 1 atm." []
is_a: OBI:0400120 ! temperature control bath

[Term]
id: OBI:0003692
name: case-control investigation
def: "An investigation that has participants that bear either a case or control role and which examines the hypothesis that the presence of the outcome in case participants is associated with an exposure that is not associated with control participants." []
is_a: OBI:0000066 ! investigation

[Term]
id: OBI:0003693
name: observational investigation
def: "An investigation in which subjects are monitored in the absence of any active intervention by experimentalists." []
is_a: OBI:0000066 ! investigation

[Term]
id: OBI:0003694
name: longitudinal investigation
def: "An investigation that involves repeated observations of the same variables (e.g., people) over long periods of time." []
is_a: OBI:0000066 ! investigation

[Term]
id: OBI:0003695
name: nested case-control investigation
def: "A case–control investigation in which cases and controls are drawn from the population in a fully enumerated cohort." []
is_a: OBI:0003692 ! case-control investigation

[Term]
id: OBI:0003696
name: animal investigation
def: "An investigation that has non-human animals as its subjects." []
is_a: OBI:0000066 ! investigation

[Term]
id: OBI:0003697
name: clinical investigation
def: "An investigation on human subjects with the objective to produce information on human health." []
is_a: OBI:0000066 ! investigation

[Term]
id: OBI:0003698
name: observational clinical investigation
def: "A clinical investigation that does not involve an intervention." []
is_a: OBI:0003693 ! observational investigation
is_a: OBI:0003697 ! clinical investigation

[Term]
id: OBI:0003699
name: clinical trial
def: "A clinical investigation that involves an intervention." []
is_a: OBI:0003697 ! clinical investigation

[Term]
id: OBI:0003700
name: phase I clinical trial
def: "A clinical trial that produces information about the safety of a drug and the adverse events associated with that drug, and which is typically conducted with healthy participants." []
is_a: OBI:0003699 ! clinical trial

[Term]
id: OBI:0003701
name: phase II clinical trial
def: "A clinical trial that produces information about a drug's effectiveness and short-term adverse events associated with the drug." []
is_a: OBI:0003699 ! clinical trial

[Term]
id: OBI:0003702
name: phase III clinical trial
def: "A clinical trial that produces information about a drug's safety and effectiveness in different populations, with different dosages, and in combination with other drugs." []
is_a: OBI:0003699 ! clinical trial

[Term]
id: OBI:0003705
name: study arm design
def: "A plan specification that is part of a study design, executed as part of an investigation, and realized by assigning participants under investigation to a study design." []
synonym: "study arm design" EXACT []
is_a: IAO:0000104 ! plan specification

[Term]
id: OBI:0003706
name: study arm population
def: "A population of organisms that are participants under investigation in the same study design execution." []
synonym: "study arm population" EXACT []
is_a: OBI:0000181 ! population

[Term]
id: OBI:0003707
name: mortar and pestle device
def: "A device which is a set of two tools used to crush or grind material into smaller particles. A mortar is used to contain the material, and a pestle is a handheld blunt object used to apply force to the material." []
synonym: "mortar and pestle" EXACT []
is_a: COB:0001300 ! device

[Term]
id: OBI:0003708
name: infrared gas analyzer
def: "A measurement device that measures the concentration of gases in an air sample based on their absorption of infrared radiation." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0003709
name: assessment of learning and/or memory response in an organism
def: "A nervous system functionality assessment of learning or memory in an organism" []
is_a: OBI:0003533 ! nervous system functionality assessment

[Term]
id: OBI:0003710
name: assessment of startle response in an organism
def: "A nervous system functionality assessment of auditory startle response in an organism in an anechoic chamber by exposing to sound." []
is_a: OBI:0003533 ! nervous system functionality assessment

[Term]
id: OBI:0003711
name: grip strength assay
def: "A nervous system functionality assessment that uses the grip strength of a lab animal to measure neuromuscular function." []
is_a: OBI:0003533 ! nervous system functionality assessment

[Term]
id: OBI:0003712
name: assay of organismal behavior
def: "A physical examination to assess behavior quality in a live organism." []
is_a: OBI:0002441 ! physical examination of an organism

[Term]
id: OBI:0003713
name: organism development assay
def: "A physical examination of an organism that provides information about some developmental process in that organism." []
is_a: OBI:0002441 ! physical examination of an organism

[Term]
id: OBI:0003714
name: reproductive assay
def: "A physical examination of an organism that provides information about some reproductive process in that organism." []
is_a: OBI:0002441 ! physical examination of an organism

[Term]
id: OBI:0003715
name: vital sign assay
def: "An assay of a organism to measure basic physiological functions such as breathing, pulse, etc. (phylum bilateral)." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003716
name: blood pressure assay
def: "A vital sign assay that determines the blood pressure (force of blood against the artery walls) of an organism." []
is_a: OBI:0003715 ! vital sign assay

[Term]
id: OBI:0003717
name: heart rate variability assay
def: "A pulse rate assay that measures beat to beat variability in heart beats." []
is_a: OBI:0003718 ! pulse rate assay

[Term]
id: OBI:0003718
name: pulse rate assay
def: "A vital sign assay that measures the heart beat rate of an organism." []
is_a: OBI:0003715 ! vital sign assay

[Term]
id: OBI:0003719
name: respiratory assay
def: "A vital sign assay that measures the quality of respiration / respiratory system of an organism" []
is_a: OBI:0003715 ! vital sign assay

[Term]
id: OBI:0003720
name: cell differentiation assay
def: "A cytometry assay that monitors the differentiation stage of cells in culture." []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003721
name: cell based DNA damage assay
def: "A cytometry assay that measures DNA damage in cells." []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003722
name: natural killer cell count assay
def: "A cytometry assay to determine the number of natural killer cells in a specimen" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003723
name: natural killer cell percentage assay
def: "A cytometry assay that measures the percentage of natural killer cells in a specimen." []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003724
name: sperm count assay
def: "A cytometry assay to count the number of mature sperm in a specimen." []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003725
name: survey administration assay
def: "An assay that obtains data from one or more participants by using a survey or questionnaire" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003726
name: maximum data transformation
def: "A data transformation that has as its output the greatest value in the input data set." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0003727
name: minimum data transformation
def: "A data transformation that has as its output the least value in the input data set." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0003734
name: clinical history collection assay
def: "A clinical assay that produces a data item indicating whether an organism has ever had a particular disease, lifestyle factor, immune exposure, or medical procedure." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003735
name: disease severity assay
def: "An assay that measures the severity of a disease in an organism." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003736
name: genetic characteristic assay
def: "An assay that produces information about a genetic characteristic of an organism." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003738
name: blood type assay
def: "An assay that classifies an organism's blood within one or more blood group classification systems by identifying antigens present in the blood." []
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:0003739
name: manual muscle testing 8 score
def: "A clinical data item that quantifies the muscle function of a person based on the person's ability to hold a series of eight body positions that target different muscle groups." []
synonym: "MMT-8" EXACT []
is_a: OGMS:0000123 ! clinical data item

[Term]
id: OBI:0003740
name: childhood myositis assessment scale score
def: "A clinical data item that quantifies the degree of muscle function in a child with myositis based on performance of 14 tasks associated with muscular strength and endurance." []
synonym: "CMAS" EXACT []
is_a: OGMS:0000123 ! clinical data item

[Term]
id: OBI:0003741
name: capillary electrophoresis mass spectrometry assay
def: "A mass spectrometry assay where a sample mixture is first separated by capillary electrophoresis before being analysed by mass spectrometry." []
synonym: "CE-MS" EXACT []
is_a: OBI:0000470 ! mass spectrometry assay

[Term]
id: OBI:0003750
name: neurite outgrowth assay
def: "A cell differentiation assay that detects neurite outgrowth and/or branching" []
is_a: OBI:0003720 ! cell differentiation assay

[Term]
id: OBI:0003751
name: neuronal differentiation assay
def: "A cell differentiation assay that measures differentiation of neurons." []
is_a: OBI:0003720 ! cell differentiation assay

[Term]
id: OBI:0003752
name: oligodendrocyte differentiation assay
def: "A cell differentiation assay that measures differentiation of oligodendrocytes." []
is_a: OBI:0003720 ! cell differentiation assay

[Term]
id: OBI:0003753
name: regulation of synapse maturation assay
def: "A cell differentiation assay that measures synapse formation and maturation using antibodies to protein found in synaptic puncta." []
is_a: OBI:0003720 ! cell differentiation assay

[Term]
id: OBI:0003754
name: Ames assay
def: "A cell based DNA damage assay that uses several constructed bacterial strains to detect mutations." []
is_a: OBI:0003721 ! cell based DNA damage assay

[Term]
id: OBI:0003755
name: micronucleus assay
def: "A cell based DNA damage assay in eukaryotic cells that detects cytoplasmic micronuclei." []
is_a: OBI:0003721 ! cell based DNA damage assay

[Term]
id: OBI:0003756
name: PIG-a assay
def: "A cell based DNA damage assay in eukaryotic cells that detects loss of function through mutation of the X-linked (single-copy) Pig-a gene." []
is_a: OBI:0003721 ! cell based DNA damage assay

[Term]
id: OBI:0003757
name: cell viability assay based on detection of resorufin
def: "A cell viability assay using the NAD(P)H-aided conversion of resazurin to resorufin by metabolically active cells." []
synonym: "Alamar Blue viability assay" EXACT []
is_a: OBI:0003583 ! cell viability assay

[Term]
id: OBI:0003758
name: cell death assay using caspase abundance to detect apoptosis
def: "A cell death assay that uses fluorescence imaging-based detection of caspases involved in apoptosis" []
is_a: OBI:0003759 ! cell death assay

[Term]
id: OBI:0003759
name: cell death assay
def: "A cell viability assay which measures the number or proportion of dead cells in a population." []
is_a: OBI:0003583 ! cell viability assay

[Term]
id: OBI:0003760
name: cell viability assay based on detection of resorufin using fluorescence to qualtify the presence of resorufin.
def: "A cell viability assay based on detection of resorufin that uses fluorescence to quantify resorufin" []
synonym: "CellTiter Blue viability assay" EXACT []
is_a: OBI:0003757 ! cell viability assay based on detection of resorufin

[Term]
id: OBI:0003761
name: cell death assay detecting lactate dehydrogenase (LDH) release
def: "A cell death assay that measures the release of intracellular LDH." []
is_a: OBI:0003759 ! cell death assay

[Term]
id: OBI:0003762
name: cell death assay detecting lactate dehydrogenase (LDH) release using absorbance detection.
def: "A cell death assay detecting lactate dehydrogenase (LDH) release by absorbance of substrate" []
synonym: "Cytotox 96 assay" EXACT []
is_a: OBI:0003761 ! cell death assay detecting lactate dehydrogenase (LDH) release

[Term]
id: OBI:0003763
name: ovulation assessment in rodent assay
def: "A histological assay that measures the number of corpora lutea (UBERON:0002512) in the ovary of an organism; corpora lutea develop from the postovulatory follicle." []
synonym: "Corpus luteum count" EXACT []
is_a: OBI:0600020 ! histological assay

[Term]
id: OBI:0003764
name: macroscopic examination of material anatomical entity assay
def: "An assay that performs a macroscopic assessment of a material anatomical entity using the sense of sight." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003765
name: pathological macroscopic examination of specimen assay
def: "A macroscopic examination of material anatomical entity assay performed on a post-mortem anatomical specimen." []
synonym: "Gross pathology assessment" EXACT []
is_a: OBI:0003764 ! macroscopic examination of material anatomical entity assay

[Term]
id: OBI:0003766
name: estrous cycle assay based on tissue morphology
def: "A histological assay that evaluates cells in the vaginal endometrium to assess the estrous cycle phase the subject was in at the time of specimen collection." []
is_a: OBI:0600020 ! histological assay

[Term]
id: OBI:0003767
name: organism development assay in late embryo
def: "An organism development assay performed with a late embryo stage subject." []
synonym: "fetal examination" EXACT []
is_a: OBI:0003713 ! organism development assay

[Term]
id: OBI:0003768
name: pregnancy assessment based on tissue morphology assay
def: "A histological assay that measures the number of implantation sites in an organism." []
synonym: "implantation site count" EXACT []
is_a: OBI:0600020 ! histological assay

[Term]
id: OBI:0003769
name: cell death assay using  vital dye
def: "A cell death assay that uses the Trypan blue vital dye to stain cells which have lost membrane integrity." []
is_a: OBI:0003759 ! cell death assay

[Term]
id: OBI:0003770
name: neurite length assay
def: "A cytometry assay that uses a distance measurement assay to determine the length of a neurite." []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003771
name: neurite degree of arborization assay
def: "A cytometry assay that measures the degree of arborization, or branching, in neuronal processes" []
synonym: "neurite branch point count" EXACT []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003772
name: neurite count assay
def: "A cytometry assay that measures the number of neurites in a cultured specimen." []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003773
name: neuron count assay
def: "A cytometry assay that measures the number of neurons in a sample" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003774
name: cell-body-associated presynaptic puncta count assay
def: "A regulation of synapse maturation assay that determines the number of  synaptic puncta in the cell body compartment of a neuron." []
is_a: OBI:0003753 ! regulation of synapse maturation assay

[Term]
id: OBI:0003775
name: dendrite-associated presynaptic puncta count assay
def: "A regulation of synapse maturation assay that determines the number of synaptic puncta in the dendritic compartment of a neuron." []
is_a: OBI:0003753 ! regulation of synapse maturation assay

[Term]
id: OBI:0003776
name: synapse per neuron assay
def: "A regulation of synapse maturation assay that determines the number of synaptic puncta in a culture and normalizes it by the number of neurons in the culture." []
is_a: OBI:0003753 ! regulation of synapse maturation assay

[Term]
id: OBI:0003777
name: absorbance quality detection assay
def: "An assay that measures the absorbance quality of the evaluant" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003778
name: hormone assay
def: "The analyte assay that measures the abundance of a hormone in a specimen." []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003779
name: chemiluminescent assay
def: "An analyte assay that detects a substance by measuring the release of light triggered by a chemical reaction." []
synonym: "CLIA" EXACT []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003780
name: electrochemiluminescence assay
def: "A chemiluminescent assay that detects a substance by measuring the release of light triggered by an electrochemical reaction." []
synonym: "ECL" EXACT []
synonym: "Meso Scale Discovery ECL" EXACT []
is_a: OBI:0003779 ! chemiluminescent assay

[Term]
id: OBI:0003781
name: proteomics by mass spectrometry assay
def: "A mass spectrometry assay that identifies and measures proteins." []
is_a: OBI:0000615 ! protein expression profiling assay

[Term]
id: OBI:0003782
name: metabolomics by mass spectrometry assay
def: "A mass spectrometry assay that identifies and measures metabolites." []
is_a: OBI:0000366 ! metabolite profiling assay

[Term]
id: OBI:0003788
name: cellular indexing of transcriptomes and epitopes by sequencing
def: "An assay performed on single cells that simultaneously measures transcript expression via single-cell RNA sequencing and profiles surface proteins via sequencing of DNA-barcodes attached to antibodies recognizing particular surface proteins from individual cells." []
synonym: "CITE-Seq" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003789
name: immune receptor repertoire profiling assay
def: "An assay that determines the sequence of a DNA or RNA molecules that encode the repertoire of B cell receptors or T cell receptors within an input sample." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003790
name: antibody-dependent complement deposition assay
def: "An assay measuring antibody-dependent complement-dependent cytotoxicity." []
synonym: "ADCD" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003791
name: bacterial flagellin detection in plasma assay
def: "An analyte assay measuring bacterial flagellin in a plasma sample." []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:0003792
name: bacterial flagellin detection in feces assay
def: "An analyte assay measuring bacterial flagellin in a feces sample." []
is_a: OBI:0003237 ! feces assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:0003793
name: bacterial lipopolysaccharide detection in plasma assay
def: "An analyte assay measuring bacterial lipopolysaccharide in a plasma sample." []
synonym: "LPS" EXACT []
is_a: OBI:0000443 ! analyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:0003794
name: bacterial lipopolysaccharide detection in feces assay
def: "An analyte assay measuring bacterial lipopolysaccharide in a feces sample." []
synonym: "LPS" EXACT []
is_a: OBI:0000443 ! analyte assay
is_a: OBI:0003237 ! feces assay

[Term]
id: OBI:0003795
name: adenosine deaminase activity assay
def: "An analyte assay measuring adenosine deaminase activity in a sample." []
synonym: "ADA" EXACT []
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:0003796
name: pathogen neutralization assay
def: "An assay that measures neutralization of a pathogen." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003797
name: bacterial neutralization assay
def: "A pathogen neutralization assay measuring neutralization of bacteria." []
is_a: OBI:0003796 ! pathogen neutralization assay

[Term]
id: OBI:0003798
name: viral plaque assay
def: "An analyte assay measuring the number of discrete viral plaques." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003799
name: analyte detection by flow based bead assay
def: "An analyte assay that uses beads to measure the concentration of an analyte with a flow cytometer." []
is_a: OBI:0000920 ! cytometric bead array assay

[Term]
id: OBI:0003800
name: bacterial lipopolysaccharide
def: "A molecule that is a component of the outermost membrane of the cell envelope of gram-negative bacteria and which consists of three parts: an outer core polysaccharide termed the O-antigen, an inner core oligosaccharide, and Lipid A, all covalently linked." []
comment: Temporary term created for HCC & intended to be replaced with a term from a different ontology once one can be NTRed.
is_a: COB:0000013 ! molecule

[Term]
id: OBI:0003801
name: urine opacity assay
def: "A histological assay with urine evaluant that measures opacity of the urine" []
is_a: OBI:0003043 ! urine assay
is_a: OBI:0600020 ! histological assay

[Term]
id: OBI:0003802
name: urine color assay
def: "A histological assay with urine evaluant that measures color." []
is_a: OBI:0003043 ! urine assay
is_a: OBI:0600020 ! histological assay

[Term]
id: OBI:0003803
name: urine histological assay
def: "A histological assay with urine sediment as evaluant." []
is_a: OBI:0003043 ! urine assay
is_a: OBI:0600020 ! histological assay

[Term]
id: OBI:0003804
name: color detection assay
def: "An assay that measures the color of the evaluant" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003805
name: opacity determination assay
def: "An assay that measures the opacity of the evaluant" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003806
name: electrocardiograph
def: "An instrument for recording the changes of electrical potential occurring during the heartbeat used especially in diagnosing abnormalities of heart action." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0003807
name: biotelemeter
def: "A measurement device that also transmits the measurement information from a biological material to a distant station." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0003808
name: multi-electrode array plate
def: "A measurement device consisting of grid of tightly spaced microscopic electrodes that can detect the electrical signals of cells in close proximity." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0003809
name: Transepithelial Electrical Resistance (TEER) device
def: "A measurement device that measures monolayer barrier integrity via measurement of membrane potential and electrical resistance across a cell monolayer in culture." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0003811
name: estrous cycle count assay
def: "An estrous cycle assay based on tissue morphology that determines the number of estrous cycles observed in a defined time." []
is_a: OBI:0003766 ! estrous cycle assay based on tissue morphology

[Term]
id: OBI:0003812
name: estrous cycle duration assay
def: "An estrous cycle assay based on tissue morphology that determines the average length of a full estrous cycle observed in a defined time." []
is_a: OBI:0003766 ! estrous cycle assay based on tissue morphology

[Term]
id: OBI:0003813
name: organism development assay in late embryo based on examination of surface structure
def: "An organism development assay in late embryo that evaluates only the external surface structure of the organism" []
synonym: "external fetal exam" EXACT []
is_a: OBI:0003767 ! organism development assay in late embryo

[Term]
id: OBI:0003814
name: organism development assay in late embryo based on examination of skeletal system
def: "An organism development assay in late embryo that evaluates the skeletal system of the organism" []
synonym: "skeletal fetal exam" EXACT []
is_a: OBI:0003767 ! organism development assay in late embryo

[Term]
id: OBI:0003815
name: organism development assay in late embryo based on examination of anatomical system
def: "An organism development assay in late embryo that evaluates the anatomical system of the organism" []
synonym: "visceral fetal exam" EXACT []
is_a: OBI:0003767 ! organism development assay in late embryo

[Term]
id: OBI:0003816
name: distance measurement assay
def: "An assay that measures the space between two entities." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003817
name: length measurement assay
def: "An assay that measures the distance between two points." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003818
name: crown rump length
def: "A length measurement assay that measures the length of a neonate or fetus from crown of head to base of torso (rump)" []
is_a: OBI:0003817 ! length measurement assay

[Term]
id: OBI:0003819
name: path length assay
def: "An assay that measures the distance traveled in a defined period of time." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003820
name: cell migration assay
def: "A distance measurement assay in which the migration of cells in culture is monitored by measuring the distance between the start position and the cell's location when observed." []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0003816 ! distance measurement assay

[Term]
id: OBI:0003821
name: oligodendrocyte migration assay
def: "A cell migration assay that measures migration of an oligodendrocyte" []
is_a: OBI:0003820 ! cell migration assay

[Term]
id: OBI:0003822
name: radial glial migration assay
def: "A cell migration assay that measures migration of a radial glia cell" []
is_a: OBI:0003820 ! cell migration assay

[Term]
id: OBI:0003823
name: neuron migration assay
def: "A cell migration assay that measures migration of a neuron" []
is_a: OBI:0003820 ! cell migration assay

[Term]
id: OBI:0003824
name: neural crest cell migration assay
def: "A cell migration assay that measures migration of a neural crest cell" []
is_a: OBI:0003820 ! cell migration assay

[Term]
id: OBI:0003825
name: acidity quality assay
def: "An assay that measures the acidity of a specimen on the pH scale." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003826
name: specific gravity assay
def: "An assay that measures the specific gravity of a sample." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003827
name: speed measurement assay
def: "An assay to determine the speed of an evaluant." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003828
name: velocity measurement assay
def: "An assay to measure the velocity of an evaluant" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003829
name: luminescence detection assay
def: "An assay that measures the luminescence of the evaluant" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003830
name: cell viability assay using luciferase to detect ATP in the cell
def: "A cell viability assay that uses an ATP bioluminescence assay to detect ATP in the living cell" []
is_a: OBI:0003583 ! cell viability assay

[Term]
id: OBI:0003831
name: population count assay
def: "An assay that measures the number of elements in a portion of a population" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003832
name: hemolysis assay
def: "A hematology assay that measures the fragility of red blood cells by observing spillage of hemoglobin from burst cells." []
is_a: OBI:0000630 ! hematology assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:0003833
name: neuron action potential rate assay
def: "An electrophysiology assay that measures action potential events in neurons during a time period." []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0002176 ! electrophysiology assay

[Term]
id: OBI:0003834
name: neuron burst rate assay
def: "An electrophysiology assay that measures the number of action potential bursts in neurons during a time period." []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0002176 ! electrophysiology assay

[Term]
id: OBI:0003835
name: neuron interburst interval assay
def: "An electrophysiology assay that measures the elapsed time between consecutive action potential bursts in neurons." []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0002176 ! electrophysiology assay

[Term]
id: OBI:0003836
name: neuron burst duration assay
def: "An electrophysiology assay that measures the time elapsed between the first action potential in a neuron burst and the last in that burst." []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0002176 ! electrophysiology assay

[Term]
id: OBI:0003837
name: action potential interval assay
def: "An electrophysiology assay that measures the time elapsed between the peaks of consecutive action potential spikes in a neuron burst." []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0002176 ! electrophysiology assay

[Term]
id: OBI:0003838
name: rate of action potentials in neuron burst assay
def: "An electrophysiology assay that measures the number of action potential spikes occurring within a neuron burst" []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0002176 ! electrophysiology assay

[Term]
id: OBI:0003839
name: body mass assay
def: "A mass measurement assay with evaluant an individual organism." []
is_a: OBI:0000445 ! mass measurement assay

[Term]
id: OBI:0003840
name: body mass change assay
def: "A body mass assay that measures the change in body mass for a subject over a period of time." []
is_a: OBI:0600026 ! longitudinal mass measurement assay

[Term]
id: OBI:0003841
name: body weight assay at death
def: "A body weight assay with evaluant individual organism specimen with quality dead." []
is_a: OBI:0003839 ! body mass assay

[Term]
id: OBI:0003842
name: tissue mass assay
def: "A mass measurement assay with evaluant tissue or bodily fluid specimen." []
is_a: OBI:0000445 ! mass measurement assay

[Term]
id: OBI:0003843
name: tissue mass percent of body mass assay
def: "A mass measurement assay with evaluant tissue expressed as a percentage of the body weight of the organism from which the specimen was derived." []
is_a: OBI:0000445 ! mass measurement assay

[Term]
id: OBI:0003844
name: developmental marker age of attainment assessment
def: "An age determination assay which determines the age of the subject at the time of the change from a state where it did not have a developmental stage marker to one in which it does." []
is_a: OBI:0001158 ! age determination assay

[Term]
id: OBI:0003850
name: cytochrome P450 assay
def: "A protein assay that measures the abundance of cytochrome P450 in a specimen." []
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:0003851
name: growth factor assay
def: "An analyte assay to measure the abundance of one or more growth factors in a volume of sample." []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003852
name: Hoechst dye assay
def: "A fluorescence imaging-based cell morphology assay that uses Hoechst dye 33342" []
is_a: OBI:0002951 ! fluorescence imaging-based cell morphology assay

[Term]
id: OBI:0003853
name: hypersensitivity assay
def: "An immune response assay to assess the hypersensitivity response in an organism or cell culture." []
is_a: OBI:0000743 ! immune response assay

[Term]
id: OBI:0003882
name: super-resolution microscopy assay
def: "A type of light microscopy assay where the images are taken with a resolution higher than the diffraction limit." []
synonym: "super resolution microscopy assay" EXACT []
is_a: OBI:0002119 ! microscopy assay

[Term]
id: OBI:0003883
name: multiphoton microscope
def: "A microscope that uses simultaneous absorption of multiple photons to excite fluorescent molecules." []
synonym: "MPLSM" EXACT []
synonym: "multiphoton laser scanning microscope" EXACT []
synonym: "two-photon excitation microscope" EXACT []
is_a: OBI:0400169 ! microscope

[Term]
id: OBI:0003884
name: light sheet microscope
def: "A microscope that uses illumination and detection objectives to image a sample illuminated with a thin sheet of laser light." []
synonym: "light-sheet microscope" EXACT []
synonym: "lightsheet microscope" EXACT []
is_a: OBI:0400169 ! microscope

[Term]
id: OBI:0003885
name: 1M7 RNA structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at the nucleotide resolution scale using 1-methyl-7-nitroisatoic anhydride as reagent and chemical probe" []
synonym: "SHAPE mapping assay" EXACT []
synonym: "single nucleotide resolution mapping assay using 1M7 probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0003886
name: NAI RNA structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at the nucleotide resolution scale using 2-methylnicotinic acid imidazolide as reagent and chemical probe" []
synonym: "SHAPE mapping assay" EXACT []
synonym: "single nucleotide resolution mapping assay using NAI probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0003887
name: NAI-N3 RNA structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at the nucleotide resolution scale using 2-(azidomethyl)nicotinic acid imidazolide as reagent and chemical probe" []
synonym: "SHAPE mapping assay" EXACT []
synonym: "single nucleotide resolution mapping assay using NAI-N3 probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0003888
name: 2A3 RNA structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at the nucleotide resolution scale using 2-aminopyridine-3-carboxylic acid imidazolide as reagent and chemical probe" []
synonym: "SHAPE mapping assay" EXACT []
synonym: "single nucleotide resolution mapping assay using 2A3 probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0003889
name: I5 RNA structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at the nucleotide resolution scale using indoline-5-carboxylic acid imidazolide as reagent and chemical probe" []
synonym: "SHAPE mapping assay" EXACT []
synonym: "single nucleotide resolution mapping assay using I5 probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0003890
name: 1M4 RNA structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at the nucleotide resolution scale using 1-methylimidazole-4-carboxylic acid imidazolide as reagent and chemical probe" []
synonym: "SHAPE mapping assay" EXACT []
synonym: "single nucleotide resolution mapping assay using 1M4 probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0003891
name: 6A3 RNA structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at the nucleotide resolution scale using 6-aminopyridine-3-carboxylic acid imidazolide as reagent and chemical probe" []
synonym: "SHAPE mapping assay" EXACT []
synonym: "single nucleotide resolution mapping assay using 6A3 probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0003892
name: B5 RNA structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at the nucleotide resolution scale using benzotriazole-5-carboxylic acid imidazolide as reagent and chemical probe" []
synonym: "SHAPE mapping assay" EXACT []
synonym: "single nucleotide resolution mapping assay using B5 probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0003893
name: NIC RNA structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at the nucleotide resolution scale using nicotinic acid imidazolide as reagent and chemical probe" []
synonym: "SHAPE mapping assay" EXACT []
synonym: "single nucleotide resolution mapping assay using NIC probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0003894
name: BzCN RNA structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at the nucleotide resolution scale using benzoyl cyanide as reagent and chemical probe" []
synonym: "SHAPE mapping assay" EXACT []
synonym: "single nucleotide resolution mapping assay using BzCN probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0003895
name: 1M6 RNA structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at the nucleotide resolution scale using 1-methyl-6-nitroisatoic anhydride as reagent and chemical probe" []
synonym: "SHAPE mapping assay" EXACT []
synonym: "single nucleotide resolution mapping assay using 1M6 probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0003896
name: 5NIA RNA structure mapping assay
def: "A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at the nucleotide resolution scale using 5-nitroisatoic anhydride as reagent and chemical probe" []
synonym: "SHAPE mapping assay" EXACT []
synonym: "single nucleotide resolution mapping assay using 5NIA probe" EXACT []
is_a: OBI:0001017 ! single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing

[Term]
id: OBI:0003897
name: cell count assay
def: "An assay that measures the number of cells in a portion of a cell culture or tissue or bodily fluid" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003898
name: differential leukocyte count assay
def: "A hematology assay that measures the percentage of classes of leukocytes in a sample." []
is_a: OBI:0000630 ! hematology assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:0003899
name: electrocardiogram assay
def: "An electrophysiology assay that measures heart activity using electrodes placed to detect electrical signals from the heart." []
is_a: OBI:0002176 ! electrophysiology assay

[Term]
id: OBI:0003900
name: telemeter sensor detection assay
def: "An assay which uses an implanted telemeter to measure physiological data in a living organism and transmit the measures via radio waves to a recording device." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0003901
name: multi-electrode array assay
def: "A multi-unit recording assay using a multi-electrode array (MEA) on the surface of a well on a cell culture plate." []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0002188 ! multi-unit recording

[Term]
id: OBI:0003902
name: transepithelial / transendothelial electrical resistance (TEER) assay
def: "An extracellular electrophysiology recording assay to measure the integrity of a cell monolayer" []
is_a: OBI:0000454 ! extracellular electrophysiology recording assay
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:0003903
name: count of multi-electrode plate electrodes detecting action potential assay
def: "A multi-electrode array assay that measures the number of electrodes in a well where the mean rate of action potentials is at least 5 spikes per minute." []
is_a: OBI:0003901 ! multi-electrode array assay

[Term]
id: OBI:0003904
name: count of multi-electrode plate electrodes detecting neuron burst assay
def: "A multi-electrode array assay that measures the number of electrodes in a well where the burst rate is at least 0.5 bursts per minute." []
is_a: OBI:0003901 ! multi-electrode array assay

[Term]
id: OBI:0003905
name: neural network spike rate assay
def: "An multi-electrode assay that measures the number of events when multiple electrodes simultaneously detect an action potential during a time period." []
is_a: OBI:0003901 ! multi-electrode array assay

[Term]
id: OBI:0003906
name: neural network spike duration assay
def: "A multi-electrode assay that measures the mean duration of events when multiple electrodes detect an action potential" []
is_a: OBI:0003901 ! multi-electrode array assay

[Term]
id: OBI:0003907
name: count of multi-electrode plate electrodes detecting spike peak assay
def: "A multi-electrode array assay that measures the average number of electrodes detecting a network spike, measured at the peak of a network spike." []
is_a: OBI:0003901 ! multi-electrode array assay

[Term]
id: OBI:0003908
name: mean interspike interval in network spike
def: "A multi-electrode assay that measures the average interval between network spikes, events where multiple electrodes simultaneously detect an action potential." []
is_a: OBI:0003901 ! multi-electrode array assay

[Term]
id: OBI:0003909
name: bile acid concentration assay
def: "An analyte assay that measures the abundance of bile acid in a volume of sample." []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003910
name: urea nitrogen assay
def: "An analyte assay that measures the abundance of urea nitrogen." []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:0003911
name: urea nitrogen concentration assay
def: "A urea nitrogen assay that measures the abundance of urea nitrogen in a specimen" []
is_a: OBI:0003910 ! urea nitrogen assay

[Term]
id: OBI:0004001
name: randomized clinical trial
def: "A clinical trial in which the participants are divided by chance into separate groups that compare different treatments or other interventions. Using chance to divide people into groups means that the groups will be similar and that the effects of the treatments they receive can be compared more fairly. At the time of the trial, it is not known which treatment is best." []
is_a: OBI:0003699 ! clinical trial

[Term]
id: OBI:0004002
name: non-randomized clinical trial
def: "A clinical trial in which the participants are not assigned by chance to different treatment groups. Participants may choose which group they want to be in, or they may be assigned to the groups by the researchers." []
synonym: "nonrandomized clinical trial" EXACT []
is_a: OBI:0003699 ! clinical trial

[Term]
id: OBI:0005246
name: injection function
def: "The function of a device realized when administering a substance in vivo, applied particularly to the forcible insertion of a liquid or gas by means of a syringe, pump, etc." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:0100010
name: Epstein Barr virus transformed B cell
def: "A material entity which results from viral transformation process using EBV as transformation agent when applied to B-cell entity" []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0100014
name: chimera
def: "An organism which contains cells or tissues with a different genotype" []
is_a: COB:0000022 ! organism

[Term]
id: OBI:0100015
name: obsolete_anatomical entity
def: "An anatomical entity is a material entity that is part of a multicellular organism, and which is large enough so that it forms an identifiable structure in the organism. Specifically, it excludes granular parts of the organism, such as atoms, molecules, cells, which can be removed from the organism without affecting it. It is defined as the union of 'multi-tissue structure', 'body substance' and 'portion of tissue'" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0100016
name: blood plasma specimen
def: "a material entity which corresponds to the liquid component of blood, in which the blood cells are suspended." []
synonym: "plasma" EXACT []
is_a: OBI:0000655 ! blood specimen

[Term]
id: OBI:0100017
name: blood serum specimen
def: "A material entity which derives from blood and corresponds to blood plasma without fibrinogen or the other clotting factors." []
is_a: OBI:0100016 ! blood plasma specimen

[Term]
id: OBI:0100026
name: obsolete organism
def: "A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs." []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: COB:0000022

[Term]
id: OBI:0100035
name: obsolete_immortal cell
def: "a cell derived from a multicellular organism that has the potential to replicate indefinitely" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0100039
name: obsolete_fragment derived from protein
def: "A material entity which is derived from a  protein" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0100046
name: phosphate buffered saline solution
def: "Phosphate buffered saline (abbreviated PBS) is a buffer solution commonly used in biochemistry. It is a salty solution containing sodium chloride, sodium phosphate and in some preparations potassium chloride and potassium phosphate. The buffer helps to maintain a constant pH. The concentration usually matches the human body (isotonic)." []
synonym: "PBS buffer" EXACT []
is_a: OBI:0302729 ! chemical solution

[Term]
id: OBI:0100051
name: specimen
def: "A material entity that is collected for potential use as an input upon which measurements or observations are performed." []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0100055
name: obsolete_cell line cell
def: "A material entity that represents generations of a primary culture." []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0100056
name: obsolete_immortal cell line culture
def: "A cell line that is expected to be capable of indefinite propagation in an vitro culture." []
synonym: "immortal cell line sample" EXACT []
synonym: "permanent cell line" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: CLO:0009828

[Term]
id: OBI:0100058
name: xenograft
def: "A material entity which results from the transplantation of living cells, tissues or organs  from on organism of one species to an organism of another species." []
synonym: "xenotransplant" EXACT []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0100060
name: cultured cell population
def: "A processed material comprised of a collection of cultured cells that has been continuously maintained together in culture and shares a common propagation history." []
comment: The extent of a 'cultured cell population' is restricted only in that all cell members must share a propagation history (ie be derived through a common lineage of passages from an initial culture). In being defined in this way, this class can be used to refer to the populations that researchers actually use in the practice of science - ie are the inputs to culturing, experimentation, and sharing. The cells in such populations will be a relatively uniform population as they have experienced similar selective pressures due to their continuous co-propagation. And this population will also have a single passage number, again owing to their common passaging history. Cultured cell populations represent only a collection of cells (ie do not include media, culture dishes, etc), and include populations of cultured unicellular organisms or cultured multicellular organism cells. They can exist under active culture, stored in a quiescent state for future use, or applied experimentally.
synonym: "cell culture sample" EXACT []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0100061
name: primary cultured cell population
def: "A cultured cell population comprised of cells expanded directly from living tissue prior to being passaged." []
synonym: "primary cell culture" EXACT []
synonym: "primary cell culture sample" EXACT []
is_a: OBI:0100060 ! cultured cell population

[Term]
id: OBI:0100062
name: obsolete_cell line
def: "A secondary cultured cell population that represents a genetically stable and homogenous population of cultured cells that shares a common propagation history (ie has been successively passaged together in culture)." []
synonym: "cell line sample" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: CLO:0000031

[Term]
id: OBI:0100063
name: cultured clonal cell population
def: "A cultured cell population comprised of cells which can all be traced back to a single ancestor cell, and which therefore can be treated as identical." []
synonym: "clonal cell culture sample" EXACT []
is_a: OBI:0100060 ! cultured cell population

[Term]
id: OBI:0100064
name: screening library
def: "a screening library is a collection of materials engineered to identify qualities of a subset of its members during a screening process?" []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0100065
name: synthetic peptide
def: "a synthetic peptide is an material entity which is artificially engineered and results from the synthesis of a chain of amino acids which may also be found in natural protein and be identical in sequence to a protein fragment" []
is_a: CHEBI:16670 ! peptide

[Term]
id: OBI:0100066
name: organ section
def: "A processed material which derives from an organ and results from a process of dissection or histological sample preparation a portion(formerly an organ section is portion of an organ removed from the context of the organ)" []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0100067
name: bronchial alveolar lavage
def: "Group of biomaterials present in the bronchial aveolar space of an organism which are collected through lavage including the reagents used to for the lavage process, organisms, cells, and cellular secretions present in the bronchial aveolar space." []
synonym: "BAL" EXACT []
is_a: OBI:0003666 ! lavage fluid specimen

[Term]
id: OBI:0100069
name: obsolete_polymer
def: "A macromolecule is a molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0100086
name: glucose in solution
def: "A scattered aggregate of glucose molecules in a liquid" []
synonym: "glucose molecules" EXACT []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0200000
name: data transformation
def: "A completely executed planned process that produces output data from input data." []
synonym: "data analysis" EXACT []
synonym: "data processing" EXACT []
is_a: COB:0000035 ! completely executed planned process
disjoint_from: OBI:0600013 ! information acquisition

[Term]
id: OBI:0200001
name: geometric mean calculation
def: "A data transformation in which the mean is calculated by taking the nth root of the product of all of the observations in a data (n being the number of all observations)." []
comment: A geometric mean calculation is a descriptive statistics calculation in which the mean is calculated by taking the nth root of the product of all of the observations in a data (n being the number of all observations).
is_a: OBI:0200181 ! center calculation data transformation
is_a: OBI:0200184 ! descriptive statistical calculation data transformation

[Term]
id: OBI:0200002
name: logistic-log curve fitting
def: "A logistic-log curve fitting is a curve fitting where a curve of the form y=d+((a-d)/(1+(x/c)^b)) is obtained, where a, b, c, and d are determined so to optimize its fit to the input data points (x_1, y_1), (x_2, y_2), ..., (x_n, y_n)." []
is_a: OBI:0200072 ! curve fitting data transformation

[Term]
id: OBI:0200003
name: logit-log curve fitting
def: "A logit-log curve fitting is a curve fitting where first the limits y_0 an y_infty of y when x->0 and x->infinity, respectively, are estimated from the input data points (x_1, y_1), (x_2,y_2), ..., (x_n, y_n). Then a curve with equation log((y-y_0)/(y_infty-y))=a+b log(x) is obtained, where a and b are determined to optimize its fit to the input data points." []
is_a: OBI:0200072 ! curve fitting data transformation

[Term]
id: OBI:0200004
name: log-log curve fitting
def: "A log-log curve fitting is a curve fitting where first a logarithmic transformation is applied both to the x and the y coordinates of the input data points (x_1, y_1), (x_2, y_2), ..., (x_n, y_n), and then coefficients a and b are determined to optimize the fit of log(y)=a+b*log(x) to these input data points." []
is_a: OBI:0200072 ! curve fitting data transformation

[Term]
id: OBI:0200005
name: feature extraction objective
def: "A feature extraction objective is a data transformation objective where the aim of the data transformation is to generate quantified values from a scanned image." []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200006
name: biexponential transformation
def: "A biexponential transformation is a data transformation that, for each (one dimensional) real number input x, outputs an approximation (found, e.g. with the Newton's method) to a solution y of the equation B(y)-x=0, where B denotes a b transformation." []
is_a: OBI:0200072 ! curve fitting data transformation
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200007
name: box-cox transformation
def: "A box-cox transformation is a data transformation according to the methods of Box and Cox as described in the article Box, G. E. P. and Cox, D.R. (1964) An analysis of transformations. Journal of Royal Statistical Society, Series B, vol. 26, pp. 211-246." []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200008
name: hyperlog transformation
def: "A hyperlog transformation ia a data transformation that, for each (one dimensional) real number input x, outputs an approximation (found, e.g. with the Newton's method) to a solution y of the equation EH(y)-x=0, where EH denotes an eh transformation." []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200010
name: loess scale group transformation one-channel
def: "A loess scale group transformation one-channel is a loess scale group transformation consisting in the application of a scale adjustment following a loess group transformation one-channel, to render the M group variances similar." []
is_a: OBI:0200025 ! loess scale group transformation

[Term]
id: OBI:0200011
name: logical transformation
def: "A logical transformation is a data transformation that, for each (one dimensional) real number input x, outputs an approximation (found, e.g. with the Newton's method) to a solution y of the equation S(y)-x=0, where S denotes an s transformation." []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200012
name: loess scale group transformation two-channel
def: "A loess scale group transformation two-channel is a loess scale group transformation consisting in the application of a scale adjustment following a loess group transformation two-channel, to render the M group variances similar." []
is_a: OBI:0200025 ! loess scale group transformation

[Term]
id: OBI:0200013
name: loess global transformation one-channel
def: "A loess global transformation one-channel is a loess global transformation in the special case where the input is the result of an MA transformation applied to intensities from two related one-channel assays." []
is_a: OBI:0200023 ! loess global transformation

[Term]
id: OBI:0200014
name: split-scale transformation
def: "A split-scale transformation is a data transformation which is an application of a function f described as follows to a (one dimensional) real number input. f(x)=a*x+b if x=for x>t; where log denotes a logarithmic transformation and a, b, c, d, r, t are real constants, with a, c, d, r, t positive, chosen so that f is continuous with a continuous derivative at the transition point t." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200015
name: loess global transformation two-channel
def: "A loess global transformation two-channel is a loess global transformation in the special case where the input the result of an MA transformation applied to intensities from the two channels of a two-channel assay." []
is_a: OBI:0200023 ! loess global transformation

[Term]
id: OBI:0200016
name: sine transformation
def: "A sine transformation is a data transformation which consists in applying the sine function to a (one dimensional) real number input. The sine function is one of the basic trigonometric functions and a definition is provided, e.g., at http://mathworld.wolfram.com/Sine.html." []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200017
name: cosine transformation
def: "A cosine transformation is a data transformation which consists in applying the cosine function to a (one dimensional) real number input. The cosine function is one of the basic trigonometric functions and a definition is provided, e.g., at http://mathworld.wolfram.com/Cosine.html." []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200018
name: loess group transformation one-channel
def: "A loess group transformation one-channel is a loess group transformation in the special case where the input is the result of an MA transformation applied to intensities from two related one-channel assays." []
is_a: OBI:0200024 ! loess group transformation

[Term]
id: OBI:0200019
name: loess group transformation two-channel
def: "A loess group transformation two-channel is a loess group transformation in the special case where the input is the result of an MA transformation applied to intensities from the two channels of a two-channel assay." []
is_a: OBI:0200024 ! loess group transformation

[Term]
id: OBI:0200020
name: homogeneous polynomial transformation
def: "A homogeneous polynomial transformation is a polynomial transformation where all the term of the polynomial have the same degree." []
is_a: OBI:0200093 ! polynomial transformation

[Term]
id: OBI:0200021
name: linlog transformation
def: "A linlog transformation is a data transformation, described in PMID 16646782, whose input is a matrix [y_ik] and whose output is a matrix obtained by applying formula (9) of this paper, where values below an appropriately determined threshold (dependent on the row i) are transformed via a polynomial of degree 1, and values above this threshold are transformed via a logarithm." []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200022
name: variance stabilizing transformation
def: "A variance stabilizing transformation is a data transformation, described in PMID 12169536, whose input is a matrix [y_ik] and whose output is a matrix obtained by applying formula (6) in this paper. One of the goals is to obtain an output matrix whose rows have equal variances. The method relies on various assumptions described in the paper." []
synonym: "variance stabilising transformation" EXACT []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200023
name: loess global transformation
def: "A loess global transformation is a loess transformation where only one loess fitting is performed, utilizing one subset of (or possibly all of) the data points in the input so that there is only one resulting loess curve y=f(x) which is used for the transformation." []
is_a: OBI:0200071 ! loess transformation

[Term]
id: OBI:0200024
name: loess group transformation
def: "A loess group transformation is a loess transformation where the input is partitioned into groups and for each group a loess fitting is performed, utilizing a subset of (or possibly all of) the data points in that group. Thus, a collection of loess curves y=f_i(x) is generated, one per group. Each (x, y) in the input is transformed into (x, y-f_i(x)), where f_i(x) is the curve corresponding to the group to which that data point belongs." []
is_a: OBI:0200071 ! loess transformation

[Term]
id: OBI:0200025
name: loess scale group transformation
def: "A loess scale group transformation is a data transformation consisting in the application of a scale adjustment following a loess group transformation, to render the group variances for the second variable (y) similar.  Has objective scaling." []
is_a: OBI:0200185 ! scaling data transformation

[Term]
id: OBI:0200026
name: total intensity transformation single
def: "A total intensity transformation single is a data transformation that takes as input an n-dimensional (real) vector and multiplies each component of this vector by a coefficient, where the coefficient is obtained by taking the sum of the input components or of a subset of these, multiplied by a constant of choice." []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200027
name: total intensity transformation paired
def: "A total intensity transformation paired is a data transformation that takes as input two n-dimensional (real) vectors and multiplies each component of the first vector by a coefficient, where the coefficient is obtained by taking the ratio of the sum of the second input components or of a subset of these by the sum of the first input components or of a subset of these (the same subset is used for the two vectors)." []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200028
name: quantile transformation
def: "A quantile transformation is a data transformation that takes as input a collection of data sets, where each can be thought as an n-dimensional (real) vector, and which transforms each data set so that the resulting output data sets have equal quantiles." []
is_a: OBI:0200169 ! normalization data transformation
is_a: OBI:0200181 ! center calculation data transformation

[Term]
id: OBI:0200029
name: mean centering
def: "A mean centering is a data transformation that takes as input an n-dimensional (real) vector, performs a mean calculation on its components, and subtracts the resulting mean from each component of the input." []
synonym: "mean centring" EXACT []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200030
name: median centering
def: "A median centering is a data transformation that takes as input an n-dimensional (real) vector, performs a median calculation on its components, and subtracts the resulting median from each component of the input." []
synonym: "median centring" EXACT []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200031
name: differential expression analysis objective
def: "A differential expression analysis objective is a data transformation objective whose input consists of expression levels of entities (such as transcripts or proteins), or of sets of such expression levels, under two or more conditions and whose output reflects which of these are likely to have different expression across such conditions." []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200032
name: K-fold cross validation method
def: "K-fold cross-validation randomly partitions the original sample into K subsamples. Of the K subsamples, a single subsample is retained as the validation data for testing the model, and the remaining K - 1 subsamples are used as training data. The cross-validation process is then repeated K times (the folds), with each of the K subsamples used exactly once as the validation data. The K results from the folds then can be averaged (or otherwise combined) to produce a single estimation. The advantage of this method over repeated random sub-sampling is that all observations are used for both training and validation, and each observation is used for validation exactly once. 10-fold cross-validation is commonly used" []
is_a: OBI:0000792 ! statistical model validation

[Term]
id: OBI:0200033
name: leave one out cross validation method
def: "is a data transformation :  leave-one-out cross-validation (LOOCV) involves using a single observation from the original sample as the validation data, and the remaining observations as the training data. This is repeated such that each observation in the sample is used once as the validation data" []
is_a: OBI:0000792 ! statistical model validation

[Term]
id: OBI:0200034
name: jackknifing method
def: "Jacknifing is a re-sampling data transformation process used to estimate the precision of sampling statistics and is a resampling method" []
synonym: "jackknifing" EXACT []
is_a: OBI:0000792 ! statistical model validation

[Term]
id: OBI:0200035
name: boostrapping
def: "Bootstrapping is a statistical method for estimating the sampling distribution of a statistic by sampling with replacement from the original data, most often with the purpose of deriving robust estimates of standard errors and confidence intervals of a population parameter like a mean, median, proportion, odds ratio, correlation coefficient or regression coefficient" []
is_a: OBI:0000792 ! statistical model validation

[Term]
id: OBI:0200036
name: Benjamini and Hochberg false discovery rate correction method
def: "A data transformation process in which the Benjamini and Hochberg method sequential p-value procedure  is applied with the aim of correcting false discovery rate" []
is_a: OBI:0200163 ! false discovery rate correction method

[Term]
id: OBI:0200037
name: pareto scaling
def: "A pareto scaling is a data transformation that divides all measurements of a variable by the square root of the standard deviation of that variable." []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200040
name: modular decomposition
def: "Molecular decomposition is the partition of a network into distinct subgraphs for the purpose of identifying functional clusters. The network data is run through any of several existing algorithms designed to partition a network into distinct subgraphs for the purpose of isolating groups of functionally linked biological elements such as proteins." []
is_a: OBI:0200080 ! network analysis

[Term]
id: OBI:0200041
name: k-means clustering
def: "A k-means clustering is a data transformation which achieves a class discovery or partitioning objective, which takes as input a collection of objects (represented as points in multidimensional space) and which partitions them into a specified number k of clusters. The algorithm attempts to find the centers of natural clusters in the data. The most common form of the algorithm starts by partitioning the input points into k initial sets, either at random or using some heuristic data. It then calculates the mean point, or centroid, of each set. It constructs a new partition by associating each point with the closest centroid. Then the centroids are recalculated for the new clusters, and the algorithm repeated by alternate applications of these two steps until convergence, which is obtained when the points no longer switch clusters (or alternatively centroids are no longer changed)." []
is_a: OBI:0200171 ! partitioning data transformation
is_a: OBI:0200175 ! class discovery data transformation

[Term]
id: OBI:0200042
name: hierarchical clustering
def: "A hierarchical clustering is a data transformation which achieves a class discovery objective, which takes as input data item and builds a hierarchy of clusters. The traditional representation of this hierarchy is a tree (visualized by a dendrogram), with the individual input objects at one end (leaves) and a single cluster containing every object at the other (root)." []
is_a: OBI:0200175 ! class discovery data transformation

[Term]
id: OBI:0200043
name: average linkage hierarchical clustering
def: "An average linkage hierarchical clustering is an agglomerative hierarchical clustering which generates successive clusters based on a distance measure, where the distance between two clusters is calculated as the average distance between objects from the first cluster and objects from the second cluster." []
is_a: OBI:0200154 ! agglomerative hierarchical clustering

[Term]
id: OBI:0200044
name: complete linkage hierarchical clustering
def: "an agglomerative hierarchical clustering which generates successive clusters based on a distance measure, where the distance between two clusters is calculated as the maximum distance between objects from the first cluster and objects from the second cluster." []
is_a: OBI:0200154 ! agglomerative hierarchical clustering

[Term]
id: OBI:0200045
name: single linkage hierarchical clustering
def: "A single linkage hierarchical clustering is an agglomerative hierarchical clustering which generates successive clusters based on a distance measure, where the distance between two clusters is calculated as the minimum distance between objects from the first cluster and objects from the second cluster." []
is_a: OBI:0200154 ! agglomerative hierarchical clustering

[Term]
id: OBI:0200049
name: Benjamini and Yekutieli false discovery rate correction method
def: "A data transformation in which the Benjamini and Yekutieli method is applied with the aim of correcting false discovery rate" []
is_a: OBI:0200163 ! false discovery rate correction method

[Term]
id: OBI:0200050
name: dimensionality reduction
def: "A dimensionality reduction is data partitioning which transforms each input m-dimensional vector (x_1, x_2, ..., x_m) into an output n-dimensional vector (y_1, y_2, ..., y_n), where n is smaller than m." []
synonym: "data projection" EXACT []
is_a: OBI:0200175 ! class discovery data transformation

[Term]
id: OBI:0200051
name: principal components analysis dimensionality reduction
def: "A principal components analysis dimensionality reduction is a dimensionality reduction achieved by applying principal components analysis and by keeping low-order principal components and excluding higher-order ones." []
synonym: "pca data reduction" EXACT []
is_a: OBI:0200050 ! dimensionality reduction

[Term]
id: OBI:0200052
name: probabilistic algorithm
def: "A probabilistic algorithm is one which involves an element of probability or randomness in the transformation of the data." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200053
name: expectation maximization
def: "EM is a probabilistic algorithm used to estimate the maximum likelihood of parameters from existing data where the model involves unobserved latent variables. The input to this method is the data model for which the estimation is performed over and the output is an approximated probability function." []
is_a: OBI:0200052 ! probabilistic algorithm

[Term]
id: OBI:0200054
name: global modularity calculation
def: "A network graph quality calculation in which an input data set of subgraph modules and their in-degree and out-degree qualities is used to calculate the average modularity of subgraphs within the network." []
is_a: OBI:0200147 ! network graph quality calculation

[Term]
id: OBI:0200055
name: dye swap merge
def: "A dye swap merge is a replicate analysis which takes as input data from paired two-channel microarray assays where the sample labeled with one dye in the first assay is labeled with the other dye in the second assay and vice versa. The output for each reporter is obtained by combining its (raw or possibly pre-processed) M values in the two assays, where the M value in an assay is defined as the difference of the log intensities in the two channels. This can be used as a normalization step, when appropriate assumptions are met." []
is_a: OBI:0200057 ! replicate analysis

[Term]
id: OBI:0200056
name: moving average
def: "A moving average is a data transformation in which center calculations, usually mean calculations, are performed on values within a sliding window across the input data set." []
is_a: OBI:0200170 ! averaging data transformation

[Term]
id: OBI:0200057
name: replicate analysis
def: "A replicate analysis is a data transformation in which data from replicates are combined, e.g. through descriptive statistics calculations, and the results might be utilized for a variety of purposes, like assessing reproducibility, identifying outliers, normalizing, etc." []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200058
name: b cell epitope prediction
def: "A B cell epitope prediction takes as input an antigen sequence, and through an analysis of this sequence, produces as output a prediction of the likelihood the biomaterial is a B Cell Epitope." []
is_a: OBI:0200187 ! sequence analysis data transformation

[Term]
id: OBI:0200059
name: mhc binding prediction
def: "An MHC binding prediction takes an input of a biomaterial sequence and through an analysis of this sequence, produces as output a prediction of the likelihood that the biomaterial will bind to an MHC molecule." []
is_a: OBI:0200187 ! sequence analysis data transformation

[Term]
id: OBI:0200060
name: t cell epitope prediction
def: "A T cell epitope prediction takes as input an antigen sequence, and through an analysis of this sequence, produces as output a prediction of the likelihood the biomaterial is a T cell epitope." []
is_a: OBI:0200187 ! sequence analysis data transformation

[Term]
id: OBI:0200061
name: data imputation
def: "Imputation is a means of filling in missing data values from a predictive distribution of the missing values.  The predictive distribution can be created either based on a formal statistical model (i,e, a multivariate normal distribution) or an algorithm." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200062
name: continuum mass spectrum analysis
def: "A continuum mass spectrum is a data transformation that contains the full profile of the detected signals for a given ion." []
is_a: OBI:0200085 ! mass spectrometry analysis

[Term]
id: OBI:0200063
name: characteristic path length calculation
def: "Quantifying subgraph navigability based on shortest-path length averaged over all pairs of subgraph vertices" []
is_a: OBI:0200085 ! mass spectrometry analysis

[Term]
id: OBI:0200064
name: centroid mass spectrum analysis
def: "A centroid mass spectrum is a data transformation in which many points are used to delineate a mass spectral peak, is converted into mass-centroided data by a data compression algorithm. The centroided mass peak is located at the weighted center of mass of the profile peak. The normalized area of the peak provides the mass intensity data." []
synonym: "centroid mass spectrum calculation" EXACT []
synonym: "centroiding" EXACT []
is_a: OBI:0200085 ! mass spectrometry analysis

[Term]
id: OBI:0200066
name: Holm-Bonferroni family-wise error rate correction method
def: "a data transformation that performs more than one hypothesis test simultaneously, a closed-test procedure, that  controls the familywise error rate for all the k hypotheses at level α in the strong sense. Objective: multiple testing correction" []
is_a: OBI:0200073 ! family wise error rate correction method

[Term]
id: OBI:0200070
name: edge weighting
def: "Edge weighting is the substitution or transformation of edge length using numerical data.  Data input include a symmetric adjacency matrix for a network and a second data set, for example a list of interactor pairs and a confidence score associated with the experimental detection of each pair's interaction.  Each element in the adjacency matrix is transformed or replaced with the corresponding number in the second data set.  Output data are a modified adjacency matrix reflecting the transformed state of the network." []
is_a: OBI:0200080 ! network analysis

[Term]
id: OBI:0200071
name: loess transformation
def: "A loess transformation is a data transformation that takes as input a collection of real number pairs (x, y) and, after performing (one or more) loess fittings, utilizes the resulting curves to transform each (x, y) in the input into (x, y-f(x)) where f(x) is one of the fitted curves." []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200072
name: curve fitting data transformation
def: "A curve fitting is a data transformation that has objective curve fitting and that consists of finding a curve which matches a series of data points and possibly other constraints." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200073
name: family wise error rate correction method
def: "A family wise error rate correction method is a multiple testing procedure that controls the probability of at least one false positive." []
synonym: "FWER correction" EXACT []
is_a: OBI:0200089 ! multiple testing correction method

[Term]
id: OBI:0200074
name: submatrix extraction
def: "A submatrix extraction is a projection whose input is a matrix and whose output is a matrix obtained by selecting certain rows and columns from the input. (Note that, if one represents the input matrix as a vector obtained by concatenating its rows, then extracting a submatrix is equivalent to projecting this vector into that composed by the entries belonging to the rows and columns of interest from the input matrix.)" []
is_a: OBI:0200050 ! dimensionality reduction

[Term]
id: OBI:0200075
name: row submatrix extraction
def: "A row submatrix extraction is a submatrix extraction where all the columns of the input matrix are retained and selection only occurs on the rows." []
is_a: OBI:0200074 ! submatrix extraction

[Term]
id: OBI:0200076
name: column submatrix extraction
def: "A column submatrix extraction is a submatrix extraction where all the rows of the input matrix are retained and selection only occurs on the columns." []
is_a: OBI:0200074 ! submatrix extraction

[Term]
id: OBI:0200077
name: gating
def: "Gating is a property-based vector selection with the objective of partitioning a data vector set into vector subsets based on dimension values of individual vectors (events), in which vectors represent individual physical particles (often cells) of a sample and dimension values represent light intensity qualities as measured by flow cytometry." []
is_a: OBI:0200171 ! partitioning data transformation
is_a: OBI:0200182 ! data vector reduction data transformation

[Term]
id: OBI:0200078
name: descriptive statistical calculation objective
def: "A descriptive statistical calculation objective is a data transformation objective which concerns any calculation intended to describe a feature of a data set, for example, its center or its variability." []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200079
name: arithmetic mean calculation
def: "An arithmetic mean calculation is a descriptive statistics calculation in which the mean is calculated by taking the sum of all of the observations in a data set divided by the total number of observations. It gives a measure of the 'center of gravity' for the data set. It is also known as the first moment." []
is_a: OBI:0200170 ! averaging data transformation
is_a: OBI:0200181 ! center calculation data transformation
is_a: OBI:0200184 ! descriptive statistical calculation data transformation

[Term]
id: OBI:0200080
name: network analysis
def: "A data transformation that takes as input data that describes biological networks in terms of the node (a.k.a. vertex) and edge graph elements and their characteristics and generates as output properties of the constituent nodes and edges, the sub-graphs, and the entire network." []
synonym: "network topology analysis" EXACT []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200081
name: sequence analysis objective
def: "A sequence analysis objective is a data transformation objective which aims to analyse some ordered biological data for sequential patterns." []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200082
name: longitudinal data analysis
def: "Longitudinal analysis is a data transformation used to perform repeated observations of the same items over long periods of time." []
synonym: "correlation analysis" EXACT []
synonym: "longitudinal data analysis" EXACT []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200083
name: survival analysis objective
def: "A data transformation objective which has the data transformation aims to model time to event data (where events are e.g. death and or disease recurrence); the purpose of survival analysis is to model the underlying distribution of event times and to assess the dependence of the event time on other explanatory variables" []
synonym: "survival analysis" EXACT []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200085
name: mass spectrometry analysis
def: "A data transformation which has the objective of spectrum analysis." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200086
name: spread calculation data transformation
def: "A spread calculation is a data transformation that has objective spread calculation." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200088
name: Kaplan Meier
def: "a nonparametric (actuarial) data transformation technique for estimating time-related events. It is a univariate analysis that estimates the probability of the proportion of subjects in remission at a particular time, starting from the initiation of active date (time zero), and takes into account those lost to follow-up or not yet in remission at end of study (censored)" []
is_a: OBI:0200194 ! survival analysis data transformation

[Term]
id: OBI:0200089
name: multiple testing correction method
def: "A multiple testing correction method is a hypothesis test performed simultaneously on M > 1 hypotheses.  Multiple testing procedures produce a set of rejected hypotheses that is an estimate for the set of false null hypotheses while controlling for a suitably define Type I error rate" []
synonym: "multiple testing procedure" EXACT []
is_a: OBI:0000668 ! error correction data transformation

[Term]
id: OBI:0200091
name: inter-rater reliability objective
def: "a data transformation objective of determining the concordance or agreement between human judges." []
synonym: "inter-rater agreement" EXACT []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200092
name: Westfall and Young family wise error rate correction
def: "Is a data transformation process in which the Westfall and Young method is applied with the aim of controlling for multiple testing" []
synonym: "Westfall and Young FWER correction" EXACT []
is_a: OBI:0200073 ! family wise error rate correction method

[Term]
id: OBI:0200093
name: polynomial transformation
def: "A polynomial transformation is a data transformation that is obtained through a polynomial, where a polynomial is a mathematical expression involving a sum of powers in one or more variables multiplied by coefficients (e.g. see http://mathworld.wolfram.com/Polynomial.html). The number of variables and the degree are properties of a polynomial. The degree of a polynomial is the highest power of its terms, where the terms of a polynomial are the individual summands with the coefficients omitted." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200094
name: logarithmic transformation
def: "A logarithmic transformation is a data transformation consisting in the application of the logarithm function with a given base a (where a>0 and a is not equal to 1) to a (one dimensional) positive real number input. The logarithm function with base a can be defined as the inverse of the exponential function with the same base. See e.g. http://en.wikipedia.org/wiki/Logarithm." []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200095
name: exponential transformation
def: "An exponential transformation is a data transformation consisting in the application of the exponential function with a given base a (where a>0 and a is typically not equal to 1) to a (one dimensional) real number input. For alternative definitions and properties of this function see, e.g., http://en.wikipedia.org/wiki/Exponential_function and http://en.wikipedia.org/wiki/Characterizations_of_the_exponential_function." []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200097
name: non-negative matrix factorization
def: "Non negative matrix factorization is a data transformation in which factorises a matrix and which forces that all elements must be equal to or greater than zero." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200098
name: soft independent modeling of class analogy analysis
def: "Soft independent modeling by class analogy (SIMCA) is a descriptive statistics method for supervised classification of data. The method requires a training data set consisting of samples (or objects) with a set of attributes and their class membership. The term soft refers to the fact the classifier can identify samples as belonging to multiple classes and not necessarily producing a classification of samples into non-overlapping classes." []
synonym: "SIMCA" EXACT []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200099
name: discriminant function analysis
def: "Discriminant function analysis is a form of discriminant analysis used to determine which variables discriminate between two or more naturally occurring groups. Analysis is used to determine which variable(s) are the best predictors of a particular outcome." []
is_a: OBI:0000663 ! class prediction data transformation
is_a: OBI:0200106 ! discriminant analysis
is_a: OBI:0200175 ! class discovery data transformation

[Term]
id: OBI:0200100
name: canonical variate analysis
def: "canonical variate analysis is a form of discriminant analysis that takes several continuous predictor variables and uses the entire set to predict several criterion variables, each of which is also continuous. CVA simultaneously calculates a linear composite of all x variables and  a linear composite of all y variables. Unlike other multivariate techniques, these weighted composites are derived in pairs. Each linear combination is called a canonical variate and takes the general linear form." []
synonym: "CVA" EXACT []
is_a: OBI:0200106 ! discriminant analysis
is_a: OBI:0200171 ! partitioning data transformation

[Term]
id: OBI:0200101
name: linear discriminant functional analysis
def: "Linear discriminant functional analysis (LDFA) is a multivariate technique used in special applications where there are several intact groups (random assignment may be impossible) and they have been measured on several independent measures. Thus, you will want to describe how these groups differ on the basis of these measures. In this case, classification and prediction is the main objective." []
is_a: OBI:0000663 ! class prediction data transformation
is_a: OBI:0200106 ! discriminant analysis
is_a: OBI:0200175 ! class discovery data transformation

[Term]
id: OBI:0200102
name: regression analysis method
def: "Regression analysis is a descriptive statistics technique that examines the relation of a dependent variable (response variable) to specified independent variables (explanatory variables). Regression analysis can be used as a descriptive method of data analysis (such as curve fitting) without relying on any assumptions about underlying processes generating the data." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200103
name: multiple linear regression analysis
def: "multiple linear regression is a regression method that models the relationship between a dependent variable Y, independent variables Xi, i = 1, ..., p, and a random term epsilon. The model can be written as\n    Y = \\beta_0 + \\beta_1 X_1 + \\beta_2 X_2 + \\cdots +\\beta_p X_p + \\varepsilon\nwhere \\beta_0 =  0 is the intercept (\"constant\" term), the \\beta_i s  are the respective parameters of independent variables, and p is the number of parameters to be estimated in the linear regression." []
is_a: OBI:0200102 ! regression analysis method

[Term]
id: OBI:0200104
name: principal component regression
def: "The Principal Component Regression method is a regression analysis method that combines the Principal Component Analysis (PCA)spectral decomposition with an Inverse Least Squares (ILS) regression method to create a quantitative model for complex samples. Unlike quantitation methods based directly on Beer's Law which attempt to calculate the absorbtivity coefficients for the constituents of interest from a direct regression of the constituent concentrations onto the spectroscopic responses, the PCR method regresses the concentrations on the PCA scores." []
is_a: OBI:0200102 ! regression analysis method
is_a: OBI:0200175 ! class discovery data transformation

[Term]
id: OBI:0200105
name: partial least square regression analysis
def: "Partial least squares regression is an extension of the multiple linear regression model (see, e.g., Multiple Regression or General Stepwise Regression). In its simplest form, a linear model specifies the (linear) relationship between a dependent (response) variable Y, and a set of predictor variables, the X's, so that\nY = b0 + b1X1 + b2X2 + ... + bpXp\nIn this equation b0 is the regression coefficient for the intercept and the bi values are the regression coefficients (for variables 1 through p) computed from the data." []
synonym: "PLS-RA" EXACT []
is_a: OBI:0200102 ! regression analysis method

[Term]
id: OBI:0200106
name: discriminant analysis
def: "Discriminant function analysis is used to determine which variables discriminate between two or more naturally occurring groups. Analysis is used to determine which variable(s) are the best predictors of a particular outcome." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200107
name: partial least square discriminant analysis
def: "PLS Discriminant Analysis (PLS-DA) is a discriminant analysis performed in order to sharpen the separation between groups of observations, by hopefully rotating PCA (Principal Components Analysis) components such that a maximum separation among classes is obtained, and to understand which variables carry the class separating information." []
synonym: "PLS-DA" EXACT []
is_a: OBI:0200106 ! discriminant analysis

[Term]
id: OBI:0200108
name: eh transformation
def: "An eh transformation is a data transformation obtained by applying the function EH described in what follows to a (one dimensional) real number input. EH(x)=exp(x*d/r)+b*(d/r)*x-1, if x>=0, and EH(x)=-exp(-x*d/r)+b*(d/r)*x+1, otherwise. Here exp denotes an exponential transformation and b, d, r are positive real constants with the objective of normalization." []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200109
name: b transformation
def: "A b transformation is a data transformation obtained by applying the function B described in what follows to a (one dimensional) real number input. B(x)= a*exp(b*x)-c*exp(-d*x)+f, where exp denotes an exponential transformation and a, b, c, d, f are real constants with a, b, c, d positive with the objective of normalization." []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200110
name: s transformation
def: "An s transformation is a data transformation obtained by applying the function S described in what follows to a (one dimensional) real number input. S(x)=T*exp(w-m)*(exp(x-w)-(p^2)*exp((w-x)/p)+p^2-1) if x>=w, S(x)=-S(w-x) otherwise; where exp denotes an exponential_transformations, 'p^' denotes the exponential transformation with base p; T, w, m, p are real constants with T, m, and p positive and w non-negative, and where w and p are related by w=2p*ln(p)(p+1) with the objective of normalization." []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200111
name: data visualization
def: "A planned process with the objective to graphically represent some data by inputing the data and outputting images, diagrams or animations." []
synonym: "data encoding as image" EXACT []
synonym: "visualization" EXACT []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0200113
name: similarity calculation
def: "A similarity calculation is a data transformation that attaches to each pair of objects in the input a number that is meant to reflect how 'close' or 'similar' those objects are." []
is_a: OBI:0000663 ! class prediction data transformation
is_a: OBI:0200175 ! class discovery data transformation

[Term]
id: OBI:0200114
name: euclidean distance calculation
def: "An euclidean distance calculation is a similarity calculation that attaches to each pair of real number vectors of the same dimension n the square root of the sum of the square differences between corresponding components. The smaller this number, the more similar the two vectors are considered." []
is_a: OBI:0200113 ! similarity calculation

[Term]
id: OBI:0200115
name: pearson correlation coefficient calculation
def: "A pearson correlation coefficient calculation is a similarity calculation which attaches to each pair of random variables X and Y the ratio of their covariance by the product of their standard deviations. Given a series of n measurements of X and Y written as x_i and y_i where i = 1, 2, ..., n, then their Pearson correlation coefficient refers to the \"sample correlation coefficient\" and is written as the sum over i of the ratios (x_i-xbar)*(y_i-ybar)/((n-1)*s_x*s_y) where xbar and ybar are the sample means of X and Y , s_x and s_y are the sample standard deviations of X and Y. The closer the pearson correlation coefficient is to 1, the more similar the inputs are considered." []
is_a: OBI:0200113 ! similarity calculation

[Term]
id: OBI:0200116
name: loess fitting
def: "A loess fitting is a curve fitting obtained by localized regression. The latter refers to fitting a polynomial (straight line, quadratic, cubic, etc) to data values within a window covering a fraction of the total number of observations. As the window slides along the axis, a new polynomial is fit to the observations falling within the window. This continues until all points are fit with a local polynomial. The results are then smoothed together to form a curve. The smoothness of loess fits is controlled by a smoothing parameter (often denoted as alpha, usually between 1/4 and 1) and the degree of the polynomial that is fitted by the method (usually denoted by lambda)." []
is_a: OBI:0200072 ! curve fitting data transformation

[Term]
id: OBI:0200117
name: mode calculation
def: "A mode calculation is a descriptive statistics calculation in which the mode is calculated which is the most common value in a data set. It is most often used as a measure of center for discrete data." []
is_a: OBI:0200181 ! center calculation data transformation
is_a: OBI:0200184 ! descriptive statistical calculation data transformation

[Term]
id: OBI:0200118
name: quantile calculation
def: "A quantile calculation is a descriptive statistics calculation in which the kth quantile is the data value for which an approximate k fraction of the data is less than or equal to that value.  See http://www.stat.wvu.edu/SRS/Modules/Quantiles/quantiles.html for details." []
is_a: OBI:0200184 ! descriptive statistical calculation data transformation

[Term]
id: OBI:0200119
name: median calculation
def: "A median calculation is a  descriptive statistics calculation in which the midpoint of the data set (the 0.5 quantile) is calculated.  First, the observations are sorted in increasing order.  For an odd number of observations, the median is the middle value of the sorted data.  For an even number of observations, the median is the average of the two middle values." []
is_a: OBI:0200181 ! center calculation data transformation
is_a: OBI:0200184 ! descriptive statistical calculation data transformation

[Term]
id: OBI:0200120
name: variance calculation
def: "A variance calculation is a descriptive statistics calculation in which the variance is defined as the average squared distance of each observation in the data set to the mean of the data set.  It is also known as the second central moment." []
is_a: OBI:0200086 ! spread calculation data transformation
is_a: OBI:0200184 ! descriptive statistical calculation data transformation

[Term]
id: OBI:0200121
name: standard deviation calculation
def: "A standard deviation calculation is a descriptive statistics calculation defined as the square root of the variance.  Also thought of as the average distance of each value to the mean." []
is_a: OBI:0200086 ! spread calculation data transformation
is_a: OBI:0200184 ! descriptive statistical calculation data transformation

[Term]
id: OBI:0200122
name: interquartile-range calculation
def: "The interquartile range is a descriptive statistics calculation defined as the difference between the 0.75 quantile and the 0.25 quantile for a set of data." []
is_a: OBI:0200086 ! spread calculation data transformation
is_a: OBI:0200184 ! descriptive statistical calculation data transformation

[Term]
id: OBI:0200123
name: skewness calculation
def: "A skewness calculation is a descriptive statistics calculation defined as a parameter that describes how much a distribution (or a data set) varies from a bell-shaped curve.  See http://www.riskglossary.com/link/skewness.htm for details.  It is also known as the third central moment" []
is_a: OBI:0200181 ! center calculation data transformation
is_a: OBI:0200184 ! descriptive statistical calculation data transformation

[Term]
id: OBI:0200124
name: kurtosis calculation
def: "A kurtosis calculation is a descriptive statistics calculation defined as a parameter that measures how large or small the tails of a distribution are relative to the mean.  For details, see http://davidmlane.com/hyperstat/A53638.html" []
is_a: OBI:0200086 ! spread calculation data transformation
is_a: OBI:0200184 ! descriptive statistical calculation data transformation

[Term]
id: OBI:0200125
name: data combination
def: "A data transformation in which individual input data elements and values are merged together into a output set of data elements and values." []
synonym: "data pooling" EXACT []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200126
name: network graph construction
def: "A network analysis in which an input data set describing objects and relationships between objects is transformed into an output representation of these objects as nodes and the relationships as edges of a network graph." []
is_a: OBI:0200080 ! network analysis

[Term]
id: OBI:0200127
name: weighted network graph construction
def: "A network graph construction in which an input data set describing objects and quantitative relationships between objects is transformed into and output representation of these objects as nodes and the quantitative relationships as weighted edges of a network graph." []
is_a: OBI:0200126 ! network graph construction

[Term]
id: OBI:0200128
name: directed network graph construction
def: "A network graph construction in which an input data set describing objects and directional relationships between objects is transformed into and output representation of these objects as nodes and the directional relationships as directed edges of a network graph." []
is_a: OBI:0200126 ! network graph construction

[Term]
id: OBI:0200129
name: node quality calculation
def: "A network analysis in which an input data set describing node objects and edge relationships between node objects is used to determine the output quality of one of the node objects in the network." []
is_a: OBI:0200080 ! network analysis

[Term]
id: OBI:0200130
name: node degree calculation
def: "A node quality calculation in which an input data set describing object nodes and relationship edges between object nodes is used to enumerate the number of unique relationships of an individual object node." []
is_a: OBI:0200129 ! node quality calculation

[Term]
id: OBI:0200131
name: quantitative node degree calculation
def: "A node quality calculation in which an input data set describing object nodes and quantitative relationship edges between object nodes is used to sum all of the quantitative relationships of an individual object node." []
is_a: OBI:0200129 ! node quality calculation

[Term]
id: OBI:0200132
name: node in-degree calculation
def: "A node quality calculation in which an input data set describing object nodes and directional relationship edges between object nodes is used to enumerate the number of unique relationships pointing into an individual object node." []
is_a: OBI:0200129 ! node quality calculation

[Term]
id: OBI:0200133
name: node out-degree calculation
def: "A node quality calculation in which an input data set describing object nodes and directional relationship edges between object nodes is used to enumerate the number of unique relationships pointing out of an individual object node." []
is_a: OBI:0200129 ! node quality calculation

[Term]
id: OBI:0200134
name: node shortest path identification
def: "A node quality calculation in which a path describing the shortest path needed to transverse through connected nodes and edges to arrive at a specific target node in the network." []
is_a: OBI:0200129 ! node quality calculation

[Term]
id: OBI:0200135
name: edge quality calculation
def: "A network analysis in which an input data set describing node objects and edge relationships between node objects is used to determine the output quality of one of the edge relationships in the network." []
is_a: OBI:0200080 ! network analysis

[Term]
id: OBI:0200136
name: edge betweenness calculation
def: "An edge quality calculation in which the input is a data sets of shortest paths between all pairs of node in the network and the output is the sum of all shortest paths that traverse the specific edge." []
is_a: OBI:0200135 ! edge quality calculation

[Term]
id: OBI:0200137
name: network subgraph quality calculation
def: "A network analysis in which an input data set describing node objects and edge relationships between node objects is used to determine the output quality of a subgraph partition of the network." []
is_a: OBI:0200080 ! network analysis

[Term]
id: OBI:0200138
name: subgraph degree calculation
def: "A network subgraph quality calculation in which an input data set describing subgraphs and relationship edges between subgraphs and other network objects is used to enumerate the number of unique relationships of an individual subgraph." []
is_a: OBI:0200137 ! network subgraph quality calculation

[Term]
id: OBI:0200139
name: quantitative subgraph degree calculation
def: "A network subgraph quality calculation in which an input data set describing subgraphs and quantitative relationship edges between subgraphs and other network objects is used to sum the quantitative relationships of an individual subgraph." []
is_a: OBI:0200137 ! network subgraph quality calculation

[Term]
id: OBI:0200140
name: mathematical feature
def: "feature is a (parent_class) that describes a characteristic, trait or quality of a data transformation" []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200141
name: log base
def: "The log base is a feature of a logarithmic function which is defined in http://en.wikipedia.org/wiki/Logarithm. Its value can be any positive real number different from 1." []
synonym: "logarithm base" EXACT []
synonym: "logarithmic base" EXACT []
is_a: OBI:0200140 ! mathematical feature

[Term]
id: OBI:0200143
name: subgraph in-degree calculation
def: "A network subgraph quality calculation in which an input data set describing subgraphs and directional relationship edges between subgraphs and other network objects is used to enumerate the number of unique relationships pointing into an individual subgraph." []
is_a: OBI:0200137 ! network subgraph quality calculation

[Term]
id: OBI:0200144
name: subgraph out-degree calculation
def: "A network subgraph quality calculation in which an input data set describing subgraphs and relationship edges between subgraphs and other network objects is used to enumerate the number of unique relationships pointing out of an individual subgraph." []
is_a: OBI:0200137 ! network subgraph quality calculation

[Term]
id: OBI:0200145
name: intra subgraph connectivity calculation
def: "A network subgraph quality calculation in which an input data set describing internal nodes, edges and node degrees is used to determine the average node degree within the subgraph." []
is_a: OBI:0200137 ! network subgraph quality calculation

[Term]
id: OBI:0200146
name: subgraph modularity calculation
def: "A network subgraph quality calculation in which an input data set of subgraph in-degree and out-degree qualities is used to calculate the ratio of indegree to outdegree as a measure of modularity." []
is_a: OBI:0200137 ! network subgraph quality calculation

[Term]
id: OBI:0200147
name: network graph quality calculation
def: "A network analysis in which an input data set describing node objects and edge relationships between node objects is used to determine the output quality of the network as a whole." []
is_a: OBI:0200080 ! network analysis

[Term]
id: OBI:0200149
name: unit-variance scaling
def: "A unit-variance scaling is a data transformation that divides all measurements of a variable by the standard deviation of that variable." []
synonym: "autoscaling" EXACT []
is_a: OBI:0200169 ! normalization data transformation

[Term]
id: OBI:0200150
name: MA transformation
def: "An MA transformation is a data transformation which takes as input a collection of data points (g_1, r_1), (g_2, r_2), ..., (g_n, r_n)  with the r_i and g_i positive real numbers, and whose output is the collection of data points (A_1, M_1), (A_2, M_2), ..., (A_n, M_n) where, for each i, A_i=(log(g_i)+log(r_i))/2 and M_i=log(r_i)-log(g_i). Here log denotes a logarithmic transformation." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200151
name: exponential base
def: "The exponential base is a feature of an exponential function which is defined in http://en.wikipedia.org/wiki/Exponential_function. Its value can be any positive real number (typically different from 1)." []
is_a: OBI:0200140 ! mathematical feature

[Term]
id: OBI:0200152
name: polynomial degree
def: "The polynomial degree is a feature of a polynomial function defined as the highest power of the polynomial's terms, where the terms of a polynomial are the individual summands with the coefficients omitted." []
is_a: OBI:0200140 ! mathematical feature

[Term]
id: OBI:0200153
name: number of variables
def: "The number of variables is a feature of any function (including polynomial functions) with domain contained in an n-dimensional vector space and is defined as n, the dimension of such space." []
is_a: OBI:0200140 ! mathematical feature

[Term]
id: OBI:0200154
name: agglomerative hierarchical clustering
def: "An agglomerative hierarchical clustering is a hierarchical clustering which starts with separate clusters and then successively combines these clusters until there is only one cluster remaining." []
synonym: "bottom-up hierarchical clustering" EXACT []
is_a: OBI:0200042 ! hierarchical clustering

[Term]
id: OBI:0200155
name: divisive hierarchical clustering
def: "A divisive hierarchical clustering is a hierarchical clustering which starts with a single cluster and then successively splits resulting clusters until only clusters of individual objects remain." []
synonym: "top-down hierarchical clustering" EXACT []
is_a: OBI:0200042 ! hierarchical clustering

[Term]
id: OBI:0200156
name: data partitioning
def: "Data partitioning is a data transformation with the objective of partitioning or separating input data into output subsets." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200157
name: data vector reduction objective
def: "Data vector reduction is a data transformation objective in which k m-dimensional input vectors are reduced to j m-dimensional output vectors, where j is smaller than k." []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200160
name: generalized family wise error rate correction method
def: "A generalized FWER correction method is a multiple testing procedure that controls the probability of at least k+1 false positives, where k is a user-supplied integer." []
synonym: "gFWER correction" EXACT []
is_a: OBI:0200089 ! multiple testing correction method

[Term]
id: OBI:0200161
name: quantile number of false positives correction method
def: "A quantile number of false positives correction method is a MTP that controls for the pth quantile of the distribution of the number of false positives out of the total number of tests performed'" []
synonym: "QNFP" EXACT []
is_a: OBI:0200089 ! multiple testing correction method

[Term]
id: OBI:0200162
name: tail probability for the proportion of false positives correction method
def: "A TPPFP correction method is a MTP that controls the probability that the proportion of false positives among all rejected hypotheses is no greater than a constant q, where q is between 0 and 1." []
synonym: "TPPFP correction method" EXACT []
is_a: OBI:0200089 ! multiple testing correction method

[Term]
id: OBI:0200163
name: false discovery rate correction method
def: "The false discovery rate is a  data transformation used in multiple hypothesis testing to correct for multiple comparisons. It controls the expected proportion of incorrectly rejected null hypotheses (type I errors) in a list of rejected hypotheses. It is a less conservative comparison procedure with greater power than familywise error rate (FWER) control, at a cost of increasing the likelihood of obtaining type I errors. ." []
synonym: "FDR correction method" EXACT []
is_a: OBI:0200089 ! multiple testing correction method

[Term]
id: OBI:0200164
name: proportion of expected false positives correction method
def: "A proportion of expected false positives correction method is a multiple testing procedure that controls the ratio of the expected value of the numbers of false positives to the expected value of the numbers of rejected hypotheses." []
synonym: "PEFP correction method" EXACT []
is_a: OBI:0200089 ! multiple testing correction method

[Term]
id: OBI:0200165
name: quantile proportion of false positives correction method
def: "A quantile proportion of false positives correction method is a multiple testing procedure that controls the pth quantile of the distribution of the proportion of false positives among the rejected hypothesis (false discovery rate)." []
synonym: "QPFP correction method" EXACT []
is_a: OBI:0200089 ! multiple testing correction method

[Term]
id: OBI:0200166
name: data transformation objective
def: "An objective specification to transformation input data into output data" []
is_a: IAO:0000005 ! objective specification

[Term]
id: OBI:0200167
name: data normalization objective
def: "A normalization objective is a data transformation objective where the aim is to remove\nsystematic sources of variation to put the data on equal footing in order\nto create a common base for comparisons." []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200168
name: correction objective
def: "A correction objective is a data transformation objective where the aim is to correct for error, noise or other impairments to the input of the data transformation or derived from the data transformation itself" []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200169
name: normalization data transformation
def: "A normalization data transformation is a data transformation that has objective normalization." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200170
name: averaging data transformation
def: "An averaging data transformation is a data transformation that has objective averaging." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200171
name: partitioning data transformation
def: "A partitioning data transformation is a data transformation that has objective partitioning." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200172
name: partitioning objective
def: "A partitioning objective is a data transformation objective where the aim is to generate a collection of disjoint non-empty subsets whose union equals a non-empty input set." []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200173
name: background correction objective
def: "A background correction objective is a data transformation objective where the aim is to remove irrelevant contributions from the measured signal, e.g. those due to instrument noise or sample preparation." []
is_a: OBI:0200168 ! correction objective

[Term]
id: OBI:0200174
name: curve fitting objective
def: "A curve fitting objective is a data transformation objective in which the aim is to find a curve which matches a series of data points and possibly other constraints." []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200175
name: class discovery data transformation
def: "A class discovery data transformation (sometimes called unsupervised classification) is a data transformation that has objective class discovery." []
synonym: "clustering data transformation" EXACT []
synonym: "unsupervised classification data transformation" EXACT []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200176
name: Fisher's exact test
def: "Fisher's exact test is a data transformation used to determine if there are nonrandom associations between two Fisher's exact test is a statistical significance test used in the analysis of contingency tables where sample sizes are small where the significance of the deviation from a null hypothesis can be calculated exactly, rather than relying on an approximation that becomes exact in the limit as the sample size grows to infinity, as with many statistical tests." []
is_a: OBI:0000673 ! statistical hypothesis test

[Term]
id: OBI:0200177
name: center calculation objective
def: "A center calculation objective is a data transformation objective where the aim is to calculate the center of an input data set." []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200178
name: class discovery objective
def: "A class discovery objective (sometimes called unsupervised classification) is a data transformation objective where the aim is to organize input data  (typically vectors of attributes) into classes, where the number of classes and their specifications are not known a priori. Depending on usage, the class assignment can be definite or probabilistic." []
synonym: "clustering objective" EXACT []
synonym: "discriminant analysis objective" EXACT []
synonym: "unsupervised classification objective" EXACT []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200179
name: class prediction objective
def: "A class prediction objective (sometimes called supervised classification) is a data transformation objective where the aim is to create a predictor from training data through a machine learning technique. The training data consist of pairs of objects (typically vectors of attributes) and\nclass labels for these objects. The resulting predictor can be used to attach class labels to any valid novel input object. Depending on usage, the prediction can be definite or probabilistic. A classification is learned from the training data and can then be tested on test data." []
synonym: "classification objective" EXACT []
synonym: "supervised classification objective" EXACT []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200180
name: spread calculation objective
def: "is a data transformation objective whereby the aim is to the calculate the spread of a dataset, spread is a descriptive statistic which describes the variability of values in a data set." []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200181
name: center calculation data transformation
def: "A center calculation data transformation is a data transformation that has objective of center calculation." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200182
name: data vector reduction data transformation
def: "A data vector reduction is a data transformation that has objective data vector reduction and that consists of reducing the input vectors k to a smaller number of output vectors j, where j<k." []
is_a: OBI:0000707 ! decision tree building data transformation

[Term]
id: OBI:0200183
name: scaling objective
def: "is a data transformation objective where all, or some of a data set is adjusted by some data transformation according to some scale, for example a user defined minimum or maximum" []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200184
name: descriptive statistical calculation data transformation
def: "A descriptive statistical calculation data transformation is a data transformation that has objective descriptive statistical calculation and which concerns any calculation intended to describe a feature of a data set, for example, its center or its variability." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200185
name: scaling data transformation
def: "A scaling data transformation is a data transformation that has objective scaling." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200186
name: error correction objective
def: "An error correction objective is a data transformation objective where the aim is to remove (correct for) erroneous contributions arising from the input data, or the transformation itself." []
is_a: OBI:0200168 ! correction objective

[Term]
id: OBI:0200187
name: sequence analysis data transformation
def: "A sequence analysis data transformation is a data transformation that has objective sequence analysis and has the aim of analysing ordered biological data for sequential patterns." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200188
name: cross validation objective
def: "A cross validation objective is a data transformation objective in which the aim is to partition a sample of data into subsets such that the analysis is initially performed on a single subset, while the other subset(s) are retained for subsequent use in confirming and validating the initial analysis." []
synonym: "rotation estimation objective" EXACT []
is_a: OBI:0200172 ! partitioning objective

[Term]
id: OBI:0200189
name: merging objective
def: "A merging objective is a data transformation objective in which the data transformation has the aim of performing a union of two or more sets." []
synonym: "combining objective" EXACT []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200190
name: clustered data visualization
def: "A data visualization which has input of a clustered data set and produces an output of a report graph which is capable of rendering data of this type." []
is_a: OBI:0200111 ! data visualization

[Term]
id: OBI:0200191
name: gene list visualization
def: "Adata visualization which has input of a gene list and produces an output of a report graph which is capable of rendering data of this type." []
is_a: OBI:0200111 ! data visualization

[Term]
id: OBI:0200192
name: classified data visualization
def: "A data visualization which has input of a classified data set and produces an output of a report graph which is capable of rendering data of this type." []
is_a: OBI:0200111 ! data visualization

[Term]
id: OBI:0200193
name: background corrected data visualization
def: "A data visualization which has input of a background corrected data set and produces an output of a report graph which is capable of rendering data of this type." []
is_a: OBI:0200111 ! data visualization

[Term]
id: OBI:0200194
name: survival analysis data transformation
def: "A data transformation which has the objective of performing survival analysis." []
is_a: OBI:0200000 ! data transformation

[Term]
id: OBI:0200195
name: proportional hazards model estimation
def: "Proportional hazards model is a data transformation model to estimate the effects of different covariates influencing the times-to-failure of a system." []
synonym: "Cox model" EXACT []
synonym: "Cox proportional hazards model" EXACT []
is_a: OBI:0200194 ! survival analysis data transformation

[Term]
id: OBI:0200196
name: correlation study objective
def: "A data transformation objective in which correlation is obtained (often measured as a correlation coefficient, ρ) which indicates the strength and direction of a relationship between two random variables." []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200197
name: spectrum analysis objective
def: "is a data transformation objective where the aim is to analyse some aspect of spectral data by some data transformation process." []
is_a: OBI:0200166 ! data transformation objective

[Term]
id: OBI:0200198
name: obsolete tandem mass spectrometry
def: "Tandem mass spectrometry is a data transformation that uses two or more analyzers separated by a region in which ions can be induced to fragment by transfer of energy (frequently by collision with other molecules." []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: OBI:0003540

[Term]
id: OBI:0200199
name: gas chromatography mass spectrometry
def: "Gas chromatography mass spectrometry is a data transformation combining mass spectrometry and  \ngas chromatography for the qualitative as well as quantitative  \ndeterminations of compounds." []
is_a: OBI:0200085 ! mass spectrometry analysis

[Term]
id: OBI:0200200
name: chi square test
def: "The chi-square test is a data transformation with the objective of statistical hypothesis testing, in which the sampling distribution of the test statistic is a chi-square distribution when the null hypothesis is true, or any in which this is asymptotically true, meaning that the sampling distribution (if the null hypothesis is true) can be made to approximate a chi-square distribution as closely as desired by making the sample size large enough." []
is_a: OBI:0000673 ! statistical hypothesis test

[Term]
id: OBI:0200201
name: ANOVA
def: "A statistical hypothesis test in which the means of several groups are all equal." []
is_a: OBI:0000673 ! statistical hypothesis test

[Term]
id: OBI:0300310
name: sequential design
def: "Any design in which the decision as to whether to enroll the next patient, pair of patients, or block of patients is determined by whether the cumulative treatment difference for all previous patients is within specified limits.  Enrollment is continued if the difference does not exceed the limits.  It is terminated if it does" []
is_a: OBI:0000115 ! intervention design

[Term]
id: OBI:0300311
name: observation design
def: "observation design is a study design in which subjects are monitored in the absence of any active intervention by experimentalists." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0302714
name: obsolete_collection (of entities of organismal origin)
def: "a collection is a bfo:aggregate object, that is a set of material object of the same kind" []
synonym: "ensemble" EXACT []
synonym: "group" EXACT []
synonym: "set" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0302716
name: pool of specimens
def: "A pool of specimens is a mixture of a population of samples which have been gathered from one or more sample populations, obtained by the physical process of mixing individual specimens, e.g.  mixing the DNA collected from the individual fish." []
is_a: OBI:0100051 ! specimen

[Term]
id: OBI:0302729
name: chemical solution
def: "A material entity  that is made up of at least 2 scattered molecular aggregates, one playing the role of solvent and the other one playing the role of solute." []
synonym: "liquid chemical solution" EXACT []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0302731
name: buffer role
def: "a role which inheres in some molecular entity realized during the process of buffering" []
synonym: "buffer" EXACT []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0302732
name: solvent role
def: "solvent role is a role which inheres in a molecular entity capable of ensuring the dissolution of another chemical entity and realized by the process of solvation" []
is_a: OBI:0003610 ! reactant role

[Term]
id: OBI:0302733
name: solute role
def: "solute role is a role played by a chemical entity which is dissolved by another chemical entity (the solvent) when creating a solution" []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0302736
name: DNA damage comet assay
def: "A cell based DNA damage assay that measures DNA damage (DNA breakage) in eucaryotic cells exposed to a challenge by determining the size and shape of DNA migration by detecting fluorescently labeled DNA from a cell placed in an electric field using gel electrophoresis" []
synonym: "comet assay" EXACT []
synonym: "SCGE assay" EXACT []
synonym: "single cell gel electrophoresis assay" EXACT []
is_a: OBI:0001501 ! fluorescence detection assay
is_a: OBI:0003721 ! cell based DNA damage assay

[Term]
id: OBI:0302737
name: PCR-SSCP assay
def: "An assay that identifies DNA sequence variation (mutation, deletion, insertions) in target DNA sequences amplified using polymerase chain reaction using gel electrophoresis and denaturating conditions" []
synonym: "polymerase chain reaction-single strand conformation polymorphism assay" EXACT []
is_a: OBI:0000435 ! genotyping assay
is_a: OBI:0002692 ! polymerase chain reaction assay

[Term]
id: OBI:0302743
name: obsolete_liver
def: "liver is an anatomical entity which constituent are mainly hepatocytes, which has a function of detoxification, hematopoietic center, glucose and fat metabolism management. liver is only found in animals , all Vertebrates and some families of invertebrates" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0302745
name: obsolete_adipose tissue
def: "adipose tissue is a tissue which main constituents are adipocytes. adipose tissue can be classified base on its location (site) but also based on adipocyte subtypes (brown or white) which reflect functional differences and is only found in animals, Vertebrates or invertebrates." []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0302835
name: denatured polymer
def: "Is a polymer which has lost secondary or tertiary structure" []
is_a: CHEBI:33839 ! macromolecule

[Term]
id: OBI:0302837
name: decapitated organism
def: "decapitated organism is an organism which has had it's head removed" []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:0302838
name: validated information
def: "an information content entity which results from a validation process aimed at confirming a claim, a finding or a predicted information entity about a material entity or a process by experimental means." []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0302840
name: curated information
def: "An information content entity that has undergone a digital curation performed by a curator for accuracy checks and compliance with curation requirements. Information which has been assessed for accuracy by domain experts." []
is_a: IAO:0000030 ! information content entity

[Term]
id: OBI:0302846
name: randomized group participant role
def: "a role that borne by an organism and realized by some group randomization process" []
is_a: BFO:0000023 ! role

[Term]
id: OBI:0302847
name: methylated polymer
def: "A methylated polymer which has artificially acquired one or more methyl groups" []
is_a: CHEBI:33839 ! macromolecule

[Term]
id: OBI:0302859
name: genetically modified organism
def: "an organism that is the output of a genetic transformation process" []
is_a: COB:0000022 ! organism
is_a: OBI:0001151 ! genetically modified material

[Term]
id: OBI:0302867
name: predicted data item
def: "A data item that was generated on the basis of a calculation or logical reasoning" []
is_a: IAO:0000027 ! data item

[Term]
id: OBI:0302868
name: mean-centered data
def: "a data item which has been processed by a mean centering data transformation where each output value is produced by subtracting the mean from the inout value" []
is_a: OBI:0000451 ! normalized data set

[Term]
id: OBI:0302874
name: edited document
def: "A document which is the output of a document editing process" []
is_a: IAO:0000310 ! document

[Term]
id: OBI:0302876
name: dissolved material entity
def: "A material entity that has been going through a process of being put into solution" []
is_a: OBI:0000576 ! scattered molecular aggregate

[Term]
id: OBI:0302884
name: extraction
def: "A material separation in which a desired component of an input material is separated from the remainder" []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0302885
name: filtration
def: "filtration is a process which separates components suspended in a fluid based on granularity properties relying on a filter device" []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0302886
name: centrifugation
def: "centrifugation is a process separating molecules by size or density using centrifugal forces generated by a spinning rotor. G-forces of several hundred thousand times gravity are generated in ultracentrifugation" []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0302887
name: staining
def: "Staining is a process which results in the addition a class-specific (DNA, proteins, lipids, carbohydrates) dye to a substrate to qualify or quantify the presence of a specific compound." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0302888
name: washing
def: "washing is a process by which a material entity acting as  contaminant (e.g. excess staining reagent) is removed by application of one or more cycles of solution in flow." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0302889
name: planned irradiation
def: "A planned process by which a material entity is exposed to radiative energy, which could be ionizing radiation (such as gamma rays, X-rays, charged particles or neutrons) or non-ionizing radiation (such as UV light or microwaves)" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0302890
name: polymerization
def: "polymerization is process by which molecular entity of small mass are aggregated in motifs over the course of a chemical reaction catalyzed by enzymes or other molecular entities acting as catalyst. polymerization results in molecular entity of high molecular weight" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0302891
name: trypsination
def: "trypsination is a protease cleavage which uses enzyme trypsin to act on proteins present in an input material entity" []
is_a: OBI:0600056 ! protease cleavage

[Term]
id: OBI:0302892
name: enzymatic ligation
def: "An enzymatic ligation is a planned process in which molecules  are joined by covalent bonds through the action of an material entity with a ligase activity" []
is_a: COB:0000110 ! material processing

[Term]
id: OBI:0302893
name: storage
def: "A planned process with the objective to preserve and protect material entities by placing them in an identified location which may have a controlled environment." []
is_a: OBI:0000838 ! material maintenance

[Term]
id: OBI:0302894
name: cell lysis
def: "cell lysis is a process by which cell membrane integrity of live cells  is compromised and leads to cell death. Cell lysis may be achieved by means of viral action or osmotic shock." []
is_a: OBI:0600006 ! killing

[Term]
id: OBI:0302895
name: electrocution
def: "electrocution is process by which electric current is applied to a material with quality alive and result the termination of life process." []
is_a: OBI:0000919 ! animal euthanization

[Term]
id: OBI:0302896
name: cervical dislocation
def: "cervical dislocation is a process by which a Vertebrate organism has its life terminated by rupturing spinal cord between cervical vertebrae induced by excessive mechanical torsion" []
is_a: OBI:0000919 ! animal euthanization

[Term]
id: OBI:0302897
name: asphyxiation
def: "asphyxiation is a process by which oxygen supplies are restricted (by mechanical, e.g obstructing airways or chemical means, e.g. increasing CO2 partial pressure) resulting in termination of life in oxygen reliant organisms." []
is_a: OBI:0000919 ! animal euthanization

[Term]
id: OBI:0302898
name: intentional overdosing
def: "intentional overdosing is a process by which an excess dose of a chemical compound is given with the intent of causing death" []
synonym: "lethal injection" EXACT []
is_a: OBI:0000919 ! animal euthanization

[Term]
id: OBI:0302899
name: decapitation
def: "decapitation is a process by which the head of a living organism is physically removed from the body, usually resulting in rapid death (in the case of Rhodnius prolixus, it might take a bit longer..)" []
is_a: OBI:0000919 ! animal euthanization

[Term]
id: OBI:0302900
name: group randomization
def: "A group assignment which relies on chance to assign materials to a group of materials in order to avoid bias in experimental set up." []
is_a: OBI:0600015 ! group assignment

[Term]
id: OBI:0302901
name: obsolete_activation
def: "a process by which a material entity status is modified and conferred a capability of reacting (this sounds like a circular definition , hugh!)" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0302902
name: immobilization
def: "immbolization is a process by which material entity become (possibly covalently but not necessarily) attached to the surface of another material entity used a substratum." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0302903
name: nucleic acid hybridization
def: "a planned process by which totally or partially complementary, single-stranded nucleic acids are  combined into a single molecule called heteroduplex or homoduplex to an extent depending on the amount of complementarity." []
synonym: "hybridization assay" EXACT []
is_a: COB:0000110 ! material processing

[Term]
id: OBI:0302905
name: elution
def: "the process of extracting one material from another by washing with a solvent to remove adsorbed material from an adsorbent (as in washing of loaded ion-exchange resins to remove captured ions)" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0302906
name: DNA Subtraction
def: "a material separation process by which repetitive genomic DNA is removed during the construction of cDNA library." []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0302908
name: document editing
def: "is a planned process with specified input original document and specified output edited document" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0302910
name: prediction
def: "a process by which an  event or an entity is described before it actually happens or is being discovered and identified." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0302911
name: validation
def: "a planned process with objective to check that the accuracy or the quality of a claim or prediction  satisfies some criteria and which is assessed by comparing with independent results" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0302912
name: electroporation
def: "a process in which a significant increase in the electrical conductivity and permeability of the cell plasma membrane caused by an externally applied electrical field. It is usually used in molecular biology as a way of introducing some substance into a cell, such as loading it with a molecular probe, a drug that can change the cell's function, or a piece of coding DNA" []
synonym: "electropermeabilization" EXACT []
is_a: OBI:0600033 ! cell permeabilization

[Term]
id: OBI:0302914
name: digital curation
def: "Digital curation is the process of establishing and developing long term repositories of digital assets for current and future reference by researchers, scientists, and historians, and scholars generally." []
is_a: IAO:0000572 ! documenting

[Term]
id: OBI:0400005
name: A10-Analyzer
def: "A A10 is a flow_cytometer_analyser manufactured by Apogee. It uses an arc lamp as a light source, with choices of 75W Xe, 75W Xe/Hg or 100W Hg arc lamps. It has filters and collectors for up to three fluorescent parameters and two scatter parameters. It uses analog electronics. The A10 can be used for measuring the properties of individual cells." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400006
name: A40-MiniFCM
def: "A A40-MiniFCM is a flow_cytometer_analyser that allows for the choice of one of four lasers (375nm, 405nm,488nm, 532nm, 635nm), and PMTs and filters for collecting up to four parameters. It uses digital electronics. A military version of this cytometer is available as well. The A40-MiniFCM is geared towards the most demanding applications such as archaea, bacteria and large virus." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400007
name: analog-to-digital converter
def: "An analog-to-digital_converter is an instrument that converts an infinite resolution analog signal to a finite resolution digital signal." []
synonym: "A-D" EXACT []
synonym: "A2D" EXACT []
is_a: COB:0001300 ! device

[Term]
id: OBI:0400008
name: flow cytometer analyzer
def: "An analyser is a flow_cytometer that is used to measure properties of particles (whole cells, nuclei, chromosomes, diatoms, plankton, bacteria, viruses) by moving these particles through a detection chamber. An analyser is used to collect data for analysis." []
is_a: OBI:0400044 ! flow cytometer

[Term]
id: OBI:0400009
name: arc lamp
def: "Arc lamp is a light source that produces light by an electric arc (or voltaic arc). The lamp consists of two electrodes typically made of tungsten which are separated by a gas. The type of lamp is often named by the gas contained in the bulb; including neon, argon, xenon, krypton, sodium, metal halide, and mercury. The electric arc in an arc lamp consists of gas which is initially ionized by a voltage and is therefore electrically conductive. To start an arc lamp, usually a very high voltage is needed to ignite or strike the arc. This requires an electrical circuit sometimes called an igniter, which is part of a larger circuit called the ballast. The ballast supplies a suitable voltage and current to the lamp as its electrical characteristics change with temperature and time. Older cytometers may use arc lamps to irradiate particles at the interrogation point." []
is_a: OBI:0400065 ! light source

[Term]
id: OBI:0400010
name: argon ion laser
def: "An argon-ion laser is an ion laser that uses argon ions as the lasing medium. These lasers are used primarily to emit light at wave lengths of 458 nm, 488 nm or 514.5 nm, though it is possible to use them to emit several wavelengths of blue and green light. Argon-ion lasers can emit light at many different wave lenghts, and excite a number of different flourochromes." []
is_a: OBI:0400060 ! ion laser

[Term]
id: OBI:0400011
name: avalanche photodiode
def: "An avalanche photodiode is typically used to collect photons emitted by forward scatter because it is far less sensitive, and less likely o be burned out, than a PMT. A photodiode with high quantum efficiency and a mechanism for producing gains as high as a few thousand." []
is_a: OBI:0400083 ! photodiode

[Term]
id: OBI:0400012
name: Bactiflow
def: "A Bactiflow is a flow_cytometer_analyser manufactured by Chemunex SA. It is a cell counter for bacteria and other micro organisms. Bacteria are stained with a fluorochrome and the number of particles that fluoresce are counted. The system uses digital electronics, a single laser and a single detector. An ALS version is available as well - Automatic Labeling System. The Bactiflow is specialized cytometer used exclusively for counting microbes." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400013
name: band pass filter
def: "A band pass filter is an optical filter that passes wavelengths of light within a certain range and rejects (attenuates) frequencies outside that range. The passed wavelengths are indicated in the specifications of the filter and its name. A 480/20 band-pass filter pass light with at wavelengths of 460 to 500 nm and attenuates all others." []
is_a: OBI:0400079 ! optical filter

[Term]
id: OBI:0400014
name: BioSorter1000
def: "A BioSorter1000 is a flow_cytometer_sorter manufactured by Union Biometrica. It includes analog electronics, 488/514 nm multi-line Argon-ion laser for fluorescence and a light stabilized 670 nm forward scatter laser for extinction and time-of-flight. It has filters and PMTs for 3 fluorescent parameters and photodiodes for scatter, time of flight, and extinction. The flow cell is quartz cuvette. The BioSorterTM 1000 is an instrument for analyzing and sorting objects from 200-600 microns in diameter." []
is_a: OBI:0400099 ! flow cytometer sorter

[Term]
id: OBI:0400015
name: BioSorter2000
def: "A BioSorter2000 is a sorter manufactured by Union Biometrica. It includes analog electronics, 488/514 nm multi-line Argon-ion laser for fluorescence and a light stabilized 670 nm forward scatter laser for extinction and time-of-flight. It has filters and PMTs for 3 fluorescent parameters and photodiodes for scatter, time of flight, and extinction. The flow cell is quartz cuvette. The BioSorterTM 2000 is an instrument for analyzing and sorting objects from 500 microns to 1.5 millimeters in diameter." []
is_a: OBI:0400099 ! flow cytometer sorter

[Term]
id: OBI:0400016
name: BioSorter250
def: "A BioSorter250 is a flow_cytometer_sorter manufactured by Union Biometrica. It includes analog electronics, 488/514 nm multi-line Argon-ion laser for fluorescence and a light stabilized 670 nm forward scatter laser for extinction and time-of-flight. It has filters and PMTs for 3 fluorescent parameters and photodiodes for scatter, time of flight, and extinction. The flow cell is quartz cuvette. The BioSorterTM 250 is an instrument for analyzing and sorting objects from 40-200 microns in diameter." []
is_a: OBI:0400099 ! flow cytometer sorter

[Term]
id: OBI:0400017
name: BioSorter500
def: "A BioSorter500 is a flow_cytometer_sorter manufactured by Union Biometrica. It includes analog electronics, 488/514 nm multi-line Argon-ion laser for fluorescence and a light stabilized 670 nm forward scatter laser for extinction and time-of-flight. It has filters and PMTs for 3 fluorescent parameters and photodiodes for scatter, time of flight, and extinction. The flow cell is quartz cuvette. The BioSorterTM 500 is an instrument for analyzing and sorting objects from 100-250 microns in diameter and less than 2mm in length." []
is_a: OBI:0400099 ! flow cytometer sorter

[Term]
id: OBI:0400018
name: Cell Lab Quanta SC
def: "A Cell Lab Quanta SC is a flow_cytometer_analyser manufactured by Becman Coulter. It features a mercury arc lamp optimized at 366, 405, and 435 nm, and a 488 nm laser diode. It has filters and PMTs to collect up to 3 fluorescent parameters, and a photodiode for side scatter detection. This cytometer uses Couter-Volume for cell size measurements. The Cell Lab Quanta SC can be used for measuring the properties of individual cells." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400019
name: charge plate
def: "Part of the fluidics subsystem. Charge plates are used or sorters. They create an charged electric field when particles deemed to be desired for further analysis are shaken form the piexo electric crystal. The charged particles are drawn toward the charged plate, and the altered drop location causes the particles to fall into a collection tube. Charge plates enable sorting." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0400020
name: cell sorter collection tube
def: "Part of the fluidics subsystem. The collection tube is a vessel for capturing cells of interest that have been identified by a sorter. The collection tube is the end location of sorted cells." []
is_a: OBI:0000836 ! test tube

[Term]
id: OBI:0400022
name: Cyan
def: "A Cyan is a flow_cytometer_analyser manufactured by Dako Cytomation. It features include digital electronics, three lasers: 488 nm, 635 nm, and 405 nm, and filters and collectors for nine fluorescent parameters and two scatter parameters. The Cyan can be used for measuring the properties of individual cells." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400023
name: CYFlow ML
def: "A CyFlow_ML is a flow_cytometer_analyser manufactured by Partec. It is a digital machine which uses 4 light sources: triple laser configurations including new powerful 200mW@488nm blue solid state laser + 100W UV lamp for highest resolution DNA analysis, and can collect 16 optical parameters: FSC1, FSC2, SSC, FL1-FL13. Ultracompact high end desktop multilaser Flow Cytometer for all applications in cell analysis and absolute counting." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400024
name: CyFlow SL
def: "a flow_cytometer_analyser manufactured by Partec. Its specs are: ultracompact and fully equipped mobile/portable instrument, dimensions [cm]: L 43 x H 16 x D 37, highest stability/robustness and highest precision, 5 optical parameters: FSC, SSC, FL-1, FL-2, FL-3, 20mW@488nm blue solid state laser , other laser light sources optional (UV, violet, green, red), WindowsTM XP FloMax (software for real time data acquisition, data display, and data evaluation), parallel 16 bit digital pulse processing Compact mobile Flow Cytometer for any kind of cell analysis and absolute volumetric counting. The CyFlow_SL allows to analyze forward and side scatter signals in combination with up to 3 fluorescence channels." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400025
name: CyFlow SL3
def: "A CyFlow_Sl3 is a flow_cytometer_analyser manufactured by Partec. Its specs are: ultracompact and fully equipped mobile/portable instrument, dimensions [cm]: L 43 x H 16 x D 37 , highest stability/robustness and highest precision, 5 optical parameters: FSC, SSC, FL-1, FL-2, FL-3, 20mW@488nm blue solid state laser, other laser light sources optional (UV, violet, green, red), WindowsTM XP FloMax (software for real time data acquisition, data display, and data evaluation), parallel 16 bit digital pulse processing. The CyFlow SL3 is a compact and dedicated portable Flow Cytometer for accurate and affordable cell analysis and true volumetric absolute counting in HIV Monitoring and AIDS patient follow-up by precise and direct CD4 and CD4% measurement." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400026
name: CyFlow Space
def: "A CyFlow_Space is a flow_cytometer_sorter manufactured by Partec. Its specs are: 8optical parameters, 6 colours:FSC, SSC, FL1-FL6 , 3laser light sources: 200mW@488nm blue solid state laser 25mW@635nm red diode laser 50mW@405nm violet or 8mW@375nm ultraviolet diode laser _ultracompact desktop high end instrument. Parallel 16bit digital pulse processing. The CyFlow Space is a 6-Colour FCM System and Cell Sorter for Clinical Routine and Research." []
is_a: OBI:0400099 ! flow cytometer sorter

[Term]
id: OBI:0400027
name: CytoBuoy flow cytometer analyzer
def: "A flow cytometer analyser which is manufactured by Cyto Buoy Inc. They are the buoy mounted version of the CytoSense, equipped with wireless transmission of control and data files. They are a single laser, multi parameter instrument. Various types of micro-laser are offered; available measuring parameters are forward light scatter, side scatter, and fluorescence (max. 9 colour bands). The current series have 5 parameters." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400028
name: CytoSence
def: "A CytoSense is a flow_cytometer_analyser manufactured by Cyto Buoy Inc. They are a single laser, multi parameter instrument. Various types of micro-laser are offered; available measuring parameters are forward light scatter, side scatter, and fluorescence (max. 9 colour bands). The current series have 5 parameters. The CytoSense is the basic instrument, which can be used for normal laboratory applications, as well as for autonomous monitoring with internal data logging or direct data transmission. The special instrument design and its splashproof housing allow operation on moving platforms and outdoor sites." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400029
name: CytoSub
def: "A CytoSub is a flow_cytometer_analyser manufactured by Cyto Buoy Inc. They are a single laser, multi parameter instrument. Various types of micro-laser are offered; available measuring parameters are forward light scatter, side scatter, and fluorescence (max. 9 colour bands). The current series have 5 parameters. The CytoSub is the submersible version equipped with a high pressure sample inlet loop and a high pressure housing to allow underwater operation down to 200 m, lowered on a cable or mounted on a flooded underwater vehicle." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400030
name: dichroic filter
def: "A dichroic filter is an optical filter which is used to selectively pass light of a small range of colors while reflecting other colors. A dichroic filter passes the specified range of light whereas a dichroic mirror reflects the specified range of light." []
is_a: OBI:0400079 ! optical filter

[Term]
id: OBI:0400031
name: dichroic mirror
def: "A dichroic mirror is an optical filter which is used to selectively reflect light of a small range of colors while passing other colors. A dichroic filter passes the specified range of light whereas a dichroic mirror reflects the specified range of light." []
is_a: OBI:0400079 ! optical filter

[Term]
id: OBI:0400032
name: differential pressure gauge
def: "Part of the fluidics subsystem. The differential pressure gauge monitors the difference between sample and sheath fluid pressures in systems where pressure is used to force the sample fluid to flow in the center of the sheath fluid. A differential pressure gauge can be used by the operator to make sure that the sample fluid is at a greater pressure than the sheath fluid, which maintains a core of sample fluid." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0400033
name: diode laser
def: "A diode laser is a laser in which the active medium is a p-n junction semiconductor laser diode, similar to that found in a light-emitting diode. Laser diodes emit at wavelengths from 375 nm to 1800 nm, and wavelengths of over 3 micrometer have been demonstrated. A diode laser can by used to irradiate cells in a flow cytometer." []
is_a: OBI:0400064 ! laser

[Term]
id: OBI:0400034
name: dye laser
def: "A dye laser is a laser in which the lasing medium is a fluorescent dye, usually dissolved in an organic solvent such as ethanol or ethylene glycol. The particular dye used determines the wavelengths the laser can emit. The laser medium is places between two parallel mirrors for light emission amplification." []
is_a: OBI:0400064 ! laser

[Term]
id: OBI:0400036
name: FACS Calibur
def: "The FACS Calibur is one of the most popular cytometers in use for research." []
is_a: OBI:0400099 ! flow cytometer sorter

[Term]
id: OBI:0400037
name: FACS Canto
def: "A FACS_Canto is a flow_cytometer_analyser manufactured by Becton Dickinson. It features digital electronics, a solid state 488 nm, and a HeNe 633 nm lasers, and filters and PMTs for collecting up to 6 fluorescent parameters. The FACS_Canto is an analyser usually used in clinical applications." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400038
name: FACS Canto2
def: "A FACS_Canto2 is a flow_cytometer_analyser manufactured by BD. It features digital electronics, two solid state lasers at 488 and 633 nm with the option for a third 405 nm laser, and filters and collectors for measuring up to 8 fluorescent paramters with either the 2 or 3 laser option. The FACS_Canto2 is an analyser usually used in clinical applications." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400039
name: FACS Scan
def: "A FACS_Scan is a flow_cytometer_analyser manufactured by Becton Dickinson. IT features analog electronics, one 488 nm solid state laser, and the filters and PMTs to collect up to three fluorescent parameters The FACS_Scan is usually used for research applications." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400040
name: FACSAria
def: "A FASCSAria is a flow_cytometer_sorter manufactured by Becton Dickinson. It features digital electronics, a solid state 488 nm blue laser, a solid state 407 nm violet laser, and a HeNe (633 nm) ion laser. The Aria has the filters and PMTs to collect side scatter and 9 fluorescent parameters. The Aria has a photodiode detector for forward scatter collector. The flow cell is Quartz cuvette. The FACSAria is a sorter used to collect and analyse cells using up to 11 parameters." []
is_a: OBI:0400099 ! flow cytometer sorter

[Term]
id: OBI:0400041
name: FACSvantage
def: "The FACSvantage is a flow_cytometer_sorter manufactured by Becton Dickinson. It has analog electronics, three lasers (several options are available), and the filters and PMTs to collect 6 fluorescent parameters and side scatter, and a photodiode to collect forward scatter. The FACSvantage can be used to analyse, sort and collect cells." []
is_a: OBI:0400099 ! flow cytometer sorter

[Term]
id: OBI:0400042
name: FC 500
def: "A FC_500 is a flow_cytometer_analyser manufactured by Beckman Coulter. It features digital electronics, 488 nm and 635 nm lasers, filters and PMTs for 5 fluorescent parameters, a diode for collecting side scatter and a solid state detector for forward scatter. The FC 500 is an analyser usually used for either research or clinical applications." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400043
name: flow cell
def: "Aparatus in the fluidic subsystem where the sheath and sample meet. Can be one of several types; jet-in-air, quartz cuvette, or a hybrid of the two. The sample flows through the center of a fluid column of sheath fluid in the flow cell." []
synonym: "flow_cell" EXACT []
is_a: OBI:0000967 ! container

[Term]
id: OBI:0400044
name: flow cytometer
def: "A flow_cytometer is an instrument for counting, examining and sorting microscopic particles in suspension. It allows simultaneous multiparametric analysis of the physical and/or chemical characteristics of single cells flowing through an optical and/or electronic detection apparatus. A flow cytometer is an instrument that can be used to quantitatively measure the properties of individual cells in a flowing medium." []
is_a: OBI:0400137 ! cytometer

[Term]
id: OBI:0400045
name: fluid pressure regulator
def: "Part of the fluidic subsystem. The fluid pressure regulator maintains constant pressure within the sheath and or sample lines by filling the lines with enough gas to push the fluid at the desired rate. The gas is usually air, and less frequently nitrogen. In the sheath line, the gas is pushed into the sheath tank. In the sample line the gas is pushed into the collection tube. Fluid pressure regulators maintain great enough pressure to push sample fluid out of the tube and sheath fluid out of the sheath tank." []
is_a: OBI:0000832 ! measurement device
is_a: OBI:0001034 ! environmental control device

[Term]
id: OBI:0400047
name: gas laser
def: "A gas laser is a laser in which the lasing medium is a gas. The laser medium is places between two parallel mirrors for light emission amplification. The gas is excited to emit light via an external light source or an electric current discharging through the gas." []
is_a: OBI:0400064 ! laser

[Term]
id: OBI:0400048
name: Guava EasyCyte Mini
def: "A Guava_EasyCyte_Mini is a flow_cytometer_analyser that includes a single 488 nm laser, and filters and PMTs to collect up to 3 fluorescent parameters. It includes a photodiode forward scatter collector and an optional photodiode for side scatter collection.Guava cytometers use aspiration instead of fluid systems to transport cells within the machine. The mini accepts tubes only for inputting cells or beads. The Guava_EasyCyte_Mini cytometer is a small portable cytometer particularly useful for field measurement." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400049
name: Guava EasyCyte Plus
def: "A Guava_EasyCyte_Plus System is a flow_cytometer_analyser that includes a single 488 nm laser, and filters and PMTs to collect up to 4 fluorescent parameters. It includes a photodiode forward scatter collector and an optional photodiode for side scatter collection.Guava cytometers use aspiration instead of fluid systems to transport cells within the machine. The EasyCyte plus accepts 96 well plates as well as tubes. The Guava_EasyCyte_Plus cytometer is a small portable cytometer particularly useful for field measurement." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400050
name: Guava Personal Cell Analysis
def: "A  Guava_Personal_Cell_Analysis System is a flow_cytometer_analyser that includes a single 532 nm laser, and filters and PMTs to collect up to 2 fluorescent parameters. It includes a photodiode forward scatter collector. Guava cytometers use aspiration instead of fluid systems to transport cells within the machine. The PCA96 uses only tubes to introduce specimen. The Guava PCA cytometer is a small portable cytometer particularly useful for field measurement." []
synonym: "Guava_PCA" EXACT []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400051
name: Guava Personal Cell Analysis-96
def: "The Guava_Personal_Cell_Analysis-96 Systems is a flow_cytometer_analyser that includes a single 532 nm laser, and filters and PMTs to collect up to 2 fluorescent parameters. It includes a photodiode forward scatter collector. Guava cytometers use aspiration instead of fluid systems to transport cells within the machine. The PCA96 uses either tubes or 96 well plates to introduce specimen. The Guava PCA -96 cytometer is a small portable cytometer particularly useful for field measurement." []
synonym: "Guava_PCA-96" EXACT []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400052
name: helium cadmium ion laser
def: "A helium-cadmium laser is a metal vapor laser that emits wavelengths of 442, 325 and 354 nms. This laser is a metal vapor laser. A helium-cadmium laser can by used to irradiate cells in a flow cytometer." []
is_a: OBI:0400073 ! metal vapor laser

[Term]
id: OBI:0400053
name: helium neon ion laser
def: "A helium-neon laser (HeNe) is an ion laser that uses helium and neon gas-ions as lasing medium. HeNe lasers emit at 543 nm and 633 nm most commonly and can also be used at 543, 594, and 611 nm." []
is_a: OBI:0400060 ! ion laser

[Term]
id: OBI:0400054
name: Amnis ImageStream
def: "The ImageStream is a multispectral_imaging_flow_cytometer manufactured by Amnis. Its has digital electronics, a single standard 488 nm solid state laser. In addition an optional 658 nm and your choice of either a 405 nm or 375 nm solid state laser can be added. Information is collected using cameras. The ImageStream system CCD camera produces six images of each cell, including darkfield, brightfield, and up to four fluorescent colors. Each image is used to calculate over 40 features, so a six-image assay results in ~250 morphometric and photometric features per cell. The ImageStream is a flow cytometer that takes pictures of the cells in flow. It has both components, an Image cytometer and a flow cytometer." []
is_a: OBI:0400146 ! multispectral imaging flow cytometer

[Term]
id: OBI:0400055
name: inFlux Analyzer
def: "The inFlux Analyzer is a flow_cytometer_analyser manufactured by Cytopeia. It is a digital machine, with these laser options: Coherent 70, 90, 300 series water cooled lasers, solid state UV 355nm, Violet 408nm, Violet-Blue 479nm, Blue-488nm, Green-531nm, Red-635nm, Red-647nm. Filters and PMTs are used for all parameters (including forward light scatter), and up to 12 PMTs can be included. The Influx analyser can be used to measure the properties of individual cells." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400056
name: Influx Cell Sorter
def: "A Influx Cell Sorter is a flow_cytometer_sorter manufactured by Cytopeia. It is a digital machine, with these laser options: Coherent 70, 90, 300 series water cooled lasers, solid state UV 355nm, Violet 408nm, Violet-Blue 479nm, Blue-488nm, Green-531nm, Red-635nm, Red-647nm. The sorting is multi-way, index, and proportional sorting. Filters and PMTs are used for all parameters (including forward light scatter), and up to 12 PMTs can be included. The Influx cell sorter can be used to measure, sort, and collect ndividual cells." []
is_a: OBI:0400099 ! flow cytometer sorter

[Term]
id: OBI:0400059
name: interrogation_point
def: "Point within the fluidic subsystem at which the laser intersects the stream, illuminating the cells where they emit their fluorescence and scatter the light. The laser irradiates the cell at the interrogation point." []
is_a: BFO:0000029 ! site

[Term]
id: OBI:0400060
name: ion laser
def: "An ion laser is a gas laser which uses an ionized gas as its lasing medium." []
is_a: OBI:0400047 ! gas laser

[Term]
id: OBI:0400061
name: jet_in_air_flow_chamber
def: "A flow cell in which the cells are pinched off as droplets and allowed to drop through the air. The laser intersects with the cell in mid-air. A jet in air flow chamber allows the laser to intersect with the cells without any intermittent media other than air." []
is_a: BFO:0000029 ! site

[Term]
id: OBI:0400062
name: krypton ion laser
def: "A krypton-ion laser is an ion laser that uses krypton as the lasing medium. These lasers can emit at 468, 476, 482, 520, 531, 568, 647 (the most powerful line), and 676 nm all at once. They have much lower gain than argon lasers however." []
is_a: OBI:0400060 ! ion laser

[Term]
id: OBI:0400063
name: LactoScope C4
def: "A LactoScope_C4 is a spectrophotometer with which the composition of milk and milk products is analysed via infrared technology. The LactoScope determines the amount of the constituents fat, protein, lactose and the total solids content with extreme accuracy." []
is_a: OBI:0400115 ! spectrophotometer

[Term]
id: OBI:0400064
name: laser
def: "A laser (acronym for light amplification by the stimulated emission of radiation) is a light source that emits photons of the same characteristics in a coherent beam. A laser uses a solid, liquid or gaseous lasing medium, that contains molecules, of which some atoms have electrons that emit photons of the same frequency when falling back to their normal orbital after excitation (pumping) by external means A laser is the most common way to irradiate a cell in a flow cytometer." []
synonym: "light amplification by the stimulated emission of radiation" EXACT []
is_a: OBI:0400065 ! light source

[Term]
id: OBI:0400065
name: light source
def: "A light source is an optical subsystem that provides light for use in a distant area using a delivery system (e.g., fiber optics). Light sources may include one of a variety of lamps (e.g., xenon, halogen, mercury). Most light sources are operated from line power, but some may be powered from batteries. They are mostly used in endoscopic, microscopic, and other examination and/or in surgical procedures. The light source is part of the optical subsystem. In a flow cytometer the light source directs high intensity light at particles at the interrogation point. The light source in a flow cytometer is usually a laser." []
is_a: OBI:0001032 ! light emission device

[Term]
id: OBI:0400066
name: logarithmic voltage amplifier
def: "A logarithmic voltage amplifier is an analog electronic circuit that puts out a voltage or current proportional to the voltage or current at its input, with logarithmic proportionality. In an analog system, the logarithmic voltage amplifier is used to present parameters with a high dynamic range on a more useful scale." []
is_a: OBI:0400101 ! voltage amplifier

[Term]
id: OBI:0400067
name: long pass filter
def: "A long pass filter is an optical filter that passes high wavelengths of light but attenuates (or reduces) wavelengths lower than the cutoff frequency. A long pass filter with a cutoff of 500 nm would pass all wavelengths greater than 500 nm." []
is_a: OBI:0400079 ! optical filter

[Term]
id: OBI:0400068
name: LSR2
def: "A LSR2 is a sorter manufactured by Becton Dickinson. It features digital electronics, a solid state 488 nm blue laser and optionally can also have any combination of solid state UV (355 nm) and violet (405 nm) lasers and the a HeNe (633 nm) ion laser. The LSR2 has the filters and PMTs to work with 13 fluorescent parameters. The LSR II is one of the most common sorters in use." []
is_a: OBI:0400099 ! flow cytometer sorter

[Term]
id: OBI:0400069
name: Luminex 100
def: "The Luminex 100 is a flow_cytometer_analyser manufactured by Luminex. It is a single laser system (575 nm) with avalanche photodiodes in red and infrared and a single PMT for fluorescence. The flow chamber is a square quartz cuvette." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400070
name: Luminex 200
def: "A Luminex_200 is a flow_cytometer_analyser manufactured by Luminex. The optical specifications are: Reporter laser: 532 nm, nominal output 10 - 15 mW, maximum 500 mW, frequency-doubled diode; mode of operation, continuous wave (CW). Classification laser: 635 nm, 9.1 __ 6%, maximum output 25 mW, diode; mode of operation, continuous wave (CW) Reporter detector: Photomultiplier tube, detection bandwidth of 565 - 585 nm Classification detector and doublet discriminator: Avalanche photo diodes with temperature compensation" []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400071
name: MACS Quant
def: "A MACS Quant is a flow_cytometer_analyser manufactured by Miltenyi. It uses digital electronics, and has three lasers of wavelengths 405 nm, 488 nm, and 635 nm. It has filters and detectors to collect 7 fluorescent parameters and 2 scatter parameters. The MACS Quant is an analyser usually used in research applications." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400073
name: metal vapor laser
def: "A metal vapor laser is a gas laser in which the lasing medium is metal vapor. A metal vapor laser can by used to irradiate cells in a flow cytometer." []
is_a: OBI:0400047 ! gas laser

[Term]
id: OBI:0400074
name: mixed argon-krypton gas laser
def: "A mixed argon krypton gas laser is an ion laser in which the lasing medium is a mixture of argon and krypton. A mixed argon-krypton laser can by used to irradiate cells in a flow cytometer." []
is_a: OBI:0400060 ! ion laser

[Term]
id: OBI:0400075
name: MoFlo
def: "A MoFlo is a flow_cytometer_sorter manufactured by Dako Cytomation. It features digital electronics, the option to include several lasers (solid state 488 nm, 635 nm, and a 351 nm diode laser), and has the filtering and collection capacity for up to 10 flouresecent parameters. The MoFlo is an instrument that can be used to both analyze quantitatively and collect cells in a flowing medium." []
is_a: OBI:0400099 ! flow cytometer sorter

[Term]
id: OBI:0400076
name: multi-well plate
def: "A particle deliver vessel. A multi-well plate is a vessel that can deliver multiple samples to a flow cytometer in a specified order. It must be used with a plate loader." []
is_a: OBI:0400081 ! particle delivery vessel

[Term]
id: OBI:0400077
name: neodymium-YAG laser
def: "A Neodymium-YAG (yttrium aluminum garnet) laser is a solid state laser in which the lasing medium is a solid rod of crystalline material pumped by a flash lamp or a diode laser. Typical output wavelengths are 355, 532, and 1064 nm. A neodymium-YAG laser can by used to irradiate cells in a flow cytometer." []
is_a: OBI:0400096 ! solid state laser

[Term]
id: OBI:0400078
name: obscuration bar
def: "An obscuration bar is a an optical subsystem which is a strip of metal or other material that serves to block out direct light from the illuminating beam. The obscuration bar prevents the bright light scattered in the forward directions from burning out the collection device." []
is_a: OBI:0000932 ! material separation device

[Term]
id: OBI:0400079
name: optical filter
def: "An optical filter is an optical subsystem that selectively transmits light having certain properties (often, a particular range of wavelengths, that is, range of colours of light), while blocking the remainder. They are commonly used in photography, in many optical instruments, and to colour stage lighting Optical filters can be arranged to segregate and collect light by wave length." []
is_a: OBI:0000932 ! material separation device

[Term]
id: OBI:0400080
name: optical subsystem
def: "A device or part of a device that deals with the behavior and properties of light and the interaction of light with matter. Commonly optical subsystems consist of an excitation optics and collection optics. The excitation optics of a flow cytometer optical subsystem consist of the laser and lenses that are used to shape and focus the laser beam. The collections optics consist of a collection lens to collect light emitted from the particle laser beam interaction and a system of optical mirrors and filters to route specified wavelengths of the collected light to designated optical detectors. The optical subsystem in a flow cytometer consists of the equipment used to irradiate particles, and collect the light either emitted or scattered by those particles." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0400081
name: particle delivery vessel
def: "Part of the fluidics subsystem. A particle delivery vessel is used to introduce either a single sample or multiple samples to a flow cytometer. The most common particle delivery vessel is a sample tube." []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0400082
name: photodetector
def: "A photodetector is a device used to detect and measure the intensity of radiant energy through photoelectric action. In a cytometer, photodetectors measure either the number of photons of laser light scattered on impact with a cell (for example), or the flourescence emitted by excitation of a fluorescent dye." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0400083
name: photodiode
def: "A photodiode is a semiconductor photodetector used to detect light and generate an electrical current. Typically used in forward scatter (FSC) detection. The photodiode collects the forward light scatter in a cytometer." []
is_a: OBI:0400082 ! photodetector

[Term]
id: OBI:0400084
name: photomultiplier tube
def: "A photomultiplier is a device that is normally in the form of a tube, that uses a photocathode to convert photons into photoelectrons which are then amplified. PMTs are typically used to detect SSC and fluorescent parameters. Cytometers have a PMT for each color they can collect." []
is_a: OBI:0000832 ! measurement device
is_a: OBI:0000967 ! container

[Term]
id: OBI:0400085
name: piezo electric crystal
def: "Apparatus in the fluidic subsystem of sorters that vibrates to break up the stream coming out of the flow chamber into droplets for sorting. The peizo electric crystal vibrates in a manner that breaks off droplets at regular intervals. Not all droplets contain a cell." []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:0400086
name: plate loader
def: "Part of the fluidics system. A plate loader positions the wells of a multi-well plate under the aspiration tube is a preset order. A plate loader is used for high throughput applications." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0400087
name: preamplifier
def: "A preamplifier is part of the electronics subsystem. It converts the current output from its associated detector to a voltage. The preamplifier is the first stage in analog electronics signal processing." []
is_a: OBI:0400101 ! voltage amplifier

[Term]
id: OBI:0400088
name: quartz cuvette flow chamber
def: "A flow cell in which the laser irradiates the cell as it passes through a quartz cuvette. A quartz cuvette flow chamber can be used to allow the laser to irradiate cells." []
is_a: OBI:0400043 ! flow cell

[Term]
id: OBI:0400089
name: Reflection
def: "A Reflection is a sorter manufactured by iCyte. It uses digital signal processing, and can be configured with lasers of the users choice from among these excitation wavelengths: 355, 405,488, 532, 635nm. It accommodates up to 48 traditional PMTs. Options include an acousto-optical tunable filter (AOTF) and 16 channel spectrometer (370 to 730 nm). The various detection components can be uniquely configured across multiple Highly Automated Parallel Sorting (HAPS) modules. The Reflection can be used to analyse, sort, and collect cells." []
is_a: OBI:0400099 ! flow cytometer sorter

[Term]
id: OBI:0400091
name: cytometer sample tube
def: "A particle delivery vessel. The cytometer sample tube is a vessel in which the sample is introduced to the cytometer. Frequently the tube is placed on the cytometer in such a manner that a seal is formed between the tube and cytometer, and gas is used to create enough pressure to push the sample out of the tube and into the cytometer." []
is_a: OBI:0000836 ! test tube

[Term]
id: OBI:0400094
name: sheath tank
def: "Part of the fluidics system. The sheath tank is the vessel that holds the sheath fluid at a constant pressure, allowing for it to be pushed into the flow chamber at a constant rate. The sheath tank holds the pressurized sheath fluid." []
is_a: OBI:0002089 ! container with environmental control

[Term]
id: OBI:0400095
name: short pass filter
def: "A short pass filter is an optical filter that passes low wavelengths of light but attenuates (or reduces) wavelengths higher than the cutoff frequency. A short pass filter with a cutoff of 500 nm would pass all wavelengths less than 500 nm." []
is_a: OBI:0400079 ! optical filter

[Term]
id: OBI:0400096
name: solid state laser
def: "A solid-state laser is a laser that uses a lasing medium that is a solid, rather than a liquid such as dye lasers or a gas such as gas lasers. Semiconductor-based diode lasers are also in the solid state, but are generally considered separately from solid-state lasers. The first laser developed was an optical pumped ruby crystal solid state laser." []
is_a: OBI:0400064 ! laser

[Term]
id: OBI:0400097
name: Somacount
def: "A Somacount is a flow_cytometer_analyser manufactured by Bently Instruments. It is a specialized tool for counting somatic cells in milk by specifically staining them with Ethidium Bromide and counting the cells that fluoresce. It has one laser, and the filters and a PMT for the single parameter. There are three sizes available, the 150, 300, and 500 with the number indicating the maximum number of cells that can be analysed per hour. The Somacount is an example of a very specific use cytometer; it exclusively counts somatic cells in milk." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400098
name: SomaScope
def: "The SomaScope is an instrument to quantify somatic cells in milk." []
is_a: OBI:0400008 ! flow cytometer analyzer

[Term]
id: OBI:0400099
name: flow cytometer sorter
def: "A flow_cytometer_sorter is a flow_cytometer that analyzes and separates or sorts particles passing through (based on properties measured during analysis) to collect cells of interest." []
is_a: OBI:0000932 ! material separation device
is_a: OBI:0400044 ! flow cytometer

[Term]
id: OBI:0400100
name: syringe pump
def: "Part of the fluidics system. A syringe pump can be used to inject the sample fluid and cells into the sheath fluid in the flow chamber. Syringe pumps are useful for creating stable flow rates." []
is_a: OBI:0000967 ! container

[Term]
id: OBI:0400101
name: voltage amplifier
def: "A voltage amplifier is a device that amplifies the voltage signal." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0400102
name: waste tank
def: "Part of the fluidics systems. In analyzers the sheath and sample fluid, once analyzed is dumped into a waste tank. The waste tank is where the fluids passing through the cytometer end up after the analysis is finished." []
is_a: OBI:0000967 ! container

[Term]
id: OBI:0400103
name: DNA sequencer
def: "A DNA sequencer is an instrument that determines the order of deoxynucleotides in deoxyribonucleic acid sequences." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0400104
name: array scanner
def: "An processed material which acquires images of fluorescence (induced with lasers) from labeled molecules on the surface of the microarray chip" []
is_a: OBI:0000398 ! image creation device

[Term]
id: OBI:0400105
name: arrayer
def: "A device which deposits biological material onto a substrate in a defined pattern." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0400106
name: centrifuge
def: "A device with a rapidly rotating container that applies centrifugal force to its contents" []
is_a: OBI:0000832 ! measurement device
is_a: OBI:0000932 ! material separation device

[Term]
id: OBI:0400107
name: computer
def: "A computer is an instrument which manipulates (stores, retrieves, and processes) data according to a list of instructions." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0400108
name: heating block
def: "A heating block is an instrument or part of an instrument which raises or maintains the temperature of a sample to a defined constant temperature during certain parts of an assay" []
is_a: OBI:0001034 ! environmental control device

[Term]
id: OBI:0400109
name: homogenizer
def: "A homogenizer is an instrument for the homogenization of various types of material, such as tissue, plant, food, soil, and many others." []
is_a: OBI:0001033 ! perturbation device

[Term]
id: OBI:0400110
name: hybridization chamber
def: "A device which is used to maintain constant contact of a liquid on an array.  This can be either a glass vial or slide." []
is_a: OBI:0002089 ! container with environmental control

[Term]
id: OBI:0400111
name: hybridization station
def: "A device which is used to maintain the temperature of one or more hybridization_chamber(s) at a defined, constant temperature." []
is_a: OBI:0001034 ! environmental control device

[Term]
id: OBI:0400112
name: liquid handler
def: "A device that is used for automated liquid transfer and handling." []
synonym: "liquid_handling_instrument" EXACT []
is_a: COB:0001300 ! device

[Term]
id: OBI:0400113
name: oligonucleotide synthesizer
def: "An instrument used to chemically synthesize oligonucleotides." []
is_a: OBI:0001034 ! environmental control device

[Term]
id: OBI:0400114
name: sonicator
def: "A device that converts a variable electrical current to mechanical vibration of a metallic probe. The device is used for the lysis of cells, the mixing of compounds or solutions, to framgent molecules of DNA, or to create emulsions." []
is_a: OBI:0001033 ! perturbation device

[Term]
id: OBI:0400115
name: spectrophotometer
def: "A spectrophotometer is an instrument that measures the intensity of light as a function of the color, or more specifically, the wavelength of light, transmitted by a substance." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0400116
name: thermal cycler
def: "An instrument that is capable of repeatedly altering and maintaining specific temperatures for defined periods of time." []
synonym: "DNA_amplifier" EXACT []
synonym: "PCR_machine" EXACT []
synonym: "Polymerase_Chain_Reaction_ machine" EXACT []
synonym: "thermocycler" EXACT []
is_a: OBI:0002089 ! container with environmental control

[Term]
id: OBI:0400117
name: vacuum dryer
def: "An instrument which removes liquid by the application of negative pressure,  i.e. vacuum." []
is_a: OBI:0002089 ! container with environmental control

[Term]
id: OBI:0400118
name: vortexer
def: "A vortexer is an instrument that mixes small vials of liquid by creating a rotation of the liquid around its own center. It consists of an electric motor with the drive shaft oriented vertically and attached to a cupped rubber piece mounted slightly off-center. As the motor runs the rubber piece oscillates rapidly in a circular motion. When a test tube or other appropriate container is pressed into the rubber cup (or touched to its edge) the motion is transmitted to the liquid inside and a vortex is created." []
synonym: "vortex_mixer" EXACT []
is_a: OBI:0001033 ! perturbation device

[Term]
id: OBI:0400119
name: microarray wash station
def: "A device that is used to wash Affymetrix-type arrays." []
is_a: OBI:0001034 ! environmental control device

[Term]
id: OBI:0400120
name: temperature control bath
def: "A temperature_control_bath is a device that has the function to regulate the temperature of a material, the function to contain fluid and the function to vary and maintain the temperature of the contained fluid. Heat exchange (energy transfer) between the material and the heating element is facilitated via the contained fluid. A temperature_control_bath is composed of a container, a heating element and/or a cooling element and a means to adjust the needed temperature. In most cases also a timer and a means to stir the fluid is provided as well." []
is_a: OBI:0002089 ! container with environmental control

[Term]
id: OBI:0400121
name: molecular crosslinker
def: "A device that is able to chemically join two or more molecules." []
synonym: "molecular crosslinker" EXACT []
is_a: OBI:0001032 ! light emission device
is_a: OBI:0001034 ! environmental control device

[Term]
id: OBI:0400135
name: image cytometer
def: "An image_cytometer is an instrument for image-based study or measurement of cells." []
is_a: OBI:0000398 ! image creation device

[Term]
id: OBI:0400137
name: cytometer
def: "A cytometer is an instrument for counting and/or measuring characteristics of cells." []
is_a: OBI:0000832 ! measurement device

[Term]
id: OBI:0400140
name: gel tank
def: "A device which holds a gel and running buffers to allow electrophoresis to be performed. A gel tank has the function to contain and to control the contained environment and transfer energy from an energy supply through the running buffers to the gel matrix and the material with charged molecules in an electric field across a porous matrix or medium with the objective to separate the charged molecules." []
synonym: "electrophoresis box" EXACT []
synonym: "electrophoresis unit" EXACT []
is_a: OBI:0002089 ! container with environmental control

[Term]
id: OBI:0400142
name: power supply
def: "A power supply is an device or part of a device that permits the required application of a defined electrical charge to an instrument. The power supply may permit the defined application of a given amount of current for a defined length of time." []
synonym: "electrical power supply" EXACT []
synonym: "power pack" EXACT []
synonym: "power supply unit" EXACT []
synonym: "PSU" EXACT []
is_a: COB:0001300 ! device

[Term]
id: OBI:0400143
name: fluorometer
def: "A fluorometer is an instrument for the detection and measurement of parameters of fluoresence, which in turn are used to identify the presence and amount of specific molecules in the sample." []
is_a: OBI:0400115 ! spectrophotometer

[Term]
id: OBI:0400146
name: multispectral imaging flow cytometer
def: "A multispectral_imaging_flow_cytometer is an instrument which combines quantitative image analysis and flow cytometry in a single platform. It measures the amount, location and movement of molecules on, in, or between cells, and  the location and co-localization of multiple markers on or in cells. It can also quantitate morphologically distinct cell subpopulations." []
synonym: "MIFC" EXACT []
is_a: OBI:0000398 ! image creation device

[Term]
id: OBI:0400147
name: microarray
def: "A processed material that is made to be used in an analyte assay. It consists of a physical immobilisation matrix in which substances that bind the analyte are placed in regular spatial position." []
is_a: OBI:0001865 ! assay array

[Term]
id: OBI:0400148
name: DNA microarray
def: "A DNA-microarray is a microarray that is used as a physical 2D immobilisation matrix for DNA sequences. DNA microarray-bound DNA fragments are used as targets for a hybridising probed sample." []
synonym: "DNA Chip" EXACT []
synonym: "DNA-array" EXACT []
is_a: OBI:0400147 ! microarray

[Term]
id: OBI:0400149
name: protein microarray
def: "A protein-microarray is a microarray, ususlly a piece of glass, on which different molecules of protein have been affixed at separate locations in an ordered manner. These are used to identify protein-protein or protein-small molecule interactions." []
is_a: OBI:0400147 ! microarray

[Term]
id: OBI:0400153
name: droplet sorter
def: "A droplet sorter is part_of a flow cytometer sorter that converts the carrier fluid stream into individual droplets, and these droplets are directed into separate locations for recovery (enriching the original sample for particles of interest based on qualities determined by gating) or disposal." []
is_a: OBI:0000932 ! material separation device

[Term]
id: OBI:0400155
name: water bath
def: "A water bath is a temperature control bath in which a water acts as contact medium enabling temperature transfer from the heating element or cooling element to the sample. The temperature can be controlled in the 0 to 100 degree centigrade range (under normal pressure)." []
is_a: OBI:0400120 ! temperature control bath

[Term]
id: OBI:0400157
name: oil bath
def: "An oil bath is a temperature control bath in which oil acts as contact medium for the temperature transfer (from heating or cooling elements to the sample)." []
is_a: OBI:0400120 ! temperature control bath

[Term]
id: OBI:0400158
name: digital-to-analog converter
def: "A digital-to-analog_converter is an instrument that converts a finite resolution digital signal into an infinite resolution analog signal." []
is_a: COB:0001300 ! device

[Term]
id: OBI:0400168
name: microtome
def: "A microtome is a mechanical instrument used to cut biological specimens into very thin segments for further treatment (e.g. ISH) and ultimately microscopic or histologic examination. Most microtomes provide cooling facilities (cryo-microtome) and use a steel blade to cut a slice of defined thickness. Some are automatic, and some are driven by hand." []
is_a: OBI:0000932 ! material separation device

[Term]
id: OBI:0400169
name: microscope
def: "A microscope is an instrument which magnifies the view on objects (too small to be viewed by the naked eye) under increased resolution. A microscope can be an optical instrument but also and electronic instrument. There are various kind of optical microscopes, e.g confocal microscope, epifluoresence microscope)" []
is_a: OBI:0000398 ! image creation device

[Term]
id: OBI:0400170
name: microscope slide
def: "A microscope slide is a device usually made of glass which is used as a solid matrix for (biological) material deposited on its surface and which is compatible for use with a microscope instrument" []
is_a: COB:0001300 ! device

[Term]
id: OBI:0400171
name: animal cage
def: "A processed material which has the function to define a bounded habitat which is amenable to keeping animals." []
synonym: "laboratory cage" EXACT []
is_a: OBI:0000967 ! container

[Term]
id: OBI:0500000
name: study design
def: "A plan specification comprised of protocols (which may specify how and what kinds of data will be gathered) that are executed as part of an investigation and is realized during a study design execution." []
synonym: "experimental design" EXACT []
is_a: IAO:0000104 ! plan specification

[Term]
id: OBI:0500001
name: clinical study design
def: "Plan for the precise procedure to be followed in a clinical trial, including planned and actual timing of events, choice of control group, method of allocating treatments, blinding methods; assigns a subject to pass through one or more epochs in the course of a trial. Specific design elements, e.g., crossover, parallel; dose-escalation [Modified from Pocock, Clinical Trials: A Practical Approach]" []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0500002
name: repeated measure design
def: "a study design which use the same individuals and exposure them to a set of conditions. The effect of order and practice can be confounding factor in such designs" []
is_a: OBI:0000115 ! intervention design

[Term]
id: OBI:0500003
name: cross over design
def: "a repeated measure design which ensures that experimental units receive, in sequence, the treatment (or the control), and then, after a specified time interval (aka *wash-out periods*), switch to the control (or treatment). In this design, subjects (patients in human context) serve as their own controls, and randomization may be used to determine the ordering which a subject receives the treatment and control" []
is_a: OBI:0500002 ! repeated measure design

[Term]
id: OBI:0500004
name: n-to-1 design
def: "N-of-1 design is a cross-over design in which the same patient is repeatedly randomised to receive either the experimental treatment or its control (Senn, 1993)." []
is_a: OBI:0500003 ! cross over design

[Term]
id: OBI:0500005
name: matched pairs design
def: "A matched pair design is a study design which use groups of individuals associated (hence matched) to each other based on a set of criteria, one member going to one treatment, the other member receiving the other treatment." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0500006
name: parallel group design
def: "A parallel group design or independent measure design is a study design which uses unique experimental unit each experimental group, in other word no two individuals are shared between experimental groups, hence also known as parallel group design. Subjects of a treatment group receive a unique combination of independent variable values making up a treatment" []
synonym: "independent measure design" EXACT []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0500007
name: randomized complete block design
def: "A randomized complete block design is_a study design which assigns randomly treatments to block. The number of units per block equals the number of treatment so each block receives each treatment exactly once (hence the qualifier 'complete'). The design was originally devised from field trials used in agronomy and agriculture. The analysis assumes that there is no interaction between block and treatment. The method was then used in other settings So The randomised complete block design is a design in which the subjects are matched according to a variable which the experimenter wishes to control. The subjects are put into groups (blocks) of the same size as the number of treatments. The members of each block are then randomly assigned to different treatment groups." []
is_a: OBI:0000115 ! intervention design

[Term]
id: OBI:0500008
name: balanced incomplete block design
def: "balanced incomplete block design is a kind of factorial design where all treatment pairs occur together within a block an equal number ?? times. ??ii' is the number of times treatment i occurs with i'" []
is_a: OBI:0500014 ! factorial design

[Term]
id: OBI:0500009
name: loop design
def: "A loop experiment design is where labeled extracts are compared in consecutive pairs. synonym: circular design" []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0500010
name: reference design
def: "A reference experiment design type is where all samples are compared to a common reference." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0500011
name: latin square design
def: "Latin square design is_a study design which allows in its simpler form controlling 2 levels of nuisance variables (also known as blocking variables).he 2 nuisance factors are divided into a tabular grid with the property that each row and each column receive each treatment exactly once." []
is_a: OBI:0500007 ! randomized complete block design

[Term]
id: OBI:0500012
name: graeco latin square design
def: "Greco-Latin square design is a study design which relates to Latin square design" []
is_a: OBI:0500007 ! randomized complete block design

[Term]
id: OBI:0500013
name: hyper graeco latin square design
def: "PRS to do" []
is_a: OBI:0500007 ! randomized complete block design

[Term]
id: OBI:0500014
name: factorial design
def: "factorial design is_a study design which is used to evaluate two or more factors simultaneously. The treatments are combinations of levels of the factors. The advantages of factorial designs over one-factor-at-a-time experiments is that they are more efficient and they allow interactions to be detected. In statistics, a factorial design experiment is an experiment whose design consists of two or more factors, each with discrete possible values or levels, and whose experimental units take on all possible combinations of these levels across all such factors. Such an experiment allows studying the effect of each factor on the response variable, as well as the effects of interactions between factors on the response variable." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0500015
name: 2x2 factorial design
def: "a factorial design which has 2 experimental factors (aka independent variables) and 2 factor levels per experimental factors" []
is_a: OBI:0500014 ! factorial design

[Term]
id: OBI:0500016
name: fractional factorial design
def: "A fractional factorial design is_a study design in which only an adequately chosen fraction of the treatment combinations required for the complete factorial experiment is selected to be run" []
is_a: OBI:0500014 ! factorial design

[Term]
id: OBI:0500017
name: dye swap design
def: "An experiment design type where the label orientations are reversed. exact synonym: flip dye, dye flip" []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0500018
name: replicate design
def: "A replicate experimental design type is where a series of replicates are performed to evaluate reproducibility or as a pilot study to determine the appropriate number of replicates for a subsequent experiments." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0500019
name: self vs self design
def: "A study design that investigates variance and error estimates in the experimental system, and is where the same extract is compared." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0500020
name: time series design
def: "Groups of assays that are related as part of a time series." []
is_a: OBI:0500000 ! study design

[Term]
id: OBI:0500022
name: stopping rule
def: "a stopping rule (criterion) is_a *rule* which causes a *stopping process* to happen" []
is_a: IAO:0000055 ! rule

[Term]
id: OBI:0500023
name: compliance rule
def: "a compliance rule is a rule which ensures a compliance process occurs" []
is_a: IAO:0000055 ! rule

[Term]
id: OBI:0500024
name: standard compliance rule
def: "a  standard compliance rule is a compliance rule which defines conformity to a representation standard" []
is_a: OBI:0500023 ! compliance rule

[Term]
id: OBI:0500025
name: ethical standard compliance rule
def: "an ethical standard compliance rule is_a *compliance rule* which enable a  *ethical compliance process* to occur" []
is_a: OBI:0500024 ! standard compliance rule

[Term]
id: OBI:0500026
name: eligibility criterion
def: "an eligibility criterion (rule) is_a selection criterion which \ndefines and states the requirements (positive or negative) for an entity to be considered as suitable for a given task or participation in a process." []
synonym: "eligibility rule" EXACT []
is_a: OBI:0001755 ! selection criterion

[Term]
id: OBI:0500027
name: inclusion criterion
def: "an inclusion criterion (rule) is_a *eligibility criterion*  which defines and states a condition which, if met, makes an entity suitable for a given task or participation in a given process. For instance, in a study protocol, inclusion criteria indicate the conditions that prospective subjects MUST meet to be eligible for participation in a study." []
synonym: "inclusion condition" EXACT []
synonym: "inclusion rule" EXACT []
is_a: OBI:0500026 ! eligibility criterion

[Term]
id: OBI:0500028
name: exclusion criterion
def: "an exclusion criterion (rule) is_a *eligibility criterion*  which defines and states a condition which, if met, makes an entity unsuitable for a given task or participation in a given process. For instance, in a study protocol, exclusion criteria indicate the conditions that prospective subjects SHOULD NOT meet to be eligible for participation in a study" []
is_a: OBI:0500026 ! eligibility criterion

[Term]
id: OBI:0600000
name: adding substance to cell culture
def: "is process in which a material substance is added to a cell culture" []
is_a: OBI:0000274 ! adding a material entity into a target

[Term]
id: OBI:0600002
name: tumor grading
def: "An assay that determines the grade (severity/stage) of a tumor sample, used in cancer biology to describe abnormalities/qualities of tumor cells or tissues. Values can be described by terms from NCI Thesaurus." []
synonym: "grading of tumor" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0600003
name: obsolete performing a clinical assessment
def: "A protocol application during which a series of tests are made of a patient leading to determination of disease state, or condition." []
synonym: "clinical diagnosis" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0600004
name: human subject enrollment
def: "A planned process with the objective to obtain a population of human subjects to participate in an investigation by determining eligibility of subjects and obtaining informed consent." []
is_a: OBI:0001928 ! selection

[Term]
id: OBI:0600005
name: collecting specimen from organism
def: "a process with the objective to obtain a material entity that was part of an organism for potential future use in an investigation" []
is_a: OBI:0000659 ! specimen collection process

[Term]
id: OBI:0600006
name: killing
def: "A protocol application in which an organism is intentionally put to death" []
synonym: "death status type" EXACT []
synonym: "euthanisia" EXACT []
synonym: "life termination" EXACT []
synonym: "sacrifice" EXACT []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0600007
name: administering substance in vivo
def: "A process by which a substance is intentionally given to an organism resulting in exposure of the organism to that substance." []
is_a: OBI:0000274 ! adding a material entity into a target

[Term]
id: OBI:0600008
name: acquisition
def: "A planned process with the objective of gaining possession of an entity." []
is_a: OBI:0001928 ! selection

[Term]
id: OBI:0600009
name: exposure of material to environment
def: "a planned process in which an input material is exposed to a defined set of conditions in a controlled environment. The environment is a specified input." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0600010
name: material acquisition
def: "An acquisition in which possession of a material entity is gained." []
synonym: "material procurement" EXACT []
is_a: OBI:0600008 ! acquisition

[Term]
id: OBI:0600011
name: acclimatization
def: "A protocol application in which an object is left in an environment for some period of time, until some qualities of interest are in equilibrium with that environment." []
is_a: OBI:0600009 ! exposure of material to environment

[Term]
id: OBI:0600012
name: environmental material collection process
def: "environmental_material_collection is an acquisition where an object is taken from an environment and put into a storage container. Roles include, environment, thing collected, container, acquirer." []
is_a: OBI:0000659 ! specimen collection process

[Term]
id: OBI:0600013
name: information acquisition
def: "An acquisition in which possession of information is gained." []
synonym: "data collection" EXACT []
is_a: OBI:0600008 ! acquisition

[Term]
id: OBI:0600014
name: material component separation
def: "a material processing in which components of an input material become segregated in space" []
is_a: COB:0000110 ! material processing

[Term]
id: OBI:0600015
name: group assignment
def: "group assignment is a process which has an organism as specified input and during which a role is assigned" []
synonym: "cohort assignment" EXACT []
synonym: "study assignment" EXACT []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0600016
name: pooling specimens
def: "physical combination of several instances of like material" []
synonym: "sample pooling" EXACT []
is_a: OBI:0000652 ! material combination

[Term]
id: OBI:0600017
name: assay detecting a molecular label
def: "An assay that detects the presence or a quality of a molecular label which is a proxy for the detection of the molecular target to which the label is attached" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0600018
name: material portioning
def: "a material processing in which the input substance is partitioned into a number of portions that are similar in composition." []
synonym: "aliquoting" EXACT []
synonym: "apportioning" EXACT []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0600019
name: non-specific labeling
def: "The addition of a reagent labeling the entire input biomaterial enabling future detection of the output biomaterial" []
is_a: OBI:0600038 ! addition of molecular label

[Term]
id: OBI:0600020
name: histological assay
def: "An assay that uses visual examination of cells or tissue (or images of them) to make an assessment regarding a quality of the cells or tissue. This assay can include steps of staining, imaging, and judgement." []
synonym: "histology" EXACT []
synonym: "histopathology" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0600021
name: cell fixation
def: "a protocol application to preserve defined  qualities of cells or tissues (sample) which may otherwise change over time" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0600022
name: excision
def: "the use physical means to remove a portion of a substance from the rest" []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0600023
name: non specific enzymatic cleavage
def: "an enzymatic cleavage that uses an enzyme without a strong affinity for specific cleavage sites in the input material" []
is_a: OBI:0000231 ! enzymatic cleavage
disjoint_from: OBI:0600050 ! specific enzymatic cleavage

[Term]
id: OBI:0600024
name: maintaining cell culture
def: "A planned process with the objective to keep cells alive in a defined environment outside of an organism." []
is_a: OBI:0000838 ! material maintenance

[Term]
id: OBI:0600025
name: substance detection assay
def: "An assay that detects a specified substance" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0600026
name: longitudinal mass measurement assay
def: "An assay that measures the mass of a material at two or more time points" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0600027
name: artificially induced cell membrane lysis
def: "a material transformation to break the membranes of cells, releasing the cells contents; input=>cells; output=>cell_lysate" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0600028
name: artificially induced reverse transcription
def: "a protocol with the objective to transcribe single-stranded RNA into complementary DNA (cDNA)" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0600029
name: isolation of cell culture supernatant
def: "a protocol which results in the separation of supernatant material from a cell culture" []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0600030
name: experimental disease induction
def: "a protocol application to induce a specific disease in an organism" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0600031
name: enzyme-linked immunospot assay
def: "A cytometry assay in which cells are cultured on a surface coated with a capture antibody binding a secretory material of interest which subsequently gets stained resulting in a spot for each cell producing the secretory material of interest." []
synonym: "ELISPOT assay" EXACT []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0003587 ! cell culture assay

[Term]
id: OBI:0600032
name: artificially induced DNA repair
def: "a protocol application to repair damaged DNA molecules" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0600033
name: cell permeabilization
def: "A protocol application to permeabilize cell membranes, allowing molecules to more easily pass through the membrane than was possible prior to the protocol application" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0600034
name: precipitation
def: "a protocol application to cause a material to precipitate (becoming a solid) out of solution. Input is a solution, output is a solution plus a solid component (the precipitate)" []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0600036
name: establishing cell culture
def: "a process through which a new type of cell culture or cell line is created, either through the isolation and culture of one or more cells from a fresh source, or the deliberate experimental modification of an existing cell culture (e.g passaging a primary culture to become a secondary culture or line, or the immortalization or stable genetic modification of an existing culture or line)." []
comment: A 'cell culture' as used here referes to a new lineage of cells in culture deriving from a single biological source.. New cultures are established through the initial isolation and culturing of cells from an organismal source, or through changes in an existing cell culture or line that result in a new culture with unique characteristics.  This can occur through the passaging/selection of a primary culture into a secondary culture or line, or experimental modifications of an existing cell culture or line such as an immortalization process or other stable genetic modification. This class covers establishment of cultures of either multicellular organism cells or unicellular organisms.
is_a: COB:0000110 ! material processing

[Term]
id: OBI:0600037
name: cell culture splitting
def: "The act of taking part of a homogeneous cell culture and creating one or more additional separate cultures of similar qualities. input: cell_culture, output cell_culture min cardinality 2. part of cell culturing" []
comment: An active cell culture is typically split when it has grown to confluence in its culture dish.  Cell culture splitting of a cell culture sample results in an increase in its passage number, which measures how long a sample has been propagated in vitro, and therefore how many selective or genetic changes it is likely to have undergone.
synonym: "cell culture passaging" EXACT []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0600038
name: addition of molecular label
def: "a material processing technique intended to add a molecular label to some input material entity, to allow detection of the molecular target of this label in a detection of molecular label assay" []
synonym: "labeling" EXACT []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0600039
name: artificially induced methylation
def: "A planned process of adding methyl groups to polymers" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0600040
name: synthesis
def: "the construction of a biomaterial from simpler biomaterials" []
synonym: "synthesize" EXACT []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0600041
name: concentrate
def: "a protocol application to create an output material with an increased density of a material of interest that is part of the input material by separating other parts of the input material" []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0600042
name: recombinant plasmid cloning
def: "the insertion of a particular DNA fragment into a plasmid in order to make copies of a biomaterial" []
is_a: OBI:0600064 ! recombinant vector cloning

[Term]
id: OBI:0600043
name: genetic transformation
def: "the introduction. alteration or integration of genetic material into a cell or organism" []
synonym: "genetic modification" EXACT []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0600044
name: lavage
def: "A protocol application to separate cells and/or cellular secretions from an anatomical space by the introduction and removal of fluid" []
is_a: OBI:0600005 ! collecting specimen from organism
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0600045
name: 3D structure determination assay
def: "An assay that determines the 3-dimensional configuration of an input material." []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0600046
name: preparative chromatography
def: "the use of a biomaterial's preferential affinity for either the mobile phase or the stationary phase to separate it from other materials of differing affinity" []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0600047
name: sequencing assay
def: "An assay the uses chemical or biochemical means to infer the sequence of a biomaterial" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:0600048
name: vector mediated amplification
def: "The process of creating a copy of some biological entity in cell culture" []
is_a: OBI:0600064 ! recombinant vector cloning

[Term]
id: OBI:0600049
name: DNA polymerase amplification
def: "DNA polymerase amplification is an enzymatic amplification which uses DNA polymerase enzyme to make copies of a DNA contained in biomaterial used as input" []
is_a: OBI:0600058 ! enzymatic amplification

[Term]
id: OBI:0600050
name: specific enzymatic cleavage
def: "an enzymatic cleavage that uses an enzyme with a strong affinity for specific cleavage sites in the input material" []
is_a: OBI:0000231 ! enzymatic cleavage

[Term]
id: OBI:0600051
name: gradient separation
def: "a protocol application that uses different concentrations of materials in a defined order to create a gradient to facilitate the separation of an input material into its components with specific qualities" []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0600052
name: dialysis
def: "a protocol application that uses diffusion through a semi-permeable membrane to separate an input material into two fractions of different composition" []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0600053
name: electrophoresis
def: "a protocol application that uses an electrical potential to move material through a defined matrix in order to separate it by its resistance to movement and its charge" []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:0600054
name: selection by survival
def: "the use of environmental conditions to select for the organism or cells that have a certain trait" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0600055
name: DNA restriction enzyme digestion
def: "A specific enzymatic cleavage of DNA molecules using endonucleases that cleave DNA molecules at specific sites based on the surrounding nucleotide sequence" []
synonym: "restriction enzyme assay" EXACT []
is_a: OBI:0600050 ! specific enzymatic cleavage

[Term]
id: OBI:0600056
name: protease cleavage
def: "protease cleavage is an enzymatic cleavage which relies on enzyme with protease activity to act on proteins and produce polypeptides (protein fragments)." []
is_a: OBI:0000231 ! enzymatic cleavage

[Term]
id: OBI:0600057
name: enzymatic DNA replication
def: "the use of enzymes to duplicate DNA molecule any process used to make additional copies of a biomaterial" []
is_a: OBI:0600058 ! enzymatic amplification

[Term]
id: OBI:0600058
name: enzymatic amplification
def: "the use of enzymes to increase the number of molecules of a biomaterial" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0600059
name: DNA transduction
def: "a genetic transformation which relies on the use of lysogenic infection to transfer DNA sequences into an organism" []
is_a: OBI:0600043 ! genetic transformation

[Term]
id: OBI:0600060
name: DNA transfection
def: "a transfection which relies on the use of physical, electrical and chemical phenomena to introduce DNA into a cell" []
is_a: OBI:0001152 ! transfection

[Term]
id: OBI:0600063
name: vector mediated expression
def: "vector mediated expression sis the generation of copies of biomaterial by in a cell_culture modified for this purpose by insertion of an expression vector" []
is_a: OBI:0600064 ! recombinant vector cloning

[Term]
id: OBI:0600064
name: recombinant vector cloning
def: "a planned process with the objective to insert genetic material into a cloning vector for future replication of the inserted material" []
synonym: "molecular cloning" EXACT []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:0600065
name: obsolete_defined processes
def: "Place holder class, see editor note" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:0600067
name: specific labeling
def: "a labeling in which the labeling reagent used  has a specificity to bind only certain components of the input material" []
is_a: OBI:0600038 ! addition of molecular label

[Term]
id: OBI:0666666
name: RNA extraction
def: "A RNA extraction is a nucleic acid extraction where the desired output material is RNA" []
is_a: OBI:0666667 ! nucleic acid extraction

[Term]
id: OBI:0666667
name: nucleic acid extraction
def: "a material separation to recover the nucleic acid fraction of an input material" []
is_a: OBI:0302884 ! extraction

[Term]
id: OBI:1000023
name: cell culture supernatant
def: "Supernatant of a cell culture is a material entity which contains media, supplements, and secreted products of the cells and becomes the environment of cultivated cell." []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:1000024
name: cell pellet
def: "A material entity which results from the aggregation of cells produced by the application of centrifugal force to a liquid containing cells in suspension" []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:1000029
name: phage display library
def: "a phage display library is a collection of materials in which a mixture of genes or gene fragments is expressed and can be individually selected and amplified." []
synonym: "display library" EXACT []
is_a: OBI:0000731 ! recombinant vector

[Term]
id: OBI:1000036
name: cell lysate
def: "a cell lysate is a material entity which is output of a cell lysis process" []
synonym: "lysate" EXACT []
synonym: "lysed material" EXACT []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:1000042
name: peptide construct
def: "a material entity synthesized to contain a number of peptides conjugated together in a non-linear fashion" []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:1000048
name: transgenic organism
def: "a transgenic organism is material entity which derives from an organism which has been modified to express a gene not normally part of it" []
is_a: OBI:0302859 ! genetically modified organism

[Term]
id: OBI:1000049
name: whole mount tissue
def: "A whole organism preparation resulting from a histological preparation known as whole mount preparation where the whole specimen is mounted or spread on the microscope (glass) slide" []
synonym: "whole mount sample" EXACT []
is_a: OBI:0000680 ! whole organism preparation

[Term]
id: OBI:1000207
name: assay bead
def: "A globular or round particle of defined physicochemical properties and size which can be exploited as either the primary substance for detection or as a secondary solid platform for the attachment of bioactive molecules." []
synonym: "bead" EXACT []
is_a: COB:0000026 ! processed material entity

[Term]
id: OBI:1110001
name: epitope
def: "A material entity with the disposition to be bound by an adaptive immune receptor." []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:1110002
name: obsolete_occurrence of disease
def: "An occurrence of disease is a process involving pathologic changes within an organism" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: OBI:1110003
name: host exposure to infectious agent
def: "a process in which an infectious agent comes into physical contact with a host organism." []
is_a: GO:0008150 ! biological_process

[Term]
id: OBI:1110007
name: administration in vivo with infectious agent
def: "is an administration of an infectious agent to a host organism" []
is_a: OBI:0600007 ! administering substance in vivo

[Term]
id: OBI:1110008
name: occurrence of infectious disease
def: "Is an occurrence of a disease caused by an infection" []
is_a: OGMS:0000063 ! disease course

[Term]
id: OBI:1110010
name: disposition to cause an allergic reaction
def: "The role borne by a material entity that is realized when it is recognized by the immune system and results in the occurrence of an allergic disease." []
synonym: "allergenic disposition" EXACT []
is_a: BFO:0000016 ! disposition

[Term]
id: OBI:1110011
name: allergic reaction
def: "an allergic reaction is an pathologic immune response by an organism to a non-self entity that is normally harmless(the allergen)" []
is_a: OBI:1110122 ! pathologic process

[Term]
id: OBI:1110012
name: occurrence of allergy
def: "The process of an allergic disease occurring in an organism." []
is_a: OGMS:0000063 ! disease course

[Term]
id: OBI:1110013
name: ELISPOT assay measuring epitope specific interleukin-2 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-2 production by T cells." []
synonym: "IL-2 release|ELISPOT" EXACT []
is_a: OBI:0001445 ! assay measuring epitope specific interleukin-2 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:1110014
name: epitope binding by adaptive immune receptor
def: "is the process in which an adaptive immune receptor binds to a material entity (realizing its disposition). The binding affinity is significant enough to trigger an immune response. Specifically, transient non-specific binding of adaptive immune receptors occurring during immune surveillance is not considered significant binding." []
is_a: GO:0008150 ! biological_process

[Term]
id: OBI:1110015
name: Immunization in vivo
def: "Process of administering an object playing the role of immunogen to a living organism" []
is_a: OBI:1110094 ! immunization

[Term]
id: OBI:1110016
name: adaptive immune effector function
def: "A function realized as an immune response, which inheres in a T cell, B cell or antibody which derives from or is produced by a cell with prior antigen experience." []
is_a: BFO:0000034 ! function

[Term]
id: OBI:1110017
name: living with infected household contact
def: "a process in which a a human being lives in the same household as another human being that is known to be infected with an infectious agent" []
is_a: OBI:1110111 ! environmental proximity to infectious agent

[Term]
id: OBI:1110018
name: living in endemic area
def: "a process in which a potential host organism lives in a geographic area in which an infectious agent is present to such a degree of frequency that contact is likely" []
is_a: OBI:1110111 ! environmental proximity to infectious agent

[Term]
id: OBI:1110019
name: pathogen release in laboratory accident
def: "a process in which a an infectious agent maintained in a laboratory setting is not contained as planned, leading to potential exposure of human beings to the agent" []
is_a: OBI:1110111 ! environmental proximity to infectious agent

[Term]
id: OBI:1110020
name: Immunization in vitro
def: "A planned process with the objective to administer an object playing the role of immunogen to a cell culture." []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OBI:1110021
name: infection process
def: "the detrimental process in which an infectious agent colonizes or replicates in a host environment" []
is_a: OBI:1110122 ! pathologic process

[Term]
id: OBI:1110022
name: adaptive immune receptor
def: "is a receptor produced by cells of the adaptive immune system with the purpose of binding epitopes." []
is_a: GO:0032991 ! protein-containing complex

[Term]
id: OBI:1110023
name: immunogen
def: "a material entity bearing the immunogen role" []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:1110024
name: environmental exposure to infectious agent
def: "Is a process in which an infectious agent is in direct contact with a potential host organism in its habitat. This is preceded by proximity to the infectious agent" []
is_a: GO:0008150 ! biological_process

[Term]
id: OBI:1110026
name: host of immune response
def: "An organism in which an immune response process occurs." []
is_a: COB:0000022 ! organism

[Term]
id: OBI:1110028
name: 293-T cell line
def: "A cell line derived from human embryonic kidney cells. This cell line contains the SV40 Large T-antigen, allowing episomal replication of transfected plasmids containing the SV40 origin of replication." []
is_a: CLO:0009828 ! immortal cell line

[Term]
id: OBI:1110029
name: C1R cell line
def: "A cell line derived from human B cells. This cell line was created by EBV transformation (B-lymphoblastoid cell-line (BLCL))." []
is_a: CLO:0009828 ! immortal cell line

[Term]
id: OBI:1110030
name: experimental infection of cell culture
def: "is the administration of an infectious agent to a cell culture with the objective to have the agent colonize and replicate in culture" []
is_a: OBI:0600000 ! adding substance to cell culture

[Term]
id: OBI:1110031
name: EL-4 cell line
def: "A cell line derived from mouse (C57BL/6N) lymphoma cells." []
is_a: CLO:0009828 ! immortal cell line

[Term]
id: OBI:1110032
name: HeLa cell line
def: "A cell line derived from human cervical cancer cells." []
is_a: CLO:0009828 ! immortal cell line

[Term]
id: OBI:1110033
name: JAWS II cell line
def: "A cell line derived from mouse dendritic cells." []
is_a: CLO:0009828 ! immortal cell line

[Term]
id: OBI:1110034
name: antigen
def: "A material entity that has the antigen role." []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:1110035
name: Jurkat cell line
def: "A cell line derived from human T cells." []
is_a: CLO:0009828 ! immortal cell line

[Term]
id: OBI:1110036
name: JY cell line
def: "The JY cell line is an Epstein-Barr virus (EBV)-immortalised b cell lymphoblastoid line.(wikipedia)" []
is_a: CLO:0009828 ! immortal cell line

[Term]
id: OBI:1110037
name: assay measuring binding of a T cell epitope:MHC:TCR complex
def: "A T cell epitope assay that measures the binding of T cell receptor to an epitope." []
synonym: "T cell binding|any method" EXACT []
is_a: OBI:0003128 ! T cell epitope assay

[Term]
id: OBI:1110038
name: RMA cell line
def: "A cell line derived from a mouse lymphoma, specifically a Rauscher virus-induced tumor.This cell ine is antigen processing-defective and expresses a very low level of MHC molecules on its surface." []
is_a: CLO:0009828 ! immortal cell line

[Term]
id: OBI:1110039
name: T2 cell line
def: "A human T-B lymphoblastoid hybrid cell line" []
is_a: CLO:0009828 ! immortal cell line

[Term]
id: OBI:1110040
name: infectious disease
def: "is a disease caused by an infectious agent" []
is_a: OGMS:0000031 ! disease

[Term]
id: OBI:1110041
name: lymph node cell specimen
def: "A cell specimen comprised of a mixed population of cells obtained by processing whole lymph node into individual cells, typically performed using a sieve. This population includes T cells, B cells, macrophages, and other cell types." []
is_a: OBI:0001468 ! cell specimen

[Term]
id: OBI:1110043
name: cultured adherent cell population
def: "A mixed cell population that is characterized by its ability to bind to tissue culture flasks or plates. This population typically contains macrophages and other cells capable of playing the antigen presenting cell role." []
synonym: "adherent cell culture sample" EXACT []
is_a: OBI:0100060 ! cultured cell population

[Term]
id: OBI:1110044
name: cultured PBMC cell population
def: "A mixed cell population obtained by processing whole blood. The cells are characterized by having a similar density and are largely mononuclear cells (includes T cells, B cells, and other cell types)." []
synonym: "PBMC cell culture sample" EXACT []
is_a: OBI:0001875 ! cultured immune cell population

[Term]
id: OBI:1110045
name: disposition to be bound by an adaptive immune receptor
def: "Is the disposition borne by a material entity that is realized in a process of being bound by a adaptive immune receptor." []
synonym: "epitope disposition" EXACT []
is_a: BFO:0000016 ! disposition

[Term]
id: OBI:1110046
name: organ harvesting
def: "The process of removing an organ from its source organism" []
is_a: OBI:0600014 ! material component separation

[Term]
id: OBI:1110047
name: cultured CD3+ T cell population
def: "A T cell population characterized by expressing the CD3 molecule on its surface." []
synonym: "CD3+ T cell culture sample" EXACT []
is_a: OBI:0001875 ! cultured immune cell population

[Term]
id: OBI:1110048
name: cultured CD3- T cell population
def: "A T cell population characterized by not expressing the CD3 molecule on its surface." []
synonym: "CD3- T cell culture sample" EXACT []
is_a: OBI:0001875 ! cultured immune cell population

[Term]
id: OBI:1110049
name: allergy
def: "is a disease in which an abnormally strong inflammatory immune response is triggered against non-self entities, and the immune response has no protective effect" []
is_a: OGMS:0000031 ! disease

[Term]
id: OBI:1110050
name: cultured CD4- T cell population
def: "A T cell population characterized by not expressing the CD4 molecule on its surface." []
synonym: "CD4- T cell culture sample" EXACT []
is_a: OBI:0001875 ! cultured immune cell population

[Term]
id: OBI:1110051
name: cultured CD8- T cell population
def: "A T cell population characterized by not expressing the CD8 molecule on its surface." []
synonym: "CD8- T cell culture sample" EXACT []
is_a: OBI:0001875 ! cultured immune cell population

[Term]
id: OBI:1110052
name: cultured CD4-/CD8- T cell population
def: "A T cell population characterized by not expressing the CD4 nor the CD8 molecule on its surface." []
synonym: "CD4-/CD8- T cell culture sample" EXACT []
is_a: OBI:1110050 ! cultured CD4- T cell population
is_a: OBI:1110051 ! cultured CD8- T cell population

[Term]
id: OBI:1110053
name: cancer
def: "A disease characterized by abnormal and uncontrolled cell division" []
is_a: OGMS:0000031 ! disease

[Term]
id: OBI:1110054
name: autoimmune disease
def: "Is a disease characterized by an immune response of an organism against parts of itself" []
is_a: OGMS:0000031 ! disease

[Term]
id: OBI:1110055
name: obsolete_disease
def: "placeholder to be imported from disease ontology" []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: OGMS:0000031

[Term]
id: OBI:1110056
name: epitope specific IL-2 release by T cells
def: "A biological process where T cells produce IL-2 resulting from the recognition of a T cell epitope." []
is_a: GO:0032623 ! interleukin-2 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:1110057
name: MHC:epitope complex binding to TCR
def: "a process of an MHC molecule binding to an entity playing the role of epitope to create an MHC:epitope complex which is then bound by a TCR molecule." []
is_a: OBI:0001588 ! binding
is_a: OBI:1110014 ! epitope binding by adaptive immune receptor

[Term]
id: OBI:1110059
name: ELISPOT assay measuring epitope specific interferon-gamma production by T cells
def: "An enzyme-linked immunospot assay that detects interferon-gamma production by T cells." []
synonym: "IFNg release|ELISPOT" EXACT []
is_a: OBI:0001414 ! assay measuring epitope specific interferon-gamma production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:1110061
name: exposure resulting in immune reactivity
def: "a process in which an organism (host) is exposed to some material entity, which results in an immune reactivity" []
is_a: GO:0008150 ! biological_process

[Term]
id: OBI:1110082
name: immunogen role
def: "A role of a material entity that is realized when the material elicits an immune response targeting itself in whole or in part." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:1110083
name: host of immune response role
def: "is a role borne by an organism. It is realized by the organism during an immunization or an immune response taking place inside or on the surface of the organism, and in which the responding or stimulated immune system is part of the host." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:1110084
name: effector T cell function
def: "The function inhering in a T cell that is realized in an immune response that results from the T cell receptor binding to the MHC:epitope complex." []
is_a: OBI:1110016 ! adaptive immune effector function

[Term]
id: OBI:1110085
name: antigen presentation function
def: "a function inhering in a cell  that expresses MHC molecules which is realized in the process of antigen processing and presentation of antigen derived parts by MHC molecules on the cell surface." []
synonym: "APC" EXACT []
is_a: BFO:0000034 ! function

[Term]
id: OBI:1110086
name: restricting MHC role
def: "The role played by an MHC molecule by binding a material entity playing the role of epitope when that epitope/MHC molecule pair are recognized (bound) by a TCR molecule on the surface of a cell playing the role of effector cell." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:1110087
name: donor role
def: "A role which inheres in an organism or part thereof from which any part including cell, organ or tissue is removed with the intention that the donated part will be placed into another organism and/or cultured in vitro." []
synonym: "donor role" EXACT []
is_a: BFO:0000023 ! role

[Term]
id: OBI:1110091
name: immune epitope carrier role
def: "A role inhering in a material entity that is covalently bound to an epitope in order to increase the epitopes immunogenicity." []
is_a: BFO:0000023 ! role

[Term]
id: OBI:1110092
name: adjuvant role
def: "Adjuvant role is a role that inheres in a material entity and which is realized through a process of modifying a biological response." []
synonym: "adjuvent role" EXACT []
is_a: BFO:0000023 ! role

[Term]
id: OBI:1110093
name: disposition to infect an organism
def: "Is a role borne by an agent, and realized when in contact with or inside another organism in which it is capable of replicating and causing disease" []
is_a: BFO:0000016 ! disposition

[Term]
id: OBI:1110094
name: immunization
def: "The process of an epitope that is part of or derived from an immunogen coming into contact with adaptive immune cells resulting in these cells acquiring immune effector functions specific for the epitope." []
is_a: GO:0008150 ! biological_process

[Term]
id: OBI:1110095
name: blood specimen collection
def: "A specimen collection in which blood is collected from an organism." []
synonym: "blood harvesting" EXACT []
is_a: OBI:0600005 ! collecting specimen from organism

[Term]
id: OBI:1110099
name: L cell line
def: "A cell line derived from mouse fibroblasts." []
is_a: CLO:0009828 ! immortal cell line

[Term]
id: OBI:1110106
name: cultured antigen presenting cell population
def: "a cell culture including cells that have an antigen presentation function" []
synonym: "antigen presenting cell culture sample" EXACT []
is_a: OBI:0001875 ! cultured immune cell population

[Term]
id: OBI:1110107
name: cultured effector T cell population
def: "A cell culture including cells that have an effector T cell function" []
synonym: "culture of effector T cells" EXACT []
synonym: "effector T cell culture sample" EXACT []
is_a: OBI:0001875 ! cultured immune cell population

[Term]
id: OBI:1110108
name: material to be added
def: "A material entity that is added to another material entity in an “adding a material entity into a target” process." []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:1110109
name: target of material addition
def: "A material entity that receives the addition of another material entity in an “adding a material entity into a target” process." []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:1110111
name: environmental proximity to infectious agent
def: "Is a process in which an infectious agent comes close enough to a potential host organism in its habitat that a contact can result" []
is_a: GO:0008150 ! biological_process

[Term]
id: OBI:1110114
name: contact to pathogen carrying biological vector
def: "a process in which a vector carrying an infectious agent comes close enough to a potential host organism that a contact can result" []
is_a: OBI:1110111 ! environmental proximity to infectious agent

[Term]
id: OBI:1110116
name: splenocyte specimen
def: "A cell specimen comprised of a mixed cell population obtained by processing whole spleen into individual cells, typically performed using a sieve or blender. This population includes T cells, B cells, macrophages, and other cell types." []
is_a: OBI:0001468 ! cell specimen

[Term]
id: OBI:1110118
name: P815 cell line
def: "A cell line derived from mouse mastocytoma." []
is_a: CLO:0009828 ! immortal cell line

[Term]
id: OBI:1110120
name: assay antigen role
def: "An antigen role that is realized as part of an assay, where immune recognition of the material with the assay antigen role is being detected as part of the assay." []
is_a: OBI:0000237 ! antigen role

[Term]
id: OBI:1110122
name: pathologic process
def: "abnormal, harmful processes caused by or associated with a disease" []
is_a: GO:0008150 ! biological_process

[Term]
id: OBI:1110124
name: assay measuring qualitative binding of a T cell epitope:MHC:TCR complex
def: "An assay that detects the binding of a MHC:epitope complex with a T cell receptor, and produces a qualitative measurement of the binding as an output." []
synonym: "qualitative binding|binding assay" EXACT []
is_a: OBI:1110037 ! assay measuring binding of a T cell epitope:MHC:TCR complex

[Term]
id: OBI:1110125
name: assay measuring MHC ligand processing and presentation
def: "A MHC ligand assay that determines what ligands are processed and loaded onto MHC molecules by eluting ligands and identifying them." []
synonym: "ligand presentation|any method" EXACT []
is_a: OBI:0002075 ! MHC ligand assay

[Term]
id: OBI:1110126
name: assay measuring binding of a MHC:ligand complex
def: "A MHC ligand assay that detects the binding of a ligand to an MHC molecule." []
synonym: "MHC binding|any method" EXACT []
is_a: OBI:0002075 ! MHC ligand assay

[Term]
id: OBI:1110127
name: assay measuring binding of a B cell epitope:antibody complex
def: "A B cell epitope assay that measures the binding of an antibody receptor to an epitope." []
synonym: "antibody binding|any method" EXACT []
is_a: OBI:0003127 ! B cell epitope assay

[Term]
id: OBI:1110128
name: immune epitope assay
def: "An assay that detects the binding of an epitope to an adaptive immune receptor, or an immune process resulting from such a binding event, or characterizes the structrue of the complex resulting from such a binding event." []
synonym: "immune epitope assay" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:1110129
name: assay measuring epitope specific cytokine production by T cells
def: "A T cell epitope assay that detects cytokine production by T cells." []
synonym: "cytokine release|biological activity" EXACT []
is_a: OBI:0002055 ! assay measuring biological activity resulting from T cell epitope:MHC:TCR binding

[Term]
id: OBI:1110130
name: assay measuring epitope specific T cell killing
def: "A T cell epitope dependent biological activity assay that detects the killing of an antigen presenting cell (APC) by a T cell whose TCR recognizes an epitope presented by the APC." []
synonym: "cytotoxicity|biological activity" EXACT []
is_a: OBI:0000882 ! cell-cell killing assay
is_a: OBI:0002055 ! assay measuring biological activity resulting from T cell epitope:MHC:TCR binding

[Term]
id: OBI:1110131
name: assay measuring epitope specific proliferation of T cells
def: "A T cell epitope dependent biological activity assay that detects T cell proliferation." []
synonym: "proliferation|biological activity" EXACT []
is_a: OBI:0002055 ! assay measuring biological activity resulting from T cell epitope:MHC:TCR binding

[Term]
id: OBI:1110132
name: obsolete CD8 receptor
def: "A transmembrane glycoprotein that serves as a co-receptor for the T cell receptor." []
synonym: "CD8" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true
replaced_by: PR:000025402

[Term]
id: OBI:1110150
name: 51 chromium assay measuring epitope specific T cell killing
def: "A chromium release assay that detects the killing of an antigen presenting cell (APC) by a T cell whose TCR recognizes an epitope presented by the APC." []
synonym: "cytotoxicity|51 chromium" EXACT []
is_a: OBI:0002062 ! in vitro assay measuring epitope specific T cell killing
is_a: OBI:9999994 ! chromium release assay

[Term]
id: OBI:1110151
name: ELISA measuring epitope specific interferon-gamma production by T cells
def: "An enzyme-linked immunosorbent assay that detects interferon-gamma production by T cells." []
synonym: "IFNg release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001414 ! assay measuring epitope specific interferon-gamma production by T cells

[Term]
id: OBI:1110152
name: ELISA measuring epitope specific interleukin-2 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-2 production by T cells." []
synonym: "IL-2 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001445 ! assay measuring epitope specific interleukin-2 production by T cells

[Term]
id: OBI:1110153
name: ELISA measuring epitope specific interleukin-4 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-4 production by T cells." []
synonym: "IL-4 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001450 ! assay measuring epitope specific interleukin-4 production by T cells

[Term]
id: OBI:1110154
name: ELISA measuring epitope specific interleukin-5 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-5 production by T cells." []
synonym: "IL-5 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001230 ! assay measuring epitope specific interleukin-5 production by T cells

[Term]
id: OBI:1110155
name: ELISA measuring epitope specific tumor necrosis factor alpha production by T cells
def: "An enzyme-linked immunosorbent assay that detects tumor necrosis factor alpha production by T cells." []
synonym: "TNFa release|ELISA" EXACT []
is_a: OBI:0001246 ! ELISA measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells
is_a: OBI:0001416 ! assay measuring epitope specific tumor necrosis factor alpha production by T cells

[Term]
id: OBI:1110156
name: ELISA measuring epitope specific interleukin-10 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-10 production by T cells." []
synonym: "IL-10 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001209 ! assay measuring epitope specific interleukin-10 production by T cells

[Term]
id: OBI:1110157
name: ELISA measuring epitope specific granulocyte macrophage colony-stimulating factor production by T cells
def: "An enzyme-linked immunosorbent assay that detects granulocyte macrophage colony stimulating factor production by T cells." []
synonym: "GM-CSF release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001233 ! assay measuring epitope specific granulocyte macrophage colony stimulating factor production by T cells

[Term]
id: OBI:1110158
name: ELISA measuring epitope specific interleukin-6 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-6 production by T cells." []
synonym: "IL-6 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001451 ! assay measuring epitope specific interleukin-6 production by T cells

[Term]
id: OBI:1110159
name: ELISA measuring epitope specific interleukin-13 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-13 production by T cells." []
synonym: "IL-13 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001251 ! assay measuring epitope specific interleukin-13 production by T cells

[Term]
id: OBI:1110160
name: ELISA measuring epitope specific interleukin-12 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-12 production by T cells." []
synonym: "IL-12 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001391 ! assay measuring epitope specific interleukin-12 production by T cells

[Term]
id: OBI:1110161
name: ELISA measuring epitope specific interleukin-1 beta production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-1 beta production by T cells." []
synonym: "IL-1b release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001449 ! assay measuring epitope specific interleukin-1 beta production by T cells

[Term]
id: OBI:1110162
name: ELISA measuring epitope specific interleukin-17 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-17 production by T cells." []
synonym: "IL-17 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001295 ! assay measuring epitope specific interleukin-17 production by T cells

[Term]
id: OBI:1110163
name: ELISA measuring epitope specific interleukin-18 production by T cells
def: "An enzyme-linked immunosorbent assay that detects interleukin-18 production by T cells." []
synonym: "IL-18 release|ELISA" EXACT []
is_a: OBI:0000661 ! enzyme-linked immunosorbent assay
is_a: OBI:0001380 ! assay measuring epitope specific interleukin-18 production by T cells

[Term]
id: OBI:1110167
name: ELISPOT assay measuring epitope specific interleukin-4 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-4 production by T cells." []
synonym: "IL-4 release|ELISPOT" EXACT []
is_a: OBI:0001450 ! assay measuring epitope specific interleukin-4 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:1110168
name: ELISPOT assay measuring epitope specific tumor necrosis factor alpha production by T cells
def: "An enzyme-linked immunospot assay that detects tumor necrosis factor alpha production by T cells" []
synonym: "TNFa release|ELISPOT" EXACT []
is_a: OBI:0001272 ! ELISPOT assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells
is_a: OBI:0001416 ! assay measuring epitope specific tumor necrosis factor alpha production by T cells

[Term]
id: OBI:1110170
name: ELISPOT assay measuring epitope specific interleukin-10 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-10 production by T cells." []
synonym: "IL-10 release|ELISPOT" EXACT []
is_a: OBI:0001209 ! assay measuring epitope specific interleukin-10 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:1110171
name: ELISPOT assay measuring epitope specific interleukin-13 production by T cells
def: "An enzyme-linked immunospot assay that detects interleukin-13 production by T cells." []
synonym: "IL-13 release|ELISPOT" EXACT []
is_a: OBI:0001251 ! assay measuring epitope specific interleukin-13 production by T cells
is_a: OBI:0600031 ! enzyme-linked immunospot assay

[Term]
id: OBI:1110172
name: intracellular cytokine staining assay measuring epitope specific interferon-gamma production by T cells
def: "A flow cytometry assay that detects interferon-gamma production by T cells." []
synonym: "IFNg release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001414 ! assay measuring epitope specific interferon-gamma production by T cells

[Term]
id: OBI:1110173
name: intracellular cytokine staining assay measuring epitope specific interleukin-2 production by T cells
def: "A flow cytometry assay that detects interleukin-2 production by T cells." []
synonym: "IL-2 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001445 ! assay measuring epitope specific interleukin-2 production by T cells

[Term]
id: OBI:1110174
name: intracellular cytokine staining assay measuring epitope specific tumor necrosis factor alpha production by T cells
def: "A flow cytometry assay that detects tumor necrosis factor alpha production by T cells." []
synonym: "TNFa release|ICS" EXACT []
is_a: OBI:0001385 ! intracellular cytokine staining assay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells
is_a: OBI:0001416 ! assay measuring epitope specific tumor necrosis factor alpha production by T cells

[Term]
id: OBI:1110175
name: intracellular cytokine staining assay measuring epitope specific interleukin-4 production by T cells
def: "A flow cytometry assay that detects interleukin-4 production by T cells." []
synonym: "IL-4 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001450 ! assay measuring epitope specific interleukin-4 production by T cells

[Term]
id: OBI:1110177
name: intracellular cytokine staining assay measuring epitope specific interleukin-10 production by T cells
def: "A flow cytometry assay that detects interleukin-10 production by T cells." []
synonym: "IL-10 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001209 ! assay measuring epitope specific interleukin-10 production by T cells

[Term]
id: OBI:1110178
name: intracellular cytokine staining assay measuring epitope specific interleukin-17 production by T cells
def: "A flow cytometry assay that detects interleukin-17 production by T cells." []
synonym: "IL-17 release|ICS" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001295 ! assay measuring epitope specific interleukin-17 production by T cells

[Term]
id: OBI:1110179
name: MHC tetramer/multimer assay measuring binding of a T cell epitope:MHC:TCR complex
def: "A MHC tetramer/multimer assay that measures the binding of an epitope:MHC complex binding with a T cell receptor." []
synonym: "qualitative binding|multimer/tetramer" EXACT []
is_a: OBI:0000916 ! flow cytometry assay
is_a: OBI:0001501 ! fluorescence detection assay
is_a: OBI:1110124 ! assay measuring qualitative binding of a T cell epitope:MHC:TCR complex

[Term]
id: OBI:1110180
name: 3H-thymidine assay measuring epitope specific proliferation of T cells
def: "A tritiated thymidine incorporation assay that detects T cell epitope specific proliferation in vitro." []
synonym: "proliferation|3H-thymidine" EXACT []
is_a: OBI:0000669 ! tritiated thymidine incorporation assay
is_a: OBI:0002071 ! in vitro assay measuring epitope specific proliferation of T cells

[Term]
id: OBI:1110181
name: BrdU assay measuring epitope specific proliferation of T cells
def: "A BrdU incorporation assay that detects T cell epitope specific proliferation in vitro." []
synonym: "proliferation|BrdU" EXACT []
is_a: OBI:0000664 ! BrdU incorporation assay
is_a: OBI:0002071 ! in vitro assay measuring epitope specific proliferation of T cells

[Term]
id: OBI:1110182
name: epitope specific T cell proliferation
def: "A biological process where T cells proliferate resulting from the recognition of a T cell epitope." []
is_a: GO:0042098 ! T cell proliferation

[Term]
id: OBI:1110184
name: epitope specific GM-CSF release by T cells
def: "A biological process where T cells produce GM-CSF resulting from the recognition of a T cell epitope." []
is_a: GO:0032604 ! granulocyte macrophage colony-stimulating factor production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:1110185
name: epitope specific IFN-g release by T cells
def: "A biological process where T cells produce IFNg resulting from the recognition of a T cell epitope." []
is_a: GO:0032609 ! type II interferon production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:1110187
name: epitope specific IL-10 release by T cells
def: "A biological process where T cells produce IL-10 resulting from the recognition of a T cell epitope." []
is_a: GO:0032613 ! interleukin-10 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:1110190
name: epitope specific IL-12 release by T cells
def: "A biological process where T cells produce IL-12 resulting from the recognition of a T cell epitope." []
is_a: GO:0032615 ! interleukin-12 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:1110191
name: epitope specific IL-13 release by T cells
def: "A biological process where T cells produce IL-13 resulting from the recognition of a T cell epitope." []
is_a: GO:0032616 ! interleukin-13 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:1110193
name: epitope specific IL-17 release by T cells
def: "A biological process where T cells produce IL-17 resulting from the recognition of a T cell epitope." []
is_a: GO:0032620 ! interleukin-17 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:1110195
name: epitope specific IL-18 release by T cells
def: "A biological process where T cells produce IL-18 resulting from the recognition of a T cell epitope." []
is_a: GO:0032621 ! interleukin-18 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:1110196
name: epitope specific IL-1b release by T cells
def: "A biological process where T cells produce IL-1b resulting from the recognition of a T cell epitope." []
is_a: GO:0032611 ! interleukin-1 beta production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:1110199
name: epitope specific IL-4 release by T cells
def: "A biological process where T cells produce IL-4 resulting from the recognition of a T cell epitope." []
is_a: GO:0032633 ! interleukin-4 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:1110201
name: allergen
def: "A material entity bearing the disposition to cause an allergic reaction" []
is_a: BFO:0000040 ! material entity

[Term]
id: OBI:1110202
name: epitope specific IL-5 release by T cells
def: "A biological process where T cells produce IL-5 resulting from the recognition of a T cell epitope." []
is_a: GO:0032634 ! interleukin-5 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:1110203
name: epitope specific IL-6 release by T cells
def: "A biological process where T cells produce IL-6 resulting from the recognition of a T cell epitope." []
is_a: GO:0032635 ! interleukin-6 production
is_a: OBI:0001193 ! epitope specific cytokine production by T cells

[Term]
id: OBI:1110204
name: epitope specific killing by T cells
def: "A biological process where T cells lyse antigen presenting cells resulting from the recognition of a T cell epitope on MHC molecules of the antigen presenting cell." []
is_a: GO:0001913 ! T cell mediated cytotoxicity

[Term]
id: OBI:1110206
name: epitope specific TNF release by T cells
def: "A biological process where T cells produce TNF resulting from the recognition of a T cell epitope." []
is_a: GO:0032640 ! tumor necrosis factor production
is_a: OBI:0001351 ! epitope specific tumor necrosis factor superfamily cytokine production by T cells

[Term]
id: OBI:1110207
name: assay detecting IFN-gamma production
def: "An assay that determines information about the production of the cytokine interferon gamma" []
synonym: "IFNg release" EXACT []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:1110300
name: direct submission to IEDB
def: "A report about experiments in an investigation that characterize immune epitopes, and was submitted directly by the authors to the Immune Epitope Database (IEDB)" []
is_a: IAO:0000088 ! report

[Term]
id: OBI:1200000
name: FFPE specimen
def: "A specimen that has been fixed in formalin and embedded in paraffin." []
synonym: "formalin-fixed paraffin-embeded specimen" EXACT []
is_a: OBI:0000950 ! paraffin specimen

[Term]
id: OBI:2000000
name: uterine cervix specimen
def: "A specimen that is derived from some uterine cervix" []
is_a: OBI:0002553 ! uterus specimen

[Term]
id: OBI:2000001
name: urethra specimen
def: "A specimen that is derived from some urethra" []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:2000002
name: cervical mucus specimen
def: "A specimen that is derived from some cervical mucus" []
is_a: OBI:2000009 ! bodily fluid specimen

[Term]
id: OBI:2000003
name: throat specimen
def: "A specimen that is derived from some throat" []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:2000004
name: eye specimen
def: "A specimen that is derived from some eye" []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:2000005
name: respiratory system specimen
def: "A specimen that is derived from some respiratory system" []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:2000006
name: upper respiratory tract specimen
def: "A specimen that is derived from some upper respiratory tract" []
is_a: OBI:2000005 ! respiratory system specimen

[Term]
id: OBI:2000007
name: nasopharynx specimen
def: "A specimen that is derived from some nasopharynx" []
is_a: OBI:2000006 ! upper respiratory tract specimen

[Term]
id: OBI:2000008
name: semen specimen
def: "A specimen that is derived from some semen" []
is_a: OBI:2000009 ! bodily fluid specimen

[Term]
id: OBI:2000009
name: bodily fluid specimen
def: "A specimen that is derived from some bodily fluid" []
is_a: OBI:0001479 ! specimen from organism

[Term]
id: OBI:2000010
name: chorionic villus specimen
def: "A specimen that is derived from some chorionic villus" []
is_a: OBI:0002513 ! placenta specimen

[Term]
id: OBI:2000011
name: meconium specimen
def: "A specimen that is derived from some meconium" []
is_a: OBI:0002503 ! feces specimen

[Term]
id: OBI:2000012
name: umbilical cord blood specimen
def: "A specimen that is derived from some umbilical cord blood" []
is_a: OBI:2000013 ! arterial blood specimen

[Term]
id: OBI:2000013
name: arterial blood specimen
def: "A specimen that is derived from some arterial blood" []
is_a: OBI:0000655 ! blood specimen

[Term]
id: OBI:2000014
name: venous blood specimen
def: "A specimen that is derived from some venous blood" []
is_a: OBI:0000655 ! blood specimen

[Term]
id: OBI:2000015
name: capillary blood specimen
def: "A specimen that is derived from some capillary blood" []
is_a: OBI:0000655 ! blood specimen

[Term]
id: OBI:2000016
name: erythrocyte specimen
def: "A specimen that is derived from some erythrocytes" []
is_a: OBI:0001468 ! cell specimen

[Term]
id: OBI:2000017
name: reticulocyte specimen
def: "A specimen that is derived from some reticulocytes" []
is_a: OBI:0001468 ! cell specimen

[Term]
id: OBI:2000018
name: leukocyte specimen
def: "A specimen that is derived from some leukocytes" []
is_a: OBI:0001468 ! cell specimen

[Term]
id: OBI:2100001
name: carbon dioxide assay
def: "An analyte assay that measures the abundance of carbon dioxide" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100002
name: sodium(1+) assay
def: "An analyte assay that measures the abundance of sodium(1+)" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100003
name: creatinine assay
def: "An analyte assay that measures the abundance of creatinine" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100004
name: potassium(1+) assay
def: "An analyte assay that measures the abundance of potassium(1+)" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100005
name: basophil count assay
def: "A cytometry assay that measures the count of basophils" []
is_a: OBI:0003021 ! basophil assay

[Term]
id: OBI:2100006
name: neutrophil count assay
def: "A cytometry assay that measures the count of neutrophils" []
is_a: OBI:0003022 ! neutrophil assay

[Term]
id: OBI:2100007
name: eosinophil count assay
def: "A cytometry assay that measures the count of eosinophils" []
is_a: OBI:0003023 ! eosinophil assay

[Term]
id: OBI:2100008
name: lymphocyte count assay
def: "A cytometry assay that measures the count of lymphocytes" []
is_a: OBI:0003024 ! lymphocyte assay

[Term]
id: OBI:2100009
name: monocyte count assay
def: "A cytometry assay that measures the count of monocytes" []
is_a: OBI:0003025 ! monocyte assay

[Term]
id: OBI:2100010
name: chloride assay
def: "An analyte assay that measures the abundance of chloride" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100011
name: erythrocyte count assay
def: "A cytometry assay that measures the count of erythrocytes" []
is_a: OBI:0003018 ! hematocrit assay

[Term]
id: OBI:2100012
name: platelet count assay
def: "A cytometry assay that measures the count of platelets" []
is_a: OBI:0003028 ! platelet assay

[Term]
id: OBI:2100013
name: leukocyte count assay
def: "A cytometry assay that measures the count of leukocytes" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:2100014
name: hemoglobin assay
def: "An analyte assay that measures the abundance of hemoglobin" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100015
name: phosphate ion assay
def: "An analyte assay that measures the abundance of phosphate ion" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100016
name: alanine aminotransferase assay
def: "An analyte assay that measures the abundance of alanine aminotransferase" []
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100017
name: alkaline phosphatase (human) assay
def: "An analyte assay that measures the abundance of alkaline phosphatase (human)" []
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100018
name: bilirubin IXalpha assay
def: "An analyte assay that measures the abundance of bilirubin IXalpha" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100019
name: aspartate aminotransferase (human) assay
def: "An analyte assay that measures the abundance of aspartate aminotransferase (human)" []
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100020
name: glucose assay
def: "An analyte assay that measures the abundance of glucose" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100021
name: magnesium cation assay
def: "An analyte assay that measures the abundance of magnesium cation" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100022
name: albumin assay
def: "An analyte assay that measures the abundance of albumin" []
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100023
name: protein assay
def: "An analyte assay that measures the abundance of protein" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100024
name: calcium cation assay
def: "An analyte assay that measures the abundance of calcium cation" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100025
name: creatine kinase assay
def: "An analyte assay that measures the abundance of creatine kinase" []
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100026
name: nucleate erythrocyte count assay
def: "A cytometry assay that measures the count of nucleate erythrocytes" []
is_a: OBI:0003018 ! hematocrit assay

[Term]
id: OBI:2100027
name: segmented neutrophil of bone marrow count assay
def: "A cytometry assay that measures the count of segmented neutrophil of bone marrows" []
is_a: OBI:0003022 ! neutrophil assay

[Term]
id: OBI:2100028
name: lactate dehydrogenase complex assay
def: "An assay that measures lactate dehydrogenase complex" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:2100029
name: triglyceride assay
def: "An analyte assay that measures the abundance of triglyceride" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100030
name: high-density lipoprotein cholesterol assay
def: "An analyte assay that measures the abundance of high-density lipoprotein cholesterol" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100031
name: cholesterol assay
def: "An analyte assay that measures the abundance of cholesterol" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100032
name: low-density lipoprotein cholesterol assay
def: "An analyte assay that measures the abundance of low-density lipoprotein cholesterol" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100033
name: thyroid stimulating hormone assay
def: "An analyte assay that measures the abundance of thyroid stimulating hormone" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100034
name: prostate-specific antigen assay
def: "An analyte assay that measures the abundance of prostate-specific antigen" []
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100035
name: thyroxine assay
def: "An analyte assay that measures the abundance of thyroxine" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100036
name: elemental oxygen assay
def: "An analyte assay that measures the abundance of elemental oxygen" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100037
name: folic acids assay
def: "An analyte assay that measures the abundance of folic acids" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100038
name: reticulocyte count assay
def: "A cytometry assay that measures the count of reticulocytes" []
is_a: OBI:0003026 ! reticulocyte assay

[Term]
id: OBI:2100039
name: osmolality assay
def: "An assay that measures osmolality" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:2100040
name: methemoglobin assay
def: "An analyte assay that measures the abundance of methemoglobin" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100041
name: cytosolic creatine kinase complex, MB-type assay
def: "An assay that measures cytosolic creatine kinase complex, MB-type" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:2100042
name: rac-lactic acid assay
def: "An assay that measures rac-lactic acid" []
is_a: OBI:0000070 ! assay

[Term]
id: OBI:2100043
name: hydrogencarbonate assay
def: "An analyte assay that measures the abundance of hydrogencarbonate" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100044
name: vancomycin assay
def: "An analyte assay that measures the abundance of vancomycin" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100045
name: tobramycin assay
def: "An analyte assay that measures the abundance of tobramycin" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100046
name: 3,3',5'-triiodothyronine assay
def: "An analyte assay that measures the abundance of 3,3',5'-triiodothyronine" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100047
name: C-reactive protein assay
def: "An analyte assay that measures the abundance of C-reactive protein" []
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100048
name: megakaryocyte count assay
def: "A cytometry assay that measures the count of megakaryocytes" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:2100049
name: mesothelial cell count assay
def: "A cytometry assay that measures the count of mesothelial cells" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:2100050
name: macrophage count assay
def: "A cytometry assay that measures the count of macrophages" []
is_a: OBI:0003027 ! macrophage assay

[Term]
id: OBI:2100051
name: 3-hydroxybutyric acid assay
def: "An analyte assay that measures the abundance of 3-hydroxybutyric acid" []
is_a: OBI:0000443 ! analyte assay

[Term]
id: OBI:2100052
name: panel5 venous blood carbon dioxide assay
def: "An analyte assay that measures the abundance of carbon dioxide in venous blood as part of a panel5 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100001 ! carbon dioxide assay

[Term]
id: OBI:2100053
name: panel5 venous blood sodium assay
def: "An analyte assay that measures the abundance of sodium in venous blood as part of a panel5 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100002 ! sodium(1+) assay

[Term]
id: OBI:2100054
name: panel5 venous blood creatinine assay
def: "An analyte assay that measures the abundance of creatinine in venous blood as part of a panel5 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100003 ! creatinine assay

[Term]
id: OBI:2100055
name: panel5 venous blood potassium assay
def: "An analyte assay that measures the abundance of potassium in venous blood as part of a panel5 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100004 ! potassium(1+) assay

[Term]
id: OBI:2100056
name: automated differential venous blood basophil count assay
def: "A cytometry assay that measures the count of basophils in venous blood as part of a automated differential order" []
is_a: OBI:0003021 ! basophil assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100057
name: automated differential venous blood neutrophil count assay
def: "A cytometry assay that measures the count of neutrophils in venous blood as part of a automated differential order" []
is_a: OBI:0003022 ! neutrophil assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100058
name: automated differential venous blood eosinophil count assay
def: "A cytometry assay that measures the count of eosinophils in venous blood as part of a automated differential order" []
is_a: OBI:0003023 ! eosinophil assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100059
name: automated differential venous blood lymphocyte count assay
def: "A cytometry assay that measures the count of lymphocytes in venous blood as part of a automated differential order" []
is_a: OBI:0003024 ! lymphocyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100060
name: automated differential venous blood monocyte count assay
def: "A cytometry assay that measures the count of monocytes in venous blood as part of a automated differential order" []
is_a: OBI:0003025 ! monocyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100061
name: venous blood chloride assay
def: "An analyte assay that measures the abundance of chloride in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100010 ! chloride assay

[Term]
id: OBI:2100062
name: CBC with automated differential venous blood RBC count assay
def: "A cytometry assay that measures the count of RBCs in venous blood as part of a CBC with automated differential order" []
is_a: OBI:0003018 ! hematocrit assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100063
name: CBC with automated differential venous blood platelet count assay
def: "A cytometry assay that measures the count of platelets in venous blood as part of a CBC with automated differential order" []
is_a: OBI:0003028 ! platelet assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100064
name: CBC with automated differential venous blood WBC count assay
def: "A cytometry assay that measures the count of WBCs in venous blood as part of a CBC with automated differential order" []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100065
name: CBC with automated differential venous blood hematocrit assay
def: "A cytometry assay that measures the proportion of red blood cells in venous blood as part of a CBC with automated differential order" []
is_a: OBI:0003018 ! hematocrit assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100066
name: CBC with automated differential venous blood hemoglobin assay
def: "An analyte assay that measures the abundance of hemoglobin in venous blood as part of a CBC with automated differential order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100014 ! hemoglobin assay

[Term]
id: OBI:2100067
name: venous blood phosphate assay
def: "An analyte assay that measures the abundance of phosphate in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100015 ! phosphate ion assay

[Term]
id: OBI:2100068
name: liver injury venous blood alanine aminotransferase assay
def: "An analyte assay that measures the abundance of alanine aminotransferase in venous blood as part of a liver injury order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100016 ! alanine aminotransferase assay

[Term]
id: OBI:2100069
name: liver injury venous blood human alkaline phosphatase assay
def: "An analyte assay that measures the abundance of human alkaline phosphatase in venous blood as part of a liver injury order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100017 ! alkaline phosphatase (human) assay

[Term]
id: OBI:2100070
name: liver injury venous blood bilirubin assay
def: "An analyte assay that measures the abundance of bilirubin in venous blood as part of a liver injury order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100018 ! bilirubin IXalpha assay

[Term]
id: OBI:2100071
name: liver injury venous blood human aspartate aminotransferase assay
def: "An analyte assay that measures the abundance of human aspartate aminotransferase in venous blood as part of a liver injury order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100019 ! aspartate aminotransferase (human) assay

[Term]
id: OBI:2100072
name: venous blood glucose assay
def: "An analyte assay that measures the abundance of glucose in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100020 ! glucose assay

[Term]
id: OBI:2100073
name: venous blood magnesium assay
def: "An analyte assay that measures the abundance of magnesium in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100021 ! magnesium cation assay

[Term]
id: OBI:2100074
name: CBC venous blood RBC count assay
def: "A cytometry assay that measures the count of RBCs in venous blood as part of a CBC order" []
is_a: OBI:0003018 ! hematocrit assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100075
name: CBC venous blood WBC count assay
def: "A cytometry assay that measures the count of WBCs in venous blood as part of a CBC order" []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100076
name: CBC venous blood hematocrit assay
def: "A cytometry assay that measures the proportion of red blood cells in venous blood as part of a CBC order" []
is_a: OBI:0003018 ! hematocrit assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100077
name: CBC venous blood platelet count assay
def: "A cytometry assay that measures the count of platelets in venous blood as part of a CBC order" []
is_a: OBI:0003028 ! platelet assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100078
name: CBC venous blood hemoglobin assay
def: "An analyte assay that measures the abundance of hemoglobin in venous blood as part of a CBC order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100014 ! hemoglobin assay

[Term]
id: OBI:2100079
name: corrected venous blood leukocyte count assay
def: "A cytometry assay that measures the count of leukocytes in venous blood as part of a corrected order" []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100080
name: liver evaluation venous blood bilirubin assay
def: "An analyte assay that measures the abundance of bilirubin in venous blood as part of a liver evaluation order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100018 ! bilirubin IXalpha assay

[Term]
id: OBI:2100081
name: liver evaluation venous blood globulin assay
def: "An analyte assay that measures the abundance of globulin in venous blood as part of a liver evaluation order" []
is_a: OBI:0003015 ! globulin assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100082
name: liver evaluation venous blood albumin assay
def: "An analyte assay that measures the abundance of albumin in venous blood as part of a liver evaluation order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100022 ! albumin assay

[Term]
id: OBI:2100083
name: liver evaluation venous blood human aspartate aminotransferase assay
def: "An analyte assay that measures the abundance of human aspartate aminotransferase in venous blood as part of a liver evaluation order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100019 ! aspartate aminotransferase (human) assay

[Term]
id: OBI:2100084
name: liver evaluation venous blood alanine aminotransferase assay
def: "An analyte assay that measures the abundance of alanine aminotransferase in venous blood as part of a liver evaluation order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100016 ! alanine aminotransferase assay

[Term]
id: OBI:2100085
name: liver evaluation venous blood human alkaline phosphatase assay
def: "An analyte assay that measures the abundance of human alkaline phosphatase in venous blood as part of a liver evaluation order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100017 ! alkaline phosphatase (human) assay

[Term]
id: OBI:2100086
name: liver evaluation venous blood protein assay
def: "An analyte assay that measures the abundance of protein in venous blood as part of a liver evaluation order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100087
name: basic metabolic panel venous blood chloride assay
def: "An analyte assay that measures the abundance of chloride in venous blood as part of a basic metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100010 ! chloride assay

[Term]
id: OBI:2100088
name: basic metabolic panel venous blood potassium assay
def: "An analyte assay that measures the abundance of potassium in venous blood as part of a basic metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100004 ! potassium(1+) assay

[Term]
id: OBI:2100089
name: basic metabolic panel venous blood sodium assay
def: "An analyte assay that measures the abundance of sodium in venous blood as part of a basic metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100002 ! sodium(1+) assay

[Term]
id: OBI:2100090
name: basic metabolic panel venous blood creatinine assay
def: "An analyte assay that measures the abundance of creatinine in venous blood as part of a basic metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100003 ! creatinine assay

[Term]
id: OBI:2100091
name: basic metabolic panel venous blood glucose assay
def: "An analyte assay that measures the abundance of glucose in venous blood as part of a basic metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100020 ! glucose assay

[Term]
id: OBI:2100092
name: basic metabolic panel venous blood calcium assay
def: "An analyte assay that measures the abundance of calcium in venous blood as part of a basic metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:2100093
name: basic metabolic panel venous blood carbon dioxide assay
def: "An analyte assay that measures the abundance of carbon dioxide in venous blood as part of a basic metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100001 ! carbon dioxide assay

[Term]
id: OBI:2100094
name: venous blood creatine kinase assay
def: "An analyte assay that measures the abundance of creatine kinase in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100025 ! creatine kinase assay

[Term]
id: OBI:2100095
name: venous blood calcium assay
def: "An analyte assay that measures the abundance of calcium in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:2100096
name: venous blood ferritin assay
def: "An assay that measures ferritin in venous blood" []
is_a: OBI:0003009 ! ferritin assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100097
name: total venous blood calcium assay
def: "An analyte assay that measures the abundance of calcium in venous blood as part of a total order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:2100098
name: venous blood iron assay
def: "An analyte assay that measures the abundance of iron in venous blood" []
is_a: OBI:0003011 ! iron assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100099
name: CBC with manual differential venous blood band neutrophil count assay
def: "A cytometry assay that measures the count of band neutrophils in venous blood as part of a CBC with manual differential order" []
is_a: OBI:0003022 ! neutrophil assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100100
name: CBC with manual differential venous blood WBC count assay
def: "A cytometry assay that measures the count of WBCs in venous blood as part of a CBC with manual differential order" []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100101
name: CBC with manual differential venous blood eosinophil count assay
def: "A cytometry assay that measures the count of eosinophils in venous blood as part of a CBC with manual differential order" []
is_a: OBI:0003023 ! eosinophil assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100102
name: CBC with manual differential venous blood lymphocyte count assay
def: "A cytometry assay that measures the count of lymphocytes in venous blood as part of a CBC with manual differential order" []
is_a: OBI:0003024 ! lymphocyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100103
name: CBC with manual differential venous blood nucleated RBC count assay
def: "A cytometry assay that measures the count of nucleated RBCs in venous blood as part of a CBC with manual differential order" []
is_a: OBI:0003018 ! hematocrit assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100104
name: CBC with manual differential venous blood monocyte count assay
def: "A cytometry assay that measures the count of monocytes in venous blood as part of a CBC with manual differential order" []
is_a: OBI:0003025 ! monocyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100105
name: CBC with manual differential venous blood segmented neutrophil count assay
def: "A cytometry assay that measures the count of segmented neutrophils in venous blood as part of a CBC with manual differential order" []
is_a: OBI:0003022 ! neutrophil assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100106
name: CBC with manual differential venous blood basophil count assay
def: "A cytometry assay that measures the count of basophils in venous blood as part of a CBC with manual differential order" []
is_a: OBI:0003021 ! basophil assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100107
name: venous blood albumin assay
def: "An analyte assay that measures the abundance of albumin in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100022 ! albumin assay

[Term]
id: OBI:2100108
name: cardiac enzymes venous blood creatine kinase assay
def: "An analyte assay that measures the abundance of creatine kinase in venous blood as part of a cardiac enzymes order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100025 ! creatine kinase assay

[Term]
id: OBI:2100109
name: venous blood haptoglobin assay
def: "An analyte assay that measures the abundance of haptoglobin in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100110
name: venous blood lactate dehydrogenase assay
def: "An assay that measures lactate dehydrogenase in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100028 ! lactate dehydrogenase complex assay

[Term]
id: OBI:2100111
name: venous blood prealbunin assay
def: "An analyte assay that measures the abundance of prealbunin in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100112
name: lipid panel venous blood triglyceride assay
def: "An analyte assay that measures the abundance of triglyceride in venous blood as part of a lipid panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100029 ! triglyceride assay

[Term]
id: OBI:2100113
name: lipid panel venous blood high density lipoprotein assay
def: "An analyte assay that measures the abundance of high density lipoprotein in venous blood as part of a lipid panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100030 ! high-density lipoprotein cholesterol assay

[Term]
id: OBI:2100114
name: lipid panel venous blood cholesterol assay
def: "An analyte assay that measures the abundance of cholesterol in venous blood as part of a lipid panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100031 ! cholesterol assay

[Term]
id: OBI:2100115
name: lipid panel venous blood low density lipoprotein assay
def: "An analyte assay that measures the abundance of low density lipoprotein in venous blood as part of a lipid panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100032 ! low-density lipoprotein cholesterol assay

[Term]
id: OBI:2100116
name: venous blood hemoglobin A1c assay
def: "An assay that measures hemoglobin A1c in venous blood" []
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100117
name: venous blood uric acid assay
def: "An analyte assay that measures the abundance of uric acid in venous blood" []
is_a: OBI:0003014 ! uric acid assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100118
name: total venous blood protein assay
def: "An analyte assay that measures the abundance of protein in venous blood as part of a total order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100119
name: venous blood thyroid stimulating hormone assay
def: "An analyte assay that measures the abundance of thyroid stimulating hormone in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100033 ! thyroid stimulating hormone assay

[Term]
id: OBI:2100120
name: venous blood prostate specific antigen assay
def: "An analyte assay that measures the abundance of prostate specific antigen in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100034 ! prostate-specific antigen assay

[Term]
id: OBI:2100121
name: 24 hour total urine volume assay
def: "An assay that measures volume in urine as part of a 24 hour total order" []
is_a: OBI:0003043 ! urine assay

[Term]
id: OBI:2100122
name: T4 uptake venous blood T4 assay
def: "An analyte assay that measures the abundance of T4 in venous blood as part of a T4 uptake order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100035 ! thyroxine assay

[Term]
id: OBI:2100123
name: arterial blood glucose assay
def: "An analyte assay that measures the abundance of glucose in arterial blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100020 ! glucose assay

[Term]
id: OBI:2100124
name: CBC with manual differential venous blood cell count assay
def: "A cytometry assay that measures the count of cells in venous blood as part of a CBC with manual differential order" []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100125
name: hemoglobin oxygen saturation arterial blood oxygen assay
def: "An analyte assay that measures the abundance of oxygen in arterial blood as part of a hemoglobin oxygen saturation order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100036 ! elemental oxygen assay

[Term]
id: OBI:2100126
name: hemoglobin oxygen saturation arterial blood hemoglobin assay
def: "An analyte assay that measures the abundance of hemoglobin in arterial blood as part of a hemoglobin oxygen saturation order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100014 ! hemoglobin assay

[Term]
id: OBI:2100127
name: inpatient profile venous blood sodium assay
def: "An analyte assay that measures the abundance of sodium in venous blood as part of a inpatient profile order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100002 ! sodium(1+) assay

[Term]
id: OBI:2100128
name: inpatient profile venous blood creatinine assay
def: "An analyte assay that measures the abundance of creatinine in venous blood as part of a inpatient profile order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100003 ! creatinine assay

[Term]
id: OBI:2100129
name: inpatient profile venous blood potassium assay
def: "An analyte assay that measures the abundance of potassium in venous blood as part of a inpatient profile order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100004 ! potassium(1+) assay

[Term]
id: OBI:2100130
name: inpatient profile venous blood carbon dioxide assay
def: "An analyte assay that measures the abundance of carbon dioxide in venous blood as part of a inpatient profile order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100001 ! carbon dioxide assay

[Term]
id: OBI:2100131
name: venous blood folic acid assay
def: "An analyte assay that measures the abundance of folic acid in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100037 ! folic acids assay

[Term]
id: OBI:2100132
name: count venous blood reticulocyte count assay
def: "A cytometry assay that measures the count of reticulocytes in venous blood as part of a count order" []
is_a: OBI:0003026 ! reticulocyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100133
name: venous blood potassium assay
def: "An analyte assay that measures the abundance of potassium in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100004 ! potassium(1+) assay

[Term]
id: OBI:2100134
name: venous blood carbon dioxide assay
def: "An analyte assay that measures the abundance of carbon dioxide in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100001 ! carbon dioxide assay

[Term]
id: OBI:2100135
name: venous blood transferrin assay
def: "An analyte assay that measures the abundance of transferrin in venous blood" []
is_a: OBI:0003013 ! transferrin assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100136
name: venous blood sodium assay
def: "An analyte assay that measures the abundance of sodium in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100002 ! sodium(1+) assay

[Term]
id: OBI:2100137
name: random electrolytes urine sodium assay
def: "An analyte assay that measures the abundance of sodium in urine as part of a random electrolytes order" []
is_a: OBI:0003043 ! urine assay
is_a: OBI:2100002 ! sodium(1+) assay

[Term]
id: OBI:2100138
name: random electrolytes urine potassium assay
def: "An analyte assay that measures the abundance of potassium in urine as part of a random electrolytes order" []
is_a: OBI:0003043 ! urine assay
is_a: OBI:2100004 ! potassium(1+) assay

[Term]
id: OBI:2100139
name: urine creatinine assay
def: "An analyte assay that measures the abundance of creatinine in urine" []
is_a: OBI:0003043 ! urine assay
is_a: OBI:2100003 ! creatinine assay

[Term]
id: OBI:2100140
name: urine osmolality assay
def: "An assay that measures osmolality in urine" []
is_a: OBI:0003043 ! urine assay
is_a: OBI:2100039 ! osmolality assay

[Term]
id: OBI:2100141
name: cooximitery arterial blood oxygen assay
def: "An analyte assay that measures the abundance of oxygen in arterial blood as part of a cooximitery order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100036 ! elemental oxygen assay

[Term]
id: OBI:2100142
name: cooximitery arterial blood hemoglobin assay
def: "An analyte assay that measures the abundance of hemoglobin in arterial blood as part of a cooximitery order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100014 ! hemoglobin assay

[Term]
id: OBI:2100143
name: cooximitery arterial blood methemoglobin assay
def: "An analyte assay that measures the abundance of methemoglobin in arterial blood as part of a cooximitery order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100040 ! methemoglobin assay

[Term]
id: OBI:2100144
name: electrolytes urine sodium assay
def: "An analyte assay that measures the abundance of sodium in urine as part of a electrolytes order" []
is_a: OBI:0003043 ! urine assay
is_a: OBI:2100002 ! sodium(1+) assay

[Term]
id: OBI:2100145
name: electrolytes urine potassium assay
def: "An analyte assay that measures the abundance of potassium in urine as part of a electrolytes order" []
is_a: OBI:0003043 ! urine assay
is_a: OBI:2100004 ! potassium(1+) assay

[Term]
id: OBI:2100146
name: Biosite cardiac panel arterial blood creatine kinase MB assay
def: "An assay that measures creatine kinase MB in arterial blood as part of a Biosite cardiac panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100041 ! cytosolic creatine kinase complex, MB-type assay

[Term]
id: OBI:2100147
name: venous blood fibrinogen assay
def: "An assay that measures fibrinogen in venous blood" []
is_a: OBI:0003010 ! fibrinogen assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100148
name: comprehensive metabolic panel venous blood carbon dioxide assay
def: "An analyte assay that measures the abundance of carbon dioxide in venous blood as part of a comprehensive metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100001 ! carbon dioxide assay

[Term]
id: OBI:2100149
name: comprehensive metabolic panel venous blood calcium assay
def: "An analyte assay that measures the abundance of calcium in venous blood as part of a comprehensive metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:2100150
name: comprehensive metabolic panel venous blood potassium assay
def: "An analyte assay that measures the abundance of potassium in venous blood as part of a comprehensive metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100004 ! potassium(1+) assay

[Term]
id: OBI:2100151
name: comprehensive metabolic panel venous blood sodium assay
def: "An analyte assay that measures the abundance of sodium in venous blood as part of a comprehensive metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100002 ! sodium(1+) assay

[Term]
id: OBI:2100152
name: comprehensive metabolic panel venous blood glucose assay
def: "An analyte assay that measures the abundance of glucose in venous blood as part of a comprehensive metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100020 ! glucose assay

[Term]
id: OBI:2100153
name: comprehensive metabolic panel venous blood albumin assay
def: "An analyte assay that measures the abundance of albumin in venous blood as part of a comprehensive metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100022 ! albumin assay

[Term]
id: OBI:2100154
name: comprehensive metabolic panel venous blood human alkaline phosphatase assay
def: "An analyte assay that measures the abundance of human alkaline phosphatase in venous blood as part of a comprehensive metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100017 ! alkaline phosphatase (human) assay

[Term]
id: OBI:2100155
name: comprehensive metabolic panel venous blood bilirubin assay
def: "An analyte assay that measures the abundance of bilirubin in venous blood as part of a comprehensive metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100018 ! bilirubin IXalpha assay

[Term]
id: OBI:2100156
name: comprehensive metabolic panel venous blood chloride assay
def: "An analyte assay that measures the abundance of chloride in venous blood as part of a comprehensive metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100010 ! chloride assay

[Term]
id: OBI:2100157
name: comprehensive metabolic panel venous blood human aspartate aminotransferase assay
def: "An analyte assay that measures the abundance of human aspartate aminotransferase in venous blood as part of a comprehensive metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100019 ! aspartate aminotransferase (human) assay

[Term]
id: OBI:2100158
name: comprehensive metabolic panel venous blood protein assay
def: "An analyte assay that measures the abundance of protein in venous blood as part of a comprehensive metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100159
name: comprehensive metabolic panel venous blood creatinine assay
def: "An analyte assay that measures the abundance of creatinine in venous blood as part of a comprehensive metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100003 ! creatinine assay

[Term]
id: OBI:2100160
name: comprehensive metabolic panel venous blood alanine aminotransferase assay
def: "An analyte assay that measures the abundance of alanine aminotransferase in venous blood as part of a comprehensive metabolic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100016 ! alanine aminotransferase assay

[Term]
id: OBI:2100161
name: venous blood LDH assay
def: "An assay that measures LDH in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100028 ! lactate dehydrogenase complex assay

[Term]
id: OBI:2100162
name: venous blood creatine kinase MB assay
def: "An assay that measures creatine kinase MB in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100041 ! cytosolic creatine kinase complex, MB-type assay

[Term]
id: OBI:2100163
name: venous blood lactic acid assay
def: "An assay that measures lactic acid in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100042 ! rac-lactic acid assay

[Term]
id: OBI:2100164
name: venous blood hematocrit assay
def: "A cytometry assay that measures the proportion of red blood cells in venous blood" []
is_a: OBI:0003018 ! hematocrit assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100165
name: venous blood creatinine assay
def: "An analyte assay that measures the abundance of creatinine in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100003 ! creatinine assay

[Term]
id: OBI:2100166
name: blood gas venous blood oxygen assay
def: "An analyte assay that measures the abundance of oxygen in venous blood as part of a blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100036 ! elemental oxygen assay

[Term]
id: OBI:2100167
name: ionized venous blood ionized calcium assay
def: "An analyte assay that measures the abundance of ionized calcium in venous blood as part of a ionized order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:2100168
name: blood gas venous blood carbon dioxide assay
def: "An analyte assay that measures the abundance of carbon dioxide in venous blood as part of a blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100001 ! carbon dioxide assay

[Term]
id: OBI:2100169
name: blood gas venous blood bicarbonate assay
def: "An analyte assay that measures the abundance of bicarbonate in venous blood as part of a blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100043 ! hydrogencarbonate assay

[Term]
id: OBI:2100170
name: arterial blood creatinine assay
def: "An analyte assay that measures the abundance of creatinine in arterial blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100003 ! creatinine assay

[Term]
id: OBI:2100171
name: venous blood tacrolimus assay
def: "An analyte assay that measures the abundance of tacrolimus in venous blood" []
is_a: OBI:0000443 ! analyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100172
name: random venous blood vancomycin assay
def: "An analyte assay that measures the abundance of vancomycin in venous blood as part of a random order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100044 ! vancomycin assay

[Term]
id: OBI:2100173
name: venous blood mycophenolic acid assay
def: "An analyte assay that measures the abundance of mycophenolic acid in venous blood" []
is_a: OBI:0000443 ! analyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100174
name: non-vented blood gas arterial blood carbon dioxide assay
def: "An analyte assay that measures the abundance of carbon dioxide in arterial blood as part of a non-vented blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100001 ! carbon dioxide assay

[Term]
id: OBI:2100175
name: non-vented blood gas arterial blood oxygen assay
def: "An analyte assay that measures the abundance of oxygen in arterial blood as part of a non-vented blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100036 ! elemental oxygen assay

[Term]
id: OBI:2100176
name: non-vented blood gas arterial blood bicarbonate assay
def: "An analyte assay that measures the abundance of bicarbonate in arterial blood as part of a non-vented blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100043 ! hydrogencarbonate assay

[Term]
id: OBI:2100177
name: quantitative venous blood IgG assay
def: "An assay that measures IgG in venous blood as part of a quantitative order" []
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100178
name: quantitative venous blood IgM assay
def: "An assay that measures IgM in venous blood as part of a quantitative order" []
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100179
name: quantitative venous blood IgA assay
def: "An assay that measures IgA in venous blood as part of a quantitative order" []
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100180
name: arterial blood sodium assay
def: "An analyte assay that measures the abundance of sodium in arterial blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100002 ! sodium(1+) assay

[Term]
id: OBI:2100181
name: arterial blood potassium assay
def: "An analyte assay that measures the abundance of potassium in arterial blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100004 ! potassium(1+) assay

[Term]
id: OBI:2100182
name: ionized arterial blood calcium assay
def: "An analyte assay that measures the abundance of calcium in arterial blood as part of a ionized order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:2100183
name: vented blood gas arterial blood bicarbonate assay
def: "An analyte assay that measures the abundance of bicarbonate in arterial blood as part of a vented blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100043 ! hydrogencarbonate assay

[Term]
id: OBI:2100184
name: vented blood gas arterial blood oxygen assay
def: "An analyte assay that measures the abundance of oxygen in arterial blood as part of a vented blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100036 ! elemental oxygen assay

[Term]
id: OBI:2100185
name: vented blood gas arterial blood carbon dioxide assay
def: "An analyte assay that measures the abundance of carbon dioxide in arterial blood as part of a vented blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100001 ! carbon dioxide assay

[Term]
id: OBI:2100186
name: arterial blood hematocrit assay
def: "A cytometry assay that measures the proportion of red blood cells in arterial blood" []
is_a: OBI:0003018 ! hematocrit assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100187
name: arterial blood chloride assay
def: "An analyte assay that measures the abundance of chloride in arterial blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100010 ! chloride assay

[Term]
id: OBI:2100188
name: arterial blood hemoglobin assay
def: "An analyte assay that measures the abundance of hemoglobin in arterial blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100014 ! hemoglobin assay

[Term]
id: OBI:2100189
name: GEM premier blood gas venous blood hematocrit assay
def: "A cytometry assay that measures the proportion of red blood cells in venous blood as part of a GEM premier blood gas order" []
is_a: OBI:0003018 ! hematocrit assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100190
name: GEM premier blood gas venous blood ionized calcium assay
def: "An analyte assay that measures the abundance of ionized calcium in venous blood as part of a GEM premier blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:2100191
name: GEM premier blood gas venous blood potassium assay
def: "An analyte assay that measures the abundance of potassium in venous blood as part of a GEM premier blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100004 ! potassium(1+) assay

[Term]
id: OBI:2100192
name: GEM premier blood gas venous blood oxygen assay
def: "An analyte assay that measures the abundance of oxygen in venous blood as part of a GEM premier blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100036 ! elemental oxygen assay

[Term]
id: OBI:2100193
name: GEM premier blood gas venous blood hemoglobin assay
def: "An analyte assay that measures the abundance of hemoglobin in venous blood as part of a GEM premier blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100014 ! hemoglobin assay

[Term]
id: OBI:2100194
name: GEM premier blood gas venous blood bicarbonate assay
def: "An analyte assay that measures the abundance of bicarbonate in venous blood as part of a GEM premier blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100043 ! hydrogencarbonate assay

[Term]
id: OBI:2100195
name: GEM premier blood gas venous blood glucose assay
def: "An analyte assay that measures the abundance of glucose in venous blood as part of a GEM premier blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100020 ! glucose assay

[Term]
id: OBI:2100196
name: GEM premier blood gas venous blood sodium assay
def: "An analyte assay that measures the abundance of sodium in venous blood as part of a GEM premier blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100002 ! sodium(1+) assay

[Term]
id: OBI:2100197
name: GEM premier blood gas venous blood lactic acid assay
def: "An assay that measures lactic acid in venous blood as part of a GEM premier blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100042 ! rac-lactic acid assay

[Term]
id: OBI:2100198
name: GEM premier blood gas venous blood carbon dioxide assay
def: "An analyte assay that measures the abundance of carbon dioxide in venous blood as part of a GEM premier blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100001 ! carbon dioxide assay

[Term]
id: OBI:2100199
name: trough venous blood tobramycin assay
def: "An analyte assay that measures the abundance of tobramycin in venous blood as part of a trough order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100045 ! tobramycin assay

[Term]
id: OBI:2100200
name: random venous blood tobramycin assay
def: "An analyte assay that measures the abundance of tobramycin in venous blood as part of a random order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100045 ! tobramycin assay

[Term]
id: OBI:2100201
name: CBC with manual differential venous blood metamyelocyte count assay
def: "A cytometry assay that measures the count of metamyelocytes in venous blood as part of a CBC with manual differential order" []
is_a: OBI:0003017 ! metamyelocyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100202
name: arterial blood lactic acid assay
def: "An assay that measures lactic acid in arterial blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100042 ! rac-lactic acid assay

[Term]
id: OBI:2100203
name: venous blood 25-hydroxyvitamin D2 assay
def: "An analyte assay that measures the abundance of 25-hydroxyvitamin D2 in venous blood" []
is_a: OBI:0000443 ! analyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100204
name: venous blood digoxin assay
def: "An analyte assay that measures the abundance of digoxin in venous blood" []
is_a: OBI:0000443 ! analyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100205
name: urine protein assay
def: "An analyte assay that measures the abundance of protein in urine" []
is_a: OBI:0003043 ! urine assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100206
name: venous blood tobramycin assay
def: "An analyte assay that measures the abundance of tobramycin in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100045 ! tobramycin assay

[Term]
id: OBI:2100207
name: CBC with manual differential venous blood myelocyte count assay
def: "A cytometry assay that measures the count of myelocytes in venous blood as part of a CBC with manual differential order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:0003165 ! myelocyte count assay

[Term]
id: OBI:2100208
name: SPEP protein electrophoresis venous blood beta-globin assay
def: "An analyte assay that measures the abundance of beta-globin in venous blood as part of a SPEP protein electrophoresis order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100209
name: SPEP protein electrophoresis venous blood albumin assay
def: "An analyte assay that measures the abundance of albumin in venous blood as part of a SPEP protein electrophoresis order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100022 ! albumin assay

[Term]
id: OBI:2100210
name: SPEP protein electrophoresis venous blood protein assay
def: "An analyte assay that measures the abundance of protein in venous blood as part of a SPEP protein electrophoresis order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100211
name: trough venous blood vancomycin assay
def: "An analyte assay that measures the abundance of vancomycin in venous blood as part of a trough order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100044 ! vancomycin assay

[Term]
id: OBI:2100212
name: hepatic panel venous blood protein assay
def: "An analyte assay that measures the abundance of protein in venous blood as part of a hepatic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100213
name: hepatic panel venous blood bilirubin assay
def: "An analyte assay that measures the abundance of bilirubin in venous blood as part of a hepatic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100018 ! bilirubin IXalpha assay

[Term]
id: OBI:2100214
name: hepatic panel venous blood alanine aminotransferase assay
def: "An analyte assay that measures the abundance of alanine aminotransferase in venous blood as part of a hepatic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100016 ! alanine aminotransferase assay

[Term]
id: OBI:2100215
name: hepatic panel venous blood human aspartate aminotransferase assay
def: "An analyte assay that measures the abundance of human aspartate aminotransferase in venous blood as part of a hepatic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100019 ! aspartate aminotransferase (human) assay

[Term]
id: OBI:2100216
name: hepatic panel venous blood albumin assay
def: "An analyte assay that measures the abundance of albumin in venous blood as part of a hepatic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100022 ! albumin assay

[Term]
id: OBI:2100217
name: hepatic panel venous blood human alkaline phosphatase assay
def: "An analyte assay that measures the abundance of human alkaline phosphatase in venous blood as part of a hepatic panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100017 ! alkaline phosphatase (human) assay

[Term]
id: OBI:2100218
name: estimated venous blood glomerular filtration assay
def: "An assay that measures glomerular filtration in venous blood as part of a estimated order" []
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100219
name: DT60 venous blood creatinine assay
def: "An analyte assay that measures the abundance of creatinine in venous blood as part of a DT60 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100003 ! creatinine assay

[Term]
id: OBI:2100220
name: fasting venous blood glucose assay
def: "An analyte assay that measures the abundance of glucose in venous blood as part of a fasting order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100020 ! glucose assay

[Term]
id: OBI:2100221
name: random venous blood amikacin assay
def: "An analyte assay that measures the abundance of amikacin in venous blood as part of a random order" []
is_a: OBI:0000443 ! analyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100222
name: venous blood ammonia assay
def: "An analyte assay that measures the abundance of ammonia in venous blood" []
is_a: OBI:0000443 ! analyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100223
name: venous blood GGT assay
def: "An analyte assay that measures the abundance of GGT in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100224
name: chem11 venous blood phosphate assay
def: "An analyte assay that measures the abundance of phosphate in venous blood as part of a chem11 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100015 ! phosphate ion assay

[Term]
id: OBI:2100225
name: chem11 venous blood potassium assay
def: "An analyte assay that measures the abundance of potassium in venous blood as part of a chem11 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100004 ! potassium(1+) assay

[Term]
id: OBI:2100226
name: chem11 venous blood calcium assay
def: "An analyte assay that measures the abundance of calcium in venous blood as part of a chem11 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:2100227
name: chem11 venous blood glucose assay
def: "An analyte assay that measures the abundance of glucose in venous blood as part of a chem11 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100020 ! glucose assay

[Term]
id: OBI:2100228
name: chem11 venous blood carbon dioxide assay
def: "An analyte assay that measures the abundance of carbon dioxide in venous blood as part of a chem11 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100001 ! carbon dioxide assay

[Term]
id: OBI:2100229
name: chem11 venous blood albumin assay
def: "An analyte assay that measures the abundance of albumin in venous blood as part of a chem11 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100022 ! albumin assay

[Term]
id: OBI:2100230
name: chem11 venous blood sodium assay
def: "An analyte assay that measures the abundance of sodium in venous blood as part of a chem11 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100002 ! sodium(1+) assay

[Term]
id: OBI:2100231
name: chem11 venous blood magnesium assay
def: "An analyte assay that measures the abundance of magnesium in venous blood as part of a chem11 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100021 ! magnesium cation assay

[Term]
id: OBI:2100232
name: chem11 venous blood creatinine assay
def: "An analyte assay that measures the abundance of creatinine in venous blood as part of a chem11 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100003 ! creatinine assay

[Term]
id: OBI:2100233
name: chem11 venous blood chloride assay
def: "An analyte assay that measures the abundance of chloride in venous blood as part of a chem11 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100010 ! chloride assay

[Term]
id: OBI:2100234
name: total venous blood IgE assay
def: "An assay that measures IgE in venous blood as part of a total order" []
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100235
name: chem16 venous blood human aspartate aminotransferase assay
def: "An analyte assay that measures the abundance of human aspartate aminotransferase in venous blood as part of a chem16 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100019 ! aspartate aminotransferase (human) assay

[Term]
id: OBI:2100236
name: chem16 venous blood creatinine assay
def: "An analyte assay that measures the abundance of creatinine in venous blood as part of a chem16 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100003 ! creatinine assay

[Term]
id: OBI:2100237
name: chem16 venous blood magnesium assay
def: "An analyte assay that measures the abundance of magnesium in venous blood as part of a chem16 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100021 ! magnesium cation assay

[Term]
id: OBI:2100238
name: chem16 venous blood carbon dioxide assay
def: "An analyte assay that measures the abundance of carbon dioxide in venous blood as part of a chem16 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100001 ! carbon dioxide assay

[Term]
id: OBI:2100239
name: chem16 venous blood glucose assay
def: "An analyte assay that measures the abundance of glucose in venous blood as part of a chem16 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100020 ! glucose assay

[Term]
id: OBI:2100240
name: chem16 venous blood calcium assay
def: "An analyte assay that measures the abundance of calcium in venous blood as part of a chem16 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:2100241
name: chem16 venous blood triglyceride assay
def: "An analyte assay that measures the abundance of triglyceride in venous blood as part of a chem16 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100029 ! triglyceride assay

[Term]
id: OBI:2100242
name: chem16 venous blood sodium assay
def: "An analyte assay that measures the abundance of sodium in venous blood as part of a chem16 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100002 ! sodium(1+) assay

[Term]
id: OBI:2100243
name: chem16 venous blood phosphate assay
def: "An analyte assay that measures the abundance of phosphate in venous blood as part of a chem16 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100015 ! phosphate ion assay

[Term]
id: OBI:2100244
name: chem16 venous blood human alkaline phosphatase assay
def: "An analyte assay that measures the abundance of human alkaline phosphatase in venous blood as part of a chem16 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100017 ! alkaline phosphatase (human) assay

[Term]
id: OBI:2100245
name: chem16 venous blood albumin assay
def: "An analyte assay that measures the abundance of albumin in venous blood as part of a chem16 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100022 ! albumin assay

[Term]
id: OBI:2100246
name: chem16 venous blood bilirubin assay
def: "An analyte assay that measures the abundance of bilirubin in venous blood as part of a chem16 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100018 ! bilirubin IXalpha assay

[Term]
id: OBI:2100247
name: chem16 venous blood chloride assay
def: "An analyte assay that measures the abundance of chloride in venous blood as part of a chem16 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100010 ! chloride assay

[Term]
id: OBI:2100248
name: chem16 venous blood alanine aminotransferase assay
def: "An analyte assay that measures the abundance of alanine aminotransferase in venous blood as part of a chem16 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100016 ! alanine aminotransferase assay

[Term]
id: OBI:2100249
name: chem16 venous blood potassium assay
def: "An analyte assay that measures the abundance of potassium in venous blood as part of a chem16 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100004 ! potassium(1+) assay

[Term]
id: OBI:2100250
name: POC chem8 arterial blood glucose assay
def: "An analyte assay that measures the abundance of glucose in arterial blood as part of a POC chem8 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100020 ! glucose assay

[Term]
id: OBI:2100251
name: POC chem8 arterial blood ionized calcium assay
def: "An analyte assay that measures the abundance of ionized calcium in arterial blood as part of a POC chem8 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:2100252
name: POC chem8 arterial blood potassium assay
def: "An analyte assay that measures the abundance of potassium in arterial blood as part of a POC chem8 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100004 ! potassium(1+) assay

[Term]
id: OBI:2100253
name: POC chem8 arterial blood sodium assay
def: "An analyte assay that measures the abundance of sodium in arterial blood as part of a POC chem8 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100002 ! sodium(1+) assay

[Term]
id: OBI:2100254
name: POC chem8 arterial blood creatinine assay
def: "An analyte assay that measures the abundance of creatinine in arterial blood as part of a POC chem8 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100003 ! creatinine assay

[Term]
id: OBI:2100255
name: POC chem8 arterial blood hematocrit assay
def: "A cytometry assay that measures the proportion of red blood cells in arterial blood as part of a POC chem8 order" []
is_a: OBI:0003018 ! hematocrit assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100256
name: POC chem8 arterial blood chloride assay
def: "An analyte assay that measures the abundance of chloride in arterial blood as part of a POC chem8 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100010 ! chloride assay

[Term]
id: OBI:2100257
name: peak venous blood tobramycin assay
def: "An analyte assay that measures the abundance of tobramycin in venous blood as part of a peak order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100045 ! tobramycin assay

[Term]
id: OBI:2100258
name: 24 hour urine creatinine assay
def: "An analyte assay that measures the abundance of creatinine in urine as part of a 24 hour order" []
is_a: OBI:0003043 ! urine assay
is_a: OBI:2100003 ! creatinine assay

[Term]
id: OBI:2100259
name: intact venous blood PTH assay
def: "An analyte assay that measures the abundance of PTH in venous blood as part of a intact order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100034 ! prostate-specific antigen assay

[Term]
id: OBI:2100260
name: total venous blood PSA assay
def: "An analyte assay that measures the abundance of PSA in venous blood as part of a total order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100034 ! prostate-specific antigen assay

[Term]
id: OBI:2100261
name: total venous blood T3 assay
def: "An analyte assay that measures the abundance of T3 in venous blood as part of a total order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100046 ! 3,3',5'-triiodothyronine assay

[Term]
id: OBI:2100262
name: 24 hour urine protein assay
def: "An analyte assay that measures the abundance of protein in urine as part of a 24 hour order" []
is_a: OBI:0003043 ! urine assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100263
name: total venous blood cholesterol assay
def: "An analyte assay that measures the abundance of cholesterol in venous blood as part of a total order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100031 ! cholesterol assay

[Term]
id: OBI:2100264
name: venous blood triglyceride assay
def: "An analyte assay that measures the abundance of triglyceride in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100029 ! triglyceride assay

[Term]
id: OBI:2100265
name: tube 4 count cerebrospinal fluid cell count assay
def: "A cytometry assay that measures the count of cells in cerebrospinal fluid as part of a tube 4 count order" []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0003232 ! cerebrospinal fluid assay

[Term]
id: OBI:2100266
name: cerebrospinal fluid protein assay
def: "An analyte assay that measures the abundance of protein in cerebrospinal fluid" []
is_a: OBI:0003232 ! cerebrospinal fluid assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100267
name: cerebrospinal fluid glucose assay
def: "An analyte assay that measures the abundance of glucose in cerebrospinal fluid" []
is_a: OBI:0003232 ! cerebrospinal fluid assay
is_a: OBI:2100020 ! glucose assay

[Term]
id: OBI:2100268
name: tube 1 count cerebrospinal fluid cell count assay
def: "A cytometry assay that measures the count of cells in cerebrospinal fluid as part of a tube 1 count order" []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0003232 ! cerebrospinal fluid assay

[Term]
id: OBI:2100269
name: venous blood dehydroepiandrosterone assay
def: "An analyte assay that measures the abundance of dehydroepiandrosterone in venous blood" []
is_a: OBI:0000443 ! analyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100270
name: venous blood cortisol assay
def: "An analyte assay that measures the abundance of cortisol in venous blood" []
is_a: OBI:0000443 ! analyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100271
name: ABL90 panel arterial blood sodium assay
def: "An analyte assay that measures the abundance of sodium in arterial blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100002 ! sodium(1+) assay

[Term]
id: OBI:2100272
name: ABL90 panel arterial blood oxygen assay
def: "An analyte assay that measures the abundance of oxygen in arterial blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100036 ! elemental oxygen assay

[Term]
id: OBI:2100273
name: ABL90 panel arterial blood glucose assay
def: "An analyte assay that measures the abundance of glucose in arterial blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100020 ! glucose assay

[Term]
id: OBI:2100274
name: ABL90 panel arterial blood lactic acid assay
def: "An assay that measures lactic acid in arterial blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100042 ! rac-lactic acid assay

[Term]
id: OBI:2100275
name: ABL90 panel arterial blood hemoglobin assay
def: "An analyte assay that measures the abundance of hemoglobin in arterial blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100014 ! hemoglobin assay

[Term]
id: OBI:2100276
name: ABL90 panel arterial blood chloride assay
def: "An analyte assay that measures the abundance of chloride in arterial blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100010 ! chloride assay

[Term]
id: OBI:2100277
name: ABL90 panel arterial blood carbon dioxide assay
def: "An analyte assay that measures the abundance of carbon dioxide in arterial blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100001 ! carbon dioxide assay

[Term]
id: OBI:2100278
name: ABL90 panel arterial blood hematocrit assay
def: "A cytometry assay that measures the proportion of red blood cells in arterial blood as part of a ABL90 panel order" []
is_a: OBI:0003018 ! hematocrit assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100279
name: ABL90 panel arterial blood calcium assay
def: "An analyte assay that measures the abundance of calcium in arterial blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:2100280
name: ABL90 panel arterial blood temperature assay
def: "An assay that measures temperature in arterial blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100281
name: ABL90 panel arterial blood bicarbonate assay
def: "An analyte assay that measures the abundance of bicarbonate in arterial blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100043 ! hydrogencarbonate assay

[Term]
id: OBI:2100282
name: ABL90 panel arterial blood potassium assay
def: "An analyte assay that measures the abundance of potassium in arterial blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100004 ! potassium(1+) assay

[Term]
id: OBI:2100283
name: CBC with manual differential venous blood promyelocyte count assay
def: "A cytometry assay that measures the count of promyelocytes in venous blood as part of a CBC with manual differential order" []
is_a: OBI:0003019 ! promyelocyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100284
name: ABL90 panel venous blood glucose assay
def: "An analyte assay that measures the abundance of glucose in venous blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100020 ! glucose assay

[Term]
id: OBI:2100285
name: ABL90 panel venous blood hemoglobin assay
def: "An analyte assay that measures the abundance of hemoglobin in venous blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100014 ! hemoglobin assay

[Term]
id: OBI:2100286
name: ABL90 panel venous blood ionized calcium assay
def: "An analyte assay that measures the abundance of ionized calcium in venous blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:2100287
name: ABL90 panel venous blood carbon dioxide assay
def: "An analyte assay that measures the abundance of carbon dioxide in venous blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100001 ! carbon dioxide assay

[Term]
id: OBI:2100288
name: ABL90 panel venous blood hematocrit assay
def: "A cytometry assay that measures the proportion of red blood cells in venous blood as part of a ABL90 panel order" []
is_a: OBI:0003018 ! hematocrit assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100289
name: ABL90 panel venous blood sodium assay
def: "An analyte assay that measures the abundance of sodium in venous blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100002 ! sodium(1+) assay

[Term]
id: OBI:2100290
name: ABL90 panel venous blood oxygen assay
def: "An analyte assay that measures the abundance of oxygen in venous blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100036 ! elemental oxygen assay

[Term]
id: OBI:2100291
name: ABL90 panel venous blood bicarbonate assay
def: "An analyte assay that measures the abundance of bicarbonate in venous blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100043 ! hydrogencarbonate assay

[Term]
id: OBI:2100292
name: ABL90 panel venous blood lactic acid assay
def: "An assay that measures lactic acid in venous blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100042 ! rac-lactic acid assay

[Term]
id: OBI:2100293
name: ABL90 panel venous blood chloride assay
def: "An analyte assay that measures the abundance of chloride in venous blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100010 ! chloride assay

[Term]
id: OBI:2100294
name: venous blood T4 assay
def: "An analyte assay that measures the abundance of T4 in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100035 ! thyroxine assay

[Term]
id: OBI:2100295
name: free venous blood T4 assay
def: "An analyte assay that measures the abundance of T4 in venous blood as part of a free order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100035 ! thyroxine assay

[Term]
id: OBI:2100296
name: ABL90 panel venous blood potassium assay
def: "An analyte assay that measures the abundance of potassium in venous blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100004 ! potassium(1+) assay

[Term]
id: OBI:2100297
name: urine sodium assay
def: "An analyte assay that measures the abundance of sodium in urine" []
is_a: OBI:0003043 ! urine assay
is_a: OBI:2100002 ! sodium(1+) assay

[Term]
id: OBI:2100298
name: bone profile venous blood albumin assay
def: "An analyte assay that measures the abundance of albumin in venous blood as part of a bone profile order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100022 ! albumin assay

[Term]
id: OBI:2100299
name: bone profile venous blood calcium assay
def: "An analyte assay that measures the abundance of calcium in venous blood as part of a bone profile order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:2100300
name: bone profile venous blood human alkaline phosphatase assay
def: "An analyte assay that measures the abundance of human alkaline phosphatase in venous blood as part of a bone profile order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100017 ! alkaline phosphatase (human) assay

[Term]
id: OBI:2100301
name: bone profile venous blood protein assay
def: "An analyte assay that measures the abundance of protein in venous blood as part of a bone profile order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100302
name: bone profile venous blood phosphate assay
def: "An analyte assay that measures the abundance of phosphate in venous blood as part of a bone profile order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100015 ! phosphate ion assay

[Term]
id: OBI:2100303
name: ABG/electrolytes arterial blood carbon dioxide assay
def: "An analyte assay that measures the abundance of carbon dioxide in arterial blood as part of a ABG/electrolytes order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100001 ! carbon dioxide assay

[Term]
id: OBI:2100304
name: ABG/electrolytes arterial blood oxygen assay
def: "An analyte assay that measures the abundance of oxygen in arterial blood as part of a ABG/electrolytes order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100036 ! elemental oxygen assay

[Term]
id: OBI:2100305
name: ABG/electrolytes arterial blood ionized calcium assay
def: "An analyte assay that measures the abundance of ionized calcium in arterial blood as part of a ABG/electrolytes order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:2100306
name: CBC with automated differential venous blood nucleated RBC count assay
def: "A cytometry assay that measures the count of nucleated RBCs in venous blood as part of a CBC with automated differential order" []
is_a: OBI:0003018 ! hematocrit assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100307
name: ABL90 panel venous blood methemoglobin assay
def: "An analyte assay that measures the abundance of methemoglobin in venous blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100040 ! methemoglobin assay

[Term]
id: OBI:2100308
name: ABL90 panel arterial blood methemoglobin assay
def: "An analyte assay that measures the abundance of methemoglobin in arterial blood as part of a ABL90 panel order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100040 ! methemoglobin assay

[Term]
id: OBI:2100309
name: venous blood valproic acid assay
def: "An analyte assay that measures the abundance of valproic acid in venous blood" []
is_a: OBI:0000443 ! analyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100310
name: high sensitivity cardiac/neonatal venous blood c-reactive protein assay
def: "An analyte assay that measures the abundance of c-reactive protein in venous blood as part of a high sensitivity cardiac/neonatal order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100047 ! C-reactive protein assay

[Term]
id: OBI:2100311
name: POC arterial blood creatinine assay
def: "An analyte assay that measures the abundance of creatinine in arterial blood as part of a POC order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100003 ! creatinine assay

[Term]
id: OBI:2100312
name: GEM4000 ANLCOOX arterial blood bicarbonate assay
def: "An analyte assay that measures the abundance of bicarbonate in arterial blood as part of a GEM4000 ANLCOOX order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100043 ! hydrogencarbonate assay

[Term]
id: OBI:2100313
name: GEM4000 ANLCOOX arterial blood oxygen assay
def: "An analyte assay that measures the abundance of oxygen in arterial blood as part of a GEM4000 ANLCOOX order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100036 ! elemental oxygen assay

[Term]
id: OBI:2100314
name: GEM4000 ANLCOOX arterial blood hematocrit assay
def: "A cytometry assay that measures the proportion of red blood cells in arterial blood as part of a GEM4000 ANLCOOX order" []
is_a: OBI:0003018 ! hematocrit assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100315
name: GEM4000 ANLCOOX arterial blood temperature assay
def: "An assay that measures temperature in arterial blood as part of a GEM4000 ANLCOOX order" []
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100316
name: GEM4000 ANLCOOX arterial blood hemoglobin assay
def: "An analyte assay that measures the abundance of hemoglobin in arterial blood as part of a GEM4000 ANLCOOX order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100014 ! hemoglobin assay

[Term]
id: OBI:2100317
name: GEM4000 ANLCOOX arterial blood potassium assay
def: "An analyte assay that measures the abundance of potassium in arterial blood as part of a GEM4000 ANLCOOX order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100004 ! potassium(1+) assay

[Term]
id: OBI:2100318
name: GEM4000 ANLCOOX arterial blood glucose assay
def: "An analyte assay that measures the abundance of glucose in arterial blood as part of a GEM4000 ANLCOOX order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100020 ! glucose assay

[Term]
id: OBI:2100319
name: GEM4000 ANLCOOX arterial blood ionized calcium assay
def: "An analyte assay that measures the abundance of ionized calcium in arterial blood as part of a GEM4000 ANLCOOX order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:2100320
name: GEM4000 ANLCOOX arterial blood carbon dioxide assay
def: "An analyte assay that measures the abundance of carbon dioxide in arterial blood as part of a GEM4000 ANLCOOX order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100001 ! carbon dioxide assay

[Term]
id: OBI:2100321
name: GEM4000 ANLCOOX arterial blood sodium assay
def: "An analyte assay that measures the abundance of sodium in arterial blood as part of a GEM4000 ANLCOOX order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100002 ! sodium(1+) assay

[Term]
id: OBI:2100322
name: ionized venous blood calcium assay
def: "An analyte assay that measures the abundance of calcium in venous blood as part of a ionized order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:2100323
name: venous blood hemoglobin assay
def: "An analyte assay that measures the abundance of hemoglobin in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100014 ! hemoglobin assay

[Term]
id: OBI:2100324
name: CBC with manual differential venous blood megakaryocyte count assay
def: "A cytometry assay that measures the count of megakaryocytes in venous blood as part of a CBC with manual differential order" []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100325
name: non-cardiac venous blood c-reactive protein assay
def: "An analyte assay that measures the abundance of c-reactive protein in venous blood as part of a non-cardiac order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100047 ! C-reactive protein assay

[Term]
id: OBI:2100326
name: intraoperative venous blood PTH assay
def: "An analyte assay that measures the abundance of PTH in venous blood as part of a intraoperative order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100034 ! prostate-specific antigen assay

[Term]
id: OBI:2100327
name: venous blood parathyroid hormone assay
def: "An analyte assay that measures the abundance of parathyroid hormone in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100328
name: total bodily fluid protein assay
def: "An analyte assay that measures the abundance of protein in bodily fluid as part of a total order" []
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100329
name: bodily fluid glucose assay
def: "An analyte assay that measures the abundance of glucose in bodily fluid" []
is_a: OBI:2100020 ! glucose assay

[Term]
id: OBI:2100330
name: count bodily fluid cell count assay
def: "A cytometry assay that measures the count of cells in bodily fluid as part of a count order" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:2100331
name: manual differential bodily fluid segmented neutrophil count assay
def: "A cytometry assay that measures the count of segmented neutrophils in bodily fluid as part of a manual differential order" []
is_a: OBI:0003022 ! neutrophil assay

[Term]
id: OBI:2100332
name: manual differential bodily fluid mesothelial cell count assay
def: "A cytometry assay that measures the count of mesothelial cells in bodily fluid as part of a manual differential order" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:2100333
name: manual differential bodily fluid monocyte count assay
def: "A cytometry assay that measures the count of monocytes in bodily fluid as part of a manual differential order" []
is_a: OBI:0003025 ! monocyte assay

[Term]
id: OBI:2100334
name: manual differential bodily fluid lymphocyte count assay
def: "A cytometry assay that measures the count of lymphocytes in bodily fluid as part of a manual differential order" []
is_a: OBI:0003024 ! lymphocyte assay

[Term]
id: OBI:2100335
name: manual differential bodily fluid macrophage count assay
def: "A cytometry assay that measures the count of macrophages in bodily fluid as part of a manual differential order" []
is_a: OBI:0003027 ! macrophage assay

[Term]
id: OBI:2100336
name: manual differential bodily fluid basophil count assay
def: "A cytometry assay that measures the count of basophils in bodily fluid as part of a manual differential order" []
is_a: OBI:0003021 ! basophil assay

[Term]
id: OBI:2100337
name: manual differential bodily fluid eosinophil count assay
def: "A cytometry assay that measures the count of eosinophils in bodily fluid as part of a manual differential order" []
is_a: OBI:0003023 ! eosinophil assay

[Term]
id: OBI:2100338
name: liver function venous blood bilirubin assay
def: "An analyte assay that measures the abundance of bilirubin in venous blood as part of a liver function order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100018 ! bilirubin IXalpha assay

[Term]
id: OBI:2100339
name: liver function venous blood alanine aminotransferase assay
def: "An analyte assay that measures the abundance of alanine aminotransferase in venous blood as part of a liver function order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100016 ! alanine aminotransferase assay

[Term]
id: OBI:2100340
name: liver function venous blood human aspartate aminotransferase assay
def: "An analyte assay that measures the abundance of human aspartate aminotransferase in venous blood as part of a liver function order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100019 ! aspartate aminotransferase (human) assay

[Term]
id: OBI:2100341
name: liver function venous blood albumin assay
def: "An analyte assay that measures the abundance of albumin in venous blood as part of a liver function order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100022 ! albumin assay

[Term]
id: OBI:2100342
name: liver function venous blood protein assay
def: "An analyte assay that measures the abundance of protein in venous blood as part of a liver function order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100343
name: liver function venous blood human alkaline phosphatase assay
def: "An analyte assay that measures the abundance of human alkaline phosphatase in venous blood as part of a liver function order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100017 ! alkaline phosphatase (human) assay

[Term]
id: OBI:2100344
name: vitamin B12 and Folate venous blood folic acid assay
def: "An analyte assay that measures the abundance of folic acid in venous blood as part of a vitamin B12 and Folate order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100037 ! folic acids assay

[Term]
id: OBI:2100345
name: bodily fluid cell count assay
def: "A cytometry assay that measures the count of cells in bodily fluid" []
is_a: OBI:0001977 ! cytometry assay

[Term]
id: OBI:2100346
name: venous blood reticulocyte count assay
def: "A cytometry assay that measures the count of reticulocytes in venous blood" []
is_a: OBI:0003026 ! reticulocyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100347
name: bodily fluid cholesterol assay
def: "An analyte assay that measures the abundance of cholesterol in bodily fluid" []
is_a: OBI:2100031 ! cholesterol assay

[Term]
id: OBI:2100348
name: TSH reflex Free T4 venous blood thyroid stimulating hormone assay
def: "An analyte assay that measures the abundance of thyroid stimulating hormone in venous blood as part of a TSH reflex Free T4 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100033 ! thyroid stimulating hormone assay

[Term]
id: OBI:2100349
name: direct venous blood bilirubin assay
def: "An analyte assay that measures the abundance of bilirubin in venous blood as part of a direct order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100018 ! bilirubin IXalpha assay

[Term]
id: OBI:2100350
name: free venous blood T3 assay
def: "An analyte assay that measures the abundance of T3 in venous blood as part of a free order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100046 ! 3,3',5'-triiodothyronine assay

[Term]
id: OBI:2100351
name: bodily fluid albumin assay
def: "An analyte assay that measures the abundance of albumin in bodily fluid" []
is_a: OBI:2100022 ! albumin assay

[Term]
id: OBI:2100352
name: bodily fluid triglyceride assay
def: "An analyte assay that measures the abundance of triglyceride in bodily fluid" []
is_a: OBI:2100029 ! triglyceride assay

[Term]
id: OBI:2100353
name: hemoglobin and hematocrit venous blood hematocrit assay
def: "A cytometry assay that measures the proportion of red blood cells in venous blood as part of a hemoglobin and hematocrit order" []
is_a: OBI:0003018 ! hematocrit assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100354
name: hemoglobin and hematocrit venous blood hemoglobin assay
def: "An analyte assay that measures the abundance of hemoglobin in venous blood as part of a hemoglobin and hematocrit order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100014 ! hemoglobin assay

[Term]
id: OBI:2100355
name: venous blood ionized calcium assay
def: "An analyte assay that measures the abundance of ionized calcium in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:2100356
name: venous blood temperature assay
def: "An assay that measures temperature in venous blood" []
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100357
name: venous blood bicarbonate assay
def: "An analyte assay that measures the abundance of bicarbonate in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100043 ! hydrogencarbonate assay

[Term]
id: OBI:2100358
name: venous blood oxygen assay
def: "An analyte assay that measures the abundance of oxygen in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100036 ! elemental oxygen assay

[Term]
id: OBI:2100359
name: venous blood osmolality assay
def: "An assay that measures osmolality in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100039 ! osmolality assay

[Term]
id: OBI:2100360
name: liver fibrosis (chronic viral hepatitis) venous blood platelet count assay
def: "A cytometry assay that measures the count of platelets in venous blood as part of a liver fibrosis (chronic viral hepatitis) order" []
is_a: OBI:0003028 ! platelet assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100361
name: venous blood T3 assay
def: "An analyte assay that measures the abundance of T3 in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100046 ! 3,3',5'-triiodothyronine assay

[Term]
id: OBI:2100362
name: CBC with manual differential venous blood neutrophil count assay
def: "A cytometry assay that measures the count of neutrophils in venous blood as part of a CBC with manual differential order" []
is_a: OBI:0003022 ! neutrophil assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100363
name: creatinine clearance urine creatinine assay
def: "An analyte assay that measures the abundance of creatinine in urine as part of a creatinine clearance order" []
is_a: OBI:0003043 ! urine assay
is_a: OBI:2100003 ! creatinine assay

[Term]
id: OBI:2100364
name: venous blood beta hydroxybutryic acid assay
def: "An analyte assay that measures the abundance of beta hydroxybutryic acid in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100051 ! 3-hydroxybutyric acid assay

[Term]
id: OBI:2100365
name: venous blood megakaryocyte count assay
def: "A cytometry assay that measures the count of megakaryocytes in venous blood" []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100366
name: venous blood nucleated RBC count assay
def: "A cytometry assay that measures the count of nucleated RBCs in venous blood" []
is_a: OBI:0003018 ! hematocrit assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100367
name: venous blood WBC count assay
def: "A cytometry assay that measures the count of WBCs in venous blood" []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100368
name: automated count venous blood reticulocyte count assay
def: "A cytometry assay that measures the count of reticulocytes in venous blood as part of a automated count order" []
is_a: OBI:0003026 ! reticulocyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100369
name: total venous blood homocysteine assay
def: "An analyte assay that measures the abundance of homocysteine in venous blood as part of a total order" []
is_a: OBI:0000443 ! analyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100370
name: venous blood Ceruloplasmin assay
def: "An analyte assay that measures the abundance of Ceruloplasmin in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100371
name: GEM4 arterial blood bicarbonate assay
def: "An analyte assay that measures the abundance of bicarbonate in arterial blood as part of a GEM4 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100043 ! hydrogencarbonate assay

[Term]
id: OBI:2100372
name: GEM4 arterial blood lactic acid assay
def: "An assay that measures lactic acid in arterial blood as part of a GEM4 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100042 ! rac-lactic acid assay

[Term]
id: OBI:2100373
name: GEM4 arterial blood hemoglobin assay
def: "An analyte assay that measures the abundance of hemoglobin in arterial blood as part of a GEM4 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100014 ! hemoglobin assay

[Term]
id: OBI:2100374
name: GEM4 arterial blood sodium assay
def: "An analyte assay that measures the abundance of sodium in arterial blood as part of a GEM4 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100002 ! sodium(1+) assay

[Term]
id: OBI:2100375
name: GEM4 arterial blood potassium assay
def: "An analyte assay that measures the abundance of potassium in arterial blood as part of a GEM4 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100004 ! potassium(1+) assay

[Term]
id: OBI:2100376
name: GEM4 arterial blood temperature assay
def: "An assay that measures temperature in arterial blood as part of a GEM4 order" []
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100377
name: GEM4 arterial blood glucose assay
def: "An analyte assay that measures the abundance of glucose in arterial blood as part of a GEM4 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100020 ! glucose assay

[Term]
id: OBI:2100378
name: GEM4 arterial blood oxygen assay
def: "An analyte assay that measures the abundance of oxygen in arterial blood as part of a GEM4 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100036 ! elemental oxygen assay

[Term]
id: OBI:2100379
name: GEM4 arterial blood hematocrit assay
def: "A cytometry assay that measures the proportion of red blood cells in arterial blood as part of a GEM4 order" []
is_a: OBI:0003018 ! hematocrit assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100380
name: GEM4 arterial blood ionized calcium assay
def: "An analyte assay that measures the abundance of ionized calcium in arterial blood as part of a GEM4 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100024 ! calcium cation assay

[Term]
id: OBI:2100381
name: GEM4 arterial blood carbon dioxide assay
def: "An analyte assay that measures the abundance of carbon dioxide in arterial blood as part of a GEM4 order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100001 ! carbon dioxide assay

[Term]
id: OBI:2100382
name: liver fibrosis (NAFLD) venous blood platelet count assay
def: "A cytometry assay that measures the count of platelets in venous blood as part of a liver fibrosis (NAFLD) order" []
is_a: OBI:0003028 ! platelet assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100383
name: venous blood beta hydroxybutric acid assay
def: "An analyte assay that measures the abundance of beta hydroxybutric acid in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100051 ! 3-hydroxybutyric acid assay

[Term]
id: OBI:2100384
name: CBC with manual differential venous blood plasma cell count assay
def: "A cytometry assay that measures the count of plasma cells in venous blood as part of a CBC with manual differential order" []
is_a: OBI:0003024 ! lymphocyte assay
is_a: OBI:0003040 ! blood assay

[Term]
id: OBI:2100385
name: venous blood erythropoietin assay
def: "An analyte assay that measures the abundance of erythropoietin in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100386
name: blood gas arterial blood oxygen assay
def: "An analyte assay that measures the abundance of oxygen in arterial blood as part of a blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100036 ! elemental oxygen assay

[Term]
id: OBI:2100387
name: blood gas arterial blood bicarbonate assay
def: "An analyte assay that measures the abundance of bicarbonate in arterial blood as part of a blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100043 ! hydrogencarbonate assay

[Term]
id: OBI:2100388
name: blood gas arterial blood carbon dioxide assay
def: "An analyte assay that measures the abundance of carbon dioxide in arterial blood as part of a blood gas order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100001 ! carbon dioxide assay

[Term]
id: OBI:2100389
name: free/total venous blood PSA assay
def: "An analyte assay that measures the abundance of PSA in venous blood as part of a free/total order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100034 ! prostate-specific antigen assay

[Term]
id: OBI:2100390
name: cerebrospinal fluid lymphocyte count assay
def: "A cytometry assay that measures the count of lymphocytes in cerebrospinal fluid" []
is_a: OBI:0003024 ! lymphocyte assay
is_a: OBI:0003232 ! cerebrospinal fluid assay

[Term]
id: OBI:2100391
name: cerebrospinal fluid segmented neutrophil count assay
def: "A cytometry assay that measures the count of segmented neutrophils in cerebrospinal fluid" []
is_a: OBI:0003022 ! neutrophil assay
is_a: OBI:0003232 ! cerebrospinal fluid assay

[Term]
id: OBI:2100392
name: cerebrospinal fluid mesothelial cell count assay
def: "A cytometry assay that measures the count of mesothelial cells in cerebrospinal fluid" []
is_a: OBI:0001977 ! cytometry assay
is_a: OBI:0003232 ! cerebrospinal fluid assay

[Term]
id: OBI:2100393
name: cerebrospinal fluid macrophage count assay
def: "A cytometry assay that measures the count of macrophages in cerebrospinal fluid" []
is_a: OBI:0003027 ! macrophage assay
is_a: OBI:0003232 ! cerebrospinal fluid assay

[Term]
id: OBI:2100394
name: cerebrospinal fluid basophil count assay
def: "A cytometry assay that measures the count of basophils in cerebrospinal fluid" []
is_a: OBI:0003021 ! basophil assay
is_a: OBI:0003232 ! cerebrospinal fluid assay

[Term]
id: OBI:2100395
name: cerebrospinal fluid monocyte count assay
def: "A cytometry assay that measures the count of monocytes in cerebrospinal fluid" []
is_a: OBI:0003025 ! monocyte assay
is_a: OBI:0003232 ! cerebrospinal fluid assay

[Term]
id: OBI:2100396
name: cerebrospinal fluid eosinophil count assay
def: "A cytometry assay that measures the count of eosinophils in cerebrospinal fluid" []
is_a: OBI:0003023 ! eosinophil assay
is_a: OBI:0003232 ! cerebrospinal fluid assay

[Term]
id: OBI:2100397
name: venous blood beta-2-microglobulin assay
def: "An analyte assay that measures the abundance of beta-2-microglobulin in venous blood" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100023 ! protein assay

[Term]
id: OBI:2100398
name: lipid panel reflex direct venous blood low density lipoprotein assay
def: "An analyte assay that measures the abundance of low density lipoprotein in venous blood as part of a Lipid panel reflex direct order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100032 ! low-density lipoprotein cholesterol assay

[Term]
id: OBI:2100399
name: lipid panel reflex direct venous blood triglyceride assay
def: "An analyte assay that measures the abundance of triglyceride in venous blood as part of a Lipid panel reflex direct order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100029 ! triglyceride assay

[Term]
id: OBI:2100400
name: lipid panel reflex direct venous blood cholesterol assay
def: "An analyte assay that measures the abundance of cholesterol in venous blood as part of a Lipid panel reflex direct order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100031 ! cholesterol assay

[Term]
id: OBI:2100401
name: lipid panel reflex direct venous blood high density lipoprotein assay
def: "An analyte assay that measures the abundance of high density lipoprotein in venous blood as part of a Lipid panel reflex direct order" []
is_a: OBI:0003040 ! blood assay
is_a: OBI:2100030 ! high-density lipoprotein cholesterol assay

[Term]
id: OBI:2100402
name: pooled clone sequencing assay
def: "A DNA sequencing assay in which the DNA input is derived from pooled clones (for example BACs and Fosmids) is sequenced." []
is_a: OBI:0000626 ! DNA sequencing assay

[Term]
id: OBI:9999994
name: chromium release assay
def: "An in vitro cell killing assay in which radioactive chromium is absorbed by cells and released into supernatant when the cells die. The amount of radioactivity measured in the supernatant is a proxy for the number of cells that have died." []
is_a: OBI:0000903 ! in vitro cell killing assay

[Term]
id: OGMS:0000015
name: clinical history
def: "A series of statements representing health-relevant qualities of a patient and of a patient's family." []
is_a: IAO:0000030 ! information content entity

[Term]
id: OGMS:0000031
name: disease
def: "A disposition (i) to undergo pathological processes that (ii) exists in an organism because of one or more disorders in that organism." []
is_a: BFO:0000016 ! disposition

[Term]
id: OGMS:0000063
name: disease course
def: "The totality of all processes through which a given disease instance is realized." []
is_a: GO:0008150 ! biological_process

[Term]
id: OGMS:0000073
name: diagnosis
def: "The representation of a conclusion of a diagnostic process." []
is_a: IAO:0000027 ! data item

[Term]
id: OGMS:0000090
name: treatment
def: "A planned process whose completion is hypothesized by a health care provider to eliminate, prevent, or alleviate a disorder, the signs and symptoms of a disorder, or a pathological process" []
is_a: COB:0000035 ! completely executed planned process

[Term]
id: OGMS:0000123
name: clinical data item
def: "A data item that is about a patient and is the specified output of a health care process assay or diagnostic process" []
is_a: IAO:0000027 ! data item

[Term]
id: OMIABIS:0000050
name: fixed tissue specimen
def: "A processed specimen that is the output of a fixation process." []
is_a: OBI:0000953 ! processed specimen

[Term]
id: OMIABIS:0000052
name: fixed tissue slide specimen
def: "A fixed tissue specimen that is placed in a slide." []
is_a: OMIABIS:0000050 ! fixed tissue specimen

[Term]
id: OMRSE:00000012
name: health care provider role
def: "A health care role inhering in an organization or human being that is realized by a process of providing health care services to an organism." []
is_a: BFO:0000023 ! role

[Term]
id: OMRSE:00000054
name: hospital role
def: "A healthcare provider role that inheres in an organization and is realized by providing inpatient care." []
is_a: BFO:0000023 ! role

[Term]
id: OMRSE:00000056
name: hospital organization
def: "An organization that is the bearer of a hospital role." []
is_a: OBI:0000245 ! organization

[Term]
id: OPL:0000232
name: parasite organism
def: "An organism living in, with, or on another organism in parasitism. Individual members of parasite species, such as Leishmania, Plasmodium, Trypanosoma, etc. are members of this class." []
is_a: COB:0000022 ! organism

[Term]
id: OPL:0000267
name: Plasmodium gametocyte
def: "A Plasmodium that is located either in the bloodstream of the vertebrate host or midgut of mosquito vector during gametocyte stage. Gametocytes are the precursor cells of the macro- or microgametes" []
is_a: NCBITaxon:5820 ! Plasmodium

[Term]
id: ObsoleteClass
name: Obsolete Class

[Term]
id: PATO:0000001
name: quality
def: "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities" []
is_a: COB:0000502 ! characteristic

[Term]
id: PATO:0000008
name: speed
def: "A physical quality inhering in a bearer by virtue of the bearer's scalar absolute value of the rate of change of the bearer's position." []
is_a: PATO:0001906 ! movement quality

[Term]
id: PATO:0000011
name: age
def: "A time quality inhering in a bearer by virtue of how long the bearer has existed." []
is_a: PATO:0000165 ! time

[Term]
id: PATO:0000014
name: color
def: "A composite chromatic quality composed of hue, saturation and intensity parts." []
is_a: PATO:0000051 ! morphology
is_a: PATO:0001300 ! optical quality

[Term]
id: PATO:0000018
name: fluorescence
def: "A luminous flux quality inhering in a bearer by virtue of the bearer's emitting longer wavelength light following the absorption of shorter wavelength radiation; fluorescence is common with aromatic compounds with several rings joined together." []
is_a: PATO:0001296 ! luminous flux

[Term]
id: PATO:0000025
name: composition
def: "A single physical entity inhering in an bearer by virtue of the bearer's quantities or relative ratios of subparts." []
is_a: PATO:0000141 ! structure

[Term]
id: PATO:0000033
name: concentration of
def: "A quality inhering in a substance by virtue of the amount of the bearer's there is mixed with another substance." []
is_a: PATO:0000070 ! amount

[Term]
id: PATO:0000040
name: distance
def: "A quality that is the extent of space between two entities." []
is_a: PATO:0001018 ! physical quality

[Term]
id: PATO:0000047
name: biological sex
def: "An organismal quality inhering in a bearer by virtue of the bearer's ability to undergo sexual reproduction in order to differentiate the individuals or types involved." []
is_a: PATO:0001995 ! organismal quality

[Term]
id: PATO:0000051
name: morphology
def: "A quality of a single physical entity inhering in the bearer by virtue of the bearer's size or shape or structure." []
is_a: PATO:0001241 ! physical object quality

[Term]
id: PATO:0000070
name: amount
def: "The number of entities of this type that are part of the whole organism." []
is_a: PATO:0103000 ! quantitative

[Term]
id: PATO:0000117
name: size
def: "A morphology quality inhering in a bearer by virtue of the bearer's physical magnitude." []
is_a: PATO:0000051 ! morphology

[Term]
id: PATO:0000122
name: length
def: "A 1-D extent quality which is equal to the distance between two points." []
is_a: PATO:0001708 ! 1-D extent

[Term]
id: PATO:0000125
name: mass
def: "A physical quality that inheres in a bearer by virtue of the proportion of the bearer's amount of matter." []
is_a: PATO:0001018 ! physical quality

[Term]
id: PATO:0000140
name: position
def: "A spatial quality inhering in a bearer by virtue of the bearer's spatial location relative to other objects in the vicinity." []
is_a: PATO:0001018 ! physical quality

[Term]
id: PATO:0000141
name: structure
def: "A morphology quality inhering in a bearer by virtue of the bearer's relative position, shape, arrangements and connectivity of an organism's various parts; the pattern underlying its form." []
is_a: PATO:0000051 ! morphology

[Term]
id: PATO:0000146
name: temperature
def: "A physical quality of the thermal energy of a system." []
is_a: PATO:0001018 ! physical quality

[Term]
id: PATO:0000165
name: time
def: "A quality in which events occur in sequence." []
is_a: PATO:0001018 ! physical quality

[Term]
id: PATO:0000169
name: viability
def: "An organismal quality inhering in a bearer or a population by virtue of the bearer's disposition to survive and develop normally or the number of surviving individuals in a given population." []
is_a: PATO:0001995 ! organismal quality

[Term]
id: PATO:0000186
name: behavioral quality
def: "An organismal quality inhering in a bearer by virtue of the bearer's behavior aggregate of the responses or reactions or movements in a given situation." []
is_a: PATO:0001995 ! organismal quality

[Term]
id: PATO:0000383
name: female
def: "A biological sex quality inhering in an individual or a population that only produces gametes that can be fertilised by male gametes." []
is_a: PATO:0001894 ! phenotypic sex

[Term]
id: PATO:0000384
name: male
def: "A biological sex quality inhering in an individual or a population whose sex organs contain only male gametes." []
is_a: PATO:0001894 ! phenotypic sex

[Term]
id: PATO:0000918
name: volume
def: "A 3-D extent quality inhering in a bearer by virtue of the bearer's amount of 3-dimensional space it occupies." []
is_a: PATO:0001710 ! 3-D extent

[Term]
id: PATO:0000957
name: opacity
def: "An optical quality which obtains by virtue of the ability of the bearer to absorb visible light." []
is_a: PATO:0001300 ! optical quality

[Term]
id: PATO:0001018
name: physical quality
def: "A quality of a physical entity that exists through action of continuants at the physical level of organisation in relation to other entities." []
is_a: PATO:0001241 ! physical object quality

[Term]
id: PATO:0001019
name: mass density
def: "A physical quality which inheres in a bearer by virtue of some influence is exerted by the bearer's mass per unit size." []
is_a: PATO:0001018 ! physical quality

[Term]
id: PATO:0001020
name: damage
def: "A structural quality inhering in a bearer by virtue of whether the bearer has been harmed or injured or spoiled." []
is_a: PATO:0000141 ! structure

[Term]
id: PATO:0001025
name: pressure
def: "A physical quality that inheres in a bearer by virtue of the bearer's amount of force per unit area it exerts." []
is_a: PATO:0001018 ! physical quality

[Term]
id: PATO:0001161
name: diluted
def: "A concentration which relatively low." []
is_a: PATO:0000033 ! concentration of

[Term]
id: PATO:0001167
name: damaged
def: "A structural quality inhering in a bearer by virtue of the bearer being harmed or injured or spoiled, such that its functionality is impaired." []
is_a: PATO:0001020 ! damage

[Term]
id: PATO:0001193
name: lateral to
def: "A spatial quality inhering in a bearer by virtue of the bearer's being located toward the side relative to another entity." []
is_a: PATO:0000140 ! position

[Term]
id: PATO:0001196
name: ventral to
def: "A spatial quality inhering in a bearer by virtue of the bearer's being located toward the abdomen of an organism relative to another entity." []
is_a: PATO:0000140 ! position

[Term]
id: PATO:0001233
name: dorsal to
def: "A spatial quality inhering in a bearer by virtue of the bearer's being located toward the back or upper surface of an organism relative to another entity." []
is_a: PATO:0000140 ! position

[Term]
id: PATO:0001241
name: physical object quality
def: "A quality which inheres in a continuant." []
is_a: PATO:0000001 ! quality

[Term]
id: PATO:0001292
name: full-spectrum EM radiation quality
def: "An EM radiation quality that is independent of the EM wavelength range." []
is_a: PATO:0070060 ! quality of interaction of a substance with electromagnetic radiation

[Term]
id: PATO:0001293
name: absorption quality
def: "A scalar EM radiation quality which obtains by the capacity of the bearer to retain radiation." []
is_a: PATO:0001292 ! full-spectrum EM radiation quality

[Term]
id: PATO:0001296
name: luminous flux
def: "A scalar optical quality which obtains by the magnitude of the light emitted by the bearer." []
is_a: PATO:0001300 ! optical quality

[Term]
id: PATO:0001300
name: optical quality
def: "An EM radiation quality in which the EM radiation is within the fiat range of the spectrum visible deemed to be light." []
is_a: PATO:0070060 ! quality of interaction of a substance with electromagnetic radiation

[Term]
id: PATO:0001335
name: bacterial mating type
def: "A mating type that indicates whether the F plasmid has integrated into the chromosome." []
is_a: PATO:0001895 ! mating type

[Term]
id: PATO:0001337
name: yeast mating type
def: "A yeast mating type." []
is_a: PATO:0001895 ! mating type

[Term]
id: PATO:0001338
name: mixed sex
def: "A biological sex quality inhering in a population of multiple sexes." []
is_a: PATO:0002003 ! population quality

[Term]
id: PATO:0001339
name: biomaterial purity
def: "A composition quality inhering in an bearer by virtue of the bearer's homogeneity of a biomaterial." []
is_a: PATO:0000025 ! composition

[Term]
id: PATO:0001340
name: hermaphrodite
def: "A biological sex quality inhering in an organism or a population with both male and female sexual organs in one individual." []
is_a: PATO:0001894 ! phenotypic sex

[Term]
id: PATO:0001341
name: a mating type (yeast)
def: "A S. cerevisiae mating type cells that secrete a pheromone that in alpha haploids stimulates processes that lead to mating." []
is_a: PATO:0001342 ! Saccharomyces cerevisiae mating type

[Term]
id: PATO:0001342
name: Saccharomyces cerevisiae mating type
def: "A S. cerevisiae mating type." []
is_a: PATO:0001337 ! yeast mating type

[Term]
id: PATO:0001343
name: Schizosaccharomyces pombe mating type
def: "A S. pombe mating type determined by the gene configuration on the mat1 locus." []
is_a: PATO:0001337 ! yeast mating type

[Term]
id: PATO:0001344
name: alpha mating type (yeast)
def: "A S. cerevisiae mating type cells that secrete a pheromone that stimulates a haploids." []
is_a: PATO:0001342 ! Saccharomyces cerevisiae mating type

[Term]
id: PATO:0001345
name: h minus
def: "A S. pombe mating type determined by the mat1-Mc and mat1-Mi on the mat1 locus." []
is_a: PATO:0001343 ! Schizosaccharomyces pombe mating type

[Term]
id: PATO:0001346
name: h plus
def: "A S. pombe mating type determined by the mat1-Pc and mat1-Pi on the mat1 locus." []
is_a: PATO:0001343 ! Schizosaccharomyces pombe mating type

[Term]
id: PATO:0001347
name: F mating type
def: "A bacterial mating type indicating the presence of F plasmid in a bacterial cell." []
is_a: PATO:0001335 ! bacterial mating type

[Term]
id: PATO:0001348
name: F minus mating type
def: "A bacterial mating type indicating the absence of F plasmid in a bacterial cell." []
is_a: PATO:0001335 ! bacterial mating type

[Term]
id: PATO:0001374
name: ploidy
def: "A cellular quality inhering in a bearer by virtue of the bearer's number of homologous sets of chromosomes in the nucleus or primary chromosome-containing compartment of the cell, each set essentially coding for all the biological traits of the organism." []
is_a: PATO:0001396 ! cellular quality

[Term]
id: PATO:0001375
name: haploid
def: "A ploidy quality inhering in a bearer by virtue of the bearer's containing a single set of homologous chromosomes." []
is_a: PATO:0001393 ! euploid

[Term]
id: PATO:0001377
name: polyploid
def: "A ploidy quality inhering in a bearer by virtue of the bearer's containing more than two homologous sets of chromosomes." []
is_a: PATO:0001393 ! euploid

[Term]
id: PATO:0001385
name: aneuploid
def: "A ploidy quality inhering in a bearer by virtue of the bearer's containing a non-integral multiple of the monoploid number, due to extra or missing chromosomes." []
is_a: PATO:0001374 ! ploidy

[Term]
id: PATO:0001393
name: euploid
def: "A ploidy quality inhering in a bearer by virtue of the bearer's containing an integral multiple of the monoploid number, possibly excluding the sex-determining chromosomes." []
is_a: PATO:0001374 ! ploidy

[Term]
id: PATO:0001394
name: diploid
def: "A ploidy quality inhering in a bearer by virtue of the bearer's having two copies (homologs) of each chromosome, usually one from the mother and one from the father." []
is_a: PATO:0001393 ! euploid

[Term]
id: PATO:0001396
name: cellular quality
def: "A monadic quality of continuant that exists at the cellular level of organisation." []
is_a: PATO:0070044 ! anatomical structure quality

[Term]
id: PATO:0001421
name: alive
def: "A viability quality inhering in a bearer by virtue of the bearer's condition before death." []
is_a: PATO:0000169 ! viability

[Term]
id: PATO:0001422
name: dead
def: "A viability quality inhering in a bearer by virtue of the cessation of the bearer's life." []
is_a: PATO:0000169 ! viability

[Term]
id: PATO:0001546
name: quality of a solid
def: "A physical quality inhering in a bearer by virtue of the bearer's exhibiting the physical characteristics of an entity characterized by particles arranged such that their shape and volume are relatively stable." []
is_a: PATO:0002198 ! quality of a substance

[Term]
id: PATO:0001547
name: quality of a gas
def: "A physical quality inhering in a bearer by virtue of the bearer's exhibiting the physical characteristics of an entity consisting of particles that have neither a defined volume nor defined shape." []
is_a: PATO:0002198 ! quality of a substance

[Term]
id: PATO:0001548
name: quality of a liquid
def: "A physical quality inhering in an entity exhibiting the physical characteristics of an amorphous (non-crystalline) form of matter between a gas and a solid that has a definite volume, but no definite shape." []
is_a: PATO:0002198 ! quality of a substance

[Term]
id: PATO:0001574
name: flow rate
def: "A physical quality inhering in a bearer by virtue of the bearer's motion characteristic." []
is_a: PATO:0001906 ! movement quality

[Term]
id: PATO:0001585
name: conductivity
def: "A physical quality inhering in a bearer by virtue of the bearer's disposition to transmit of an entity through a medium." []
is_a: PATO:0001018 ! physical quality

[Term]
id: PATO:0001632
name: anterior to
def: "A spatial quality inhering in a bearer by virtue of the bearer's being located toward the front of an organism relative to another entity." []
synonym: "frontal" EXACT []
is_a: PATO:0000140 ! position

[Term]
id: PATO:0001708
name: 1-D extent
def: "A size quality inhering in an bearer by virtue of the bearer's extension in one dimension." []
is_a: PATO:0000117 ! size

[Term]
id: PATO:0001710
name: 3-D extent
def: "A size quality inhering in an bearer by virtue of the bearer's extension in three dimensions." []
is_a: PATO:0000117 ! size

[Term]
id: PATO:0001740
name: activity (of a radionuclide)
def: "A radiation quality inhering in a radioactive substance by virtue of its transformation (disintegration) rate." []
is_a: PATO:0002198 ! quality of a substance

[Term]
id: PATO:0001741
name: radioactive
def: "A radiation quality inhering in bearer by virtue of the bearer's exhibiting or being caused by radioactivity." []
is_a: PATO:0001740 ! activity (of a radionuclide)

[Term]
id: PATO:0001757
name: electrical conductivity
def: "A conductivity quality inhering in a bearer by virtue of the bearer's ability to convey electricity." []
is_a: PATO:0001585 ! conductivity

[Term]
id: PATO:0001792
name: left side of
def: "A spatial quality inhering in a bearer by virtue of the bearer's being located on left side of from the a another entity." []
is_a: PATO:0000140 ! position

[Term]
id: PATO:0001793
name: right side of
def: "A spatial quality inhering in a bearer by virtue of the bearer's being located on right side of a another entity." []
is_a: PATO:0000140 ! position

[Term]
id: PATO:0001842
name: acidity
def: "A concentration quality inhering in a bearer by virtue of the bearer's containing acid (hydrogen ions)." []
is_a: PATO:0000033 ! concentration of

[Term]
id: PATO:0001894
name: phenotypic sex
def: "An organismal quality inhering in a bearer by virtue of the bearer's physical expression of sexual characteristics." []
is_a: PATO:0000047 ! biological sex

[Term]
id: PATO:0001895
name: mating type
def: "A biological sex quality inhering in an individual or a population that undergo sexual reproduction." []
is_a: PATO:0000047 ! biological sex

[Term]
id: PATO:0001906
name: movement quality
def: "A physical quality inhering in a bearer by virtue of the bearer's participation in movement." []
is_a: PATO:0001018 ! physical quality

[Term]
id: PATO:0001985
name: frozen
def: "A quality inhering in a bearer by virtue of the bearer's being kept below its freezing point." []
is_a: PATO:0000146 ! temperature

[Term]
id: PATO:0001995
name: organismal quality
def: "A quality that inheres in an entire organism or part of an organism." []
is_a: PATO:0001241 ! physical object quality

[Term]
id: PATO:0002003
name: population quality
def: "A quality that inheres in an entire population or part of a population." []
is_a: PATO:0001241 ! physical object quality

[Term]
id: PATO:0002027
name: osmolality
def: "A concentration quality inhering in a bearer by virtue of the bearer's amount of osmoles of solute per kilogram of solvent." []
is_a: PATO:0000033 ! concentration of

[Term]
id: PATO:0002193
name: electric charge
def: "A molecular quality that inheres in a molecular entity by virtue of the overall electric charge of the molecule, which is due to a comparison between the total number of electrons and the total number of protons." []
is_a: COB:0000502 ! characteristic

[Term]
id: PATO:0002198
name: quality of a substance
def: "A quality inhering in a bearer by virtue of its constitution." []
is_a: PATO:0001018 ! physical quality

[Term]
id: PATO:0002201
name: handedness
def: "A behavioral quality inhering ina bearer by virtue of the bearer's unequal distribution of fine motor skill between its left and right hands or feet." []
is_a: PATO:0000186 ! behavioral quality

[Term]
id: PATO:0002202
name: left handedness
def: "Handedness where the organism preferentially uses the left hand or foot for tasks requiring the use of a single hand or foot or a dominant hand or foot." []
is_a: PATO:0002201 ! handedness

[Term]
id: PATO:0002203
name: right handedness
def: "Handedness where the organism preferentially uses the right hand or foot for tasks requiring the use of a single hand or foot or a dominant hand or foot." []
is_a: PATO:0002201 ! handedness

[Term]
id: PATO:0002204
name: ambidextrous handedness
def: "Handedness where the organism exhibits no overall dominance in the use of right or left hand or foot in the performance of tasks that require one hand or foot or a dominant hand or foot." []
is_a: PATO:0002201 ! handedness

[Term]
id: PATO:0002242
name: velocity
def: "A physical quality inhering in a bearer by virtue of the bearer's rate of change of the position." []
is_a: PATO:0001906 ! movement quality

[Term]
id: PATO:0002243
name: fluid flow rate
def: "A physical quality inhering in a fluid (liquid or gas) by virtue of the amount of fluid which passes through a given surface per unit time." []
is_a: PATO:0001574 ! flow rate

[Term]
id: PATO:0070044
name: anatomical structure quality
def: "A quality of continuant that exist at the anatomical level of organisation and anything under it. This includes, but is not limited to, cells , tissues, and components." []
is_a: PATO:0001241 ! physical object quality

[Term]
id: PATO:0070060
name: quality of interaction of a substance with electromagnetic radiation
def: "A quality of a substance on which or through which electromagnetic radiation impinges or traverses with respect to radiation. This substance quality changes the quality of the incident radiation with respect to any of: intensity, direction, scatter and wavelength." []
is_a: PATO:0002198 ! quality of a substance

[Term]
id: PATO:0103000
name: quantitative
def: "A quality of an entity that can be represented numerically, including anything that can be counted, measured, or given a numerical value." []
is_a: PATO:0000001 ! quality

[Term]
id: PCO:0000000
name: collection of organisms
def: "A material entity that consists of two or more organisms, viruses, or viroids." []
is_a: BFO:0000040 ! material entity

[Term]
id: PO:0025131
name: plant anatomical entity
def: "An anatomical entity that is or was part of a plant." []
is_a: UBERON:0000465 ! material anatomical entity

[Term]
id: PR:000000001
name: protein
is_a: CHEBI:16670 ! peptide
is_a: PR:000018263 ! amino acid chain

[Term]
id: PR:000001004
name: CD4 molecule
def: "A protein that is a translation product of the human CD4 gene or a 1:1 ortholog thereof. CD4 is an accessory protein for MHC class-II antigen/T-cell receptor interaction. It is the primary receptor for HIV-1. CD4 has four immunoglobulin-like domains in its extracellular region that share the same structure, but can differ in sequence." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000001018
name: CD3 subunit with immunoglobulin domain
def: "A protein that has a core domain composition consisting of an extracellular N-terminal domain that adopts an immunoglobulin fold, a transmembrane domain, and an intracellular C-terminal domain with a single copy of the Immunoreceptor tyrosine-based activation motif (Pfam:PF02189) (ITAM). It constitutes the invariant subunit of the T cell antigen receptor (TCR). TCR is a surface receptor on T cells responsible for recognizing MHC-restricted antigens and initiating the cellular immune response." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000003015
name: prostate-specific antigen
def: "A trypsin that is a translation product of the human KLK3 gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000003252
name: antithrombin-III
def: "A serpin that is a translation product of the human SERPINC1 gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000003707
name: adenosine deaminase
def: "A protein that is a translation product of the human ADA gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000003745
name: double-stranded RNA-specific adenosine deaminase
def: "A protein that is a translation product of the human ADAR gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000003777
name: adiponectin
def: "A protein that is a translation product of the human ADIPOQ gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000003918
name: albumin
def: "A protein that is a translation product of the human ALB gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000004580
name: beta-2-microglobulin
def: "A protein that is a translation product of the human B2M gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000005794
name: ceruloplasmin
def: "A protein that is a translation product of the human CP gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000005897
name: C-reactive protein
def: "A protein that is a translation product of the human CRP gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000006592
name: deoxyribonuclease-1
def: "A protein that is a translation product of the human DNASE1 gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000007141
name: erythropoietin
def: "A protein that is a translation product of the human EPO gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000007928
name: glial cell line-derived neurotrophic factor
def: "A protein that is a translation product of the human GDNF gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000008457
name: beta-globin
def: "A hemoglobin subunit that is a translation product of the human HBB gene, a 1:1 ortholog thereof, or pro-orthologs thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000008725
name: haptoglobin
def: "A protein that is a translation product of the human HP gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000009758
name: leptin
def: "A protein that is a translation product of the human LEP gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000013429
name: parathyroid hormone
def: "A protein that is a translation product of the human PTH gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000014060
name: ribonuclease T2
def: "A protein that is a translation product of the human RNASET2 gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000016261
name: serotransferrin
def: "A protein that is a translation product of the human TF gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000016801
name: transthyretin
def: "A protein that is a translation product of the human TTR gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000018263
name: amino acid chain
def: "An organic amino compound that consists of amino acid residues (unmodified amino-acid residues and/or modified amino-acid residues) linked by peptide bonds or derivatives of such bonds." []
is_a: COB:0000013 ! molecule

[Term]
id: PR:000023089
name: DNA ligase
def: "A protein that is a translation product of the Escherichia coli K-12 ligA gene or a 1:1 ortholog thereof." []
synonym: "ligase" EXACT []
is_a: OBI:0000427 ! enzyme
is_a: PR:000000001 ! protein

[Term]
id: PR:000025402
name: T cell receptor co-receptor CD8
def: "A protein-containing complex that is a membrane-bound heterodimeric co-receptor for MHC class-I antigen/T-cell receptor interaction." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000025467
name: guanyl-specific ribonuclease T1
def: "A protein that is a translation product of the Aspergillus oryzae RIB40 rntA gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000025471
name: nuclease S1
def: "A protein that is a translation product of the Aspergillus oryzae RIB40 nucS gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000025475
name: ribonuclease U2
def: "A protein that is a translation product of the Ustilago sphaerogena RNU2 gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000025477
name: ribonuclease V1 (cobra)
def: "A protein with ribonuclease activity that is a constituent of cobra venom." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000025478
name: ribonuclease CL3 (chicken)
def: "A protein with ribonuclease activity that is purified from chicken liver." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000027247
name: cytosolic creatine kinase complex, MB-type
def: "A cytosolic creatine kinase complex that is a heterodimer of a B-type subunit and an M-type subunit." []
is_a: GO:0032991 ! protein-containing complex

[Term]
id: PR:000029971
name: creatine kinase
def: "A protein that contains a single ATP:guanido phosphotransferase N-terminal domain (Pfam:PF02807) followed by a single ATP:guanido phosphotransferase C-terminal catalytic domain (Pfam:PF00217)." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000029983
name: protein-glutamine gamma-glutamyltransferase
is_a: PR:000000001 ! protein

[Term]
id: PR:000034459
name: luciferase-like monooxygenase
def: "A protein that is a translation product of the Escherichia coli K-12 yhbW gene or a 1:1 ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000036195
name: bacterial protein
def: "A protein that is encoded in the genome of some Bacteria <prokaryote>." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000036824
name: NS1
def: "A dengue virus genome polyprotein proteolytic cleavage product that is the N-terminal most non-structural protein within the dengue virus genome polyprotein. Example: UniProtKB:P29990, 776-1127, Asn-905/Asn-982, MOD:00160." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000050219
name: alanine aminotransferase
def: "A protein that is a translation product of the human GPT or GPT2 genes, 1:1 orthologs thereof, or a semi-ortholog thereof." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000050331
name: lactate dehydrogenase complex
def: "A protein-containing complex that is composed of four subunits of L-lactate dehydrogenase, cytoplasmic." []
is_a: GO:0032991 ! protein-containing complex

[Term]
id: PR:000050343
name: alkaline phosphatase (human)
def: "A protein that is a translation product of any of the following alkaline phosphatase genes in human: ALPG (encoding the germinal form; GCAP), ALPP (encoding the placental form; PLAP), ALPI (encoding the intestinal form; IAP), and ALPL (encoding the tissue non-specific form; TNAP)." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000050353
name: aspartate aminotransferase (human)
def: "A protein that is a translation product of any of the following genes in human: GOT1/GOT2." []
is_a: PR:000000001 ! protein

[Term]
id: PR:000050469
name: hemoglobin A1c
def: "A hemoglobin complex that is composed of at least one beta-N-1-deoxy fructosyl hemoglobin subunit, in which the glycan is attached to the N-terminal valine (after initiator methionine removal) of one or both beta subunits." []
is_a: GO:0032991 ! protein-containing complex

[Term]
id: PR:000085778
name: modified histone
def: "A histone that contains one or more amino acid modifications." []
is_a: PR:000000001 ! protein

[Term]
id: REO:0000171
name: obsolete molecular label role
def: "A reagent role inhering in a molecular entity intended to associate with some molecular target to serve as a proxy for the presence, abundance, or location of this target in a detection of molecular label assay." []
synonym: "molecular tracer role" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: REO:0000280
name: obsolete molecular label
def: "A molecular reagent intended to associate with some molecular target to serve as a proxy for the presence, abundance, or location of this target in a detection of molecular label assay" []
synonym: "molecular tracer" EXACT []
is_a: ObsoleteClass ! Obsolete Class
is_obsolete: true

[Term]
id: SO:0000001
name: region
def: "A sequence_feature with an extent greater than zero. A nucleotide region is composed of bases and a polypeptide region is composed of amino acids." []
synonym: "primary structure of sequence macromolecule" EXACT []
synonym: "sequence" EXACT []
is_a: BFO:0000040 ! material entity

[Term]
id: SO:0000104
name: polypeptide
def: "A sequence of amino acids linked by peptide bonds which may lack appreciable tertiary structure and may not be liable to irreversible denaturation." []
synonym: "polypeptide sequence" EXACT []
is_a: SO:0000001 ! region

[Term]
id: SO:0000148
name: supercontig
def: "One or more contigs that have been ordered and oriented using end-read information. Contains gaps that are filled with N's." []
is_a: SO:0000353 ! sequence_assembly

[Term]
id: SO:0000149
name: contig
def: "A contiguous sequence derived from sequence assembly. Has no gaps, but may contain N's from unavailable bases." []
is_a: SO:0000353 ! sequence_assembly

[Term]
id: SO:0000235
name: TF_binding_site
def: "A DNA site where a transcription factor binds." []
is_a: SO:0005836 ! regulatory_region

[Term]
id: SO:0000276
name: miRNA
def: "Small, ~22-nt, RNA molecule that is the endogenous transcript of a miRNA gene (or the product of other non coding RNA genes). Micro RNAs are produced from precursor molecules (SO:0001244) that can form local hairpin structures, which ordinarily are processed (usually via the Dicer pathway) such that a single miRNA molecule accumulates from one arm of a hairpin precursor molecule. Micro RNAs may trigger the cleavage of their target molecules or act as translational repressors." []
is_a: SO:0000001 ! region

[Term]
id: SO:0000353
name: sequence_assembly
def: "A sequence of nucleotides that has been algorithmically derived from an alignment of two or more different sequences." []
is_a: SO:0001248 ! assembly

[Term]
id: SO:0000988
name: circular
def: "A quality of a nucleotide polymer that has no terminal nucleotide residues." []
is_a: PATO:0001241 ! physical object quality

[Term]
id: SO:0001248
name: assembly
def: "A region of the genome of known length that is composed by ordering and aligning two or more different regions." []
is_a: SO:0001410 ! experimental_feature

[Term]
id: SO:0001410
name: experimental_feature
def: "A region which is the result of some arbitrary experimental procedure. The procedure may be carried out with biological material or inside a computer." []
is_a: SO:0000001 ! region

[Term]
id: SO:0005836
name: regulatory_region
def: "A region of sequence that is involved in the control of a biological process." []
is_a: SO:0000001 ! region

[Term]
id: UBERON:0000002
name: uterine cervix
def: "Lower, narrow portion of the uterus where it joins with the top end of the vagina." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0000007
name: pituitary gland
def: "The pituitary gland is an endocrine gland that secretes hormones that regulate many other glands [GO]. An endocrine gland located ventral to the diencephalon and derived from mixed neuroectodermal and non neuroectodermal origin [ZFIN]." []
is_a: UBERON:0002530 ! gland

[Term]
id: UBERON:0000010
name: peripheral nervous system
def: "A major division of the nervous system that contains nerves which connect the central nervous system (CNS) with sensory organs, other organs, muscles, blood vessels and glands." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0000029
name: lymph node
def: "Any of the rounded masses of lymphoid tissue that are surrounded by a capsule of connective tissue, are distributed along the lymphatic vessels, and contain numerous lymphocytes which filter the flow of lymph." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0000057
name: urethra
def: "The fibromuscular tubular canal through which urine is discharged from the bladder to the exterior via the external urinary meatus; in males, the urethra is joined by the ejaculatory ducts and serves as a passageway for semen during ejaculation, as well as a canal for urine during voiding; in females, the urethra is shorter and emerges above the vaginal opening." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0000061
name: anatomical structure
def: "Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome." []
is_a: UBERON:0000465 ! material anatomical entity

[Term]
id: UBERON:0000062
name: organ
def: "Anatomical structure that performs a specific function or group of functions [WP]." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0000105
name: life cycle stage
def: "A spatiotemporal region encompassing some part of the life cycle of an organism." []
is_a: GO:0008150 ! biological_process

[Term]
id: UBERON:0000162
name: cloaca
def: "Common chamber into which the intestines and excretory system opens. Arises during development in all vertebrates, but in many it becomes subdivided, lost or incorporated into other structures." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0000165
name: mouth
def: "The proximal portion of the digestive tract, containing the oral cavity and bounded by the oral opening. In vertebrates, this extends to the pharynx and includes gums, lips, tongue and parts of the palate. Typically also includes the teeth, except where these occur elsewhere (e.g. pharyngeal jaws) or protrude from the mouth (tusks)." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0000173
name: amniotic fluid
def: "Amniotic fluid is a bodily fluid consisting of watery liquid surrounding and cushioning a growing fetus within the amnion. It allows the fetus to move freely without the walls of the uterus being too tight against its body. Buoyancy is also provided. The composition of the fluid changes over the course of gestation. Initially, amniotic fluid is similar to maternal plasma, mainly water with electrolytes. As the fetus develops, proteins, carbohydrates, lipids, phospholipids originating from the lungs, fetal cells, and urea are deposited in the fluid." []
is_a: UBERON:0000463 ! organism substance

[Term]
id: UBERON:0000178
name: blood
def: "A fluid that is composed of blood plasma and erythrocytes." []
is_a: UBERON:0006314 ! bodily fluid

[Term]
id: UBERON:0000305
name: amnion
def: "The thin innermost layer of the extraembryonic membranes that contains the amniotic fluid; the membrane forms a closed sac in which the embryo and later, the fetus, is suspended and protected." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0000310
name: breast
def: "The upper ventral region of the torso of an organism." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0000316
name: cervical mucus
def: "A substance produced by the cervix and endocervical glands[BTO]. Thick acidic mucus that blocks the cervical os after mestruation[WP]. This 'infertile' mucus blocks spermatozoa from entering the uterus." []
is_a: UBERON:0006314 ! bodily fluid

[Term]
id: UBERON:0000323
name: late embryo
def: "An embryo that is at the late embryonic stage; this stage covers late steps of the embryogenesis with a fully formed embryo still developing before birth or egg hatching." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0000341
name: throat
def: "In anatomy, the throat is the anterior part of the neck, in front of the vertebral column. It consists of the pharynx and larynx. An important feature of the throat is the epiglottis, a flap which separates the esophagus from the trachea and prevents inhalation of food or drink. The throat contains various blood vessels, various pharyngeal muscles, the trachea (windpipe) and the esophagus. The hyoid bone and the clavicle are the only bones located in the throat of mammals. It is sometimes considered a synonym for fauces. [WP,unvetted]." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0000362
name: renal medulla
def: "The inner portion of the kidney consisting of the renal pyramids." []
is_a: UBERON:0000481 ! multi-tissue structure

[Term]
id: UBERON:0000463
name: organism substance
def: "Material anatomical entity in a gaseous, liquid, semisolid or solid state; produced by anatomical structures or derived from inhaled and ingested substances that have been modified by anatomical structures as they pass through the body." []
is_a: UBERON:0000465 ! material anatomical entity

[Term]
id: UBERON:0000465
name: material anatomical entity
def: "Anatomical entity that has mass." []
is_a: BFO:0000040 ! material entity
is_a: UBERON:0001062 ! anatomical entity

[Term]
id: UBERON:0000466
name: immaterial anatomical entity
def: "Anatomical entity that has no mass." []
is_a: BFO:0000141 ! immaterial entity
is_a: UBERON:0001062 ! anatomical entity

[Term]
id: UBERON:0000467
name: anatomical system
def: "Multicellular, connected anatomical structure that has multiple organs as parts and whose parts work together to achieve some shared function." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0000473
name: testis
def: "A gonad of a male animal. A gonad produces and releases sperm." []
is_a: UBERON:0000062 ! organ
disjoint_from: UBERON:0000992 ! ovary

[Term]
id: UBERON:0000477
name: anatomical cluster
def: "Anatomical group whose component anatomical structures lie in close proximity to each other." []
is_a: UBERON:0000465 ! material anatomical entity

[Term]
id: UBERON:0000479
name: tissue
def: "Multicellular anatomical structure that consists of many cells of one or a few types, arranged in an extracellular matrix such that their long-range organisation is at least partly a repetition of their short-range organisation." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0000481
name: multi-tissue structure
def: "Anatomical structure that has as its parts two or more portions of tissue of at least two different types and which through specific morphogenetic processes forms a single distinct structural unit demarcated by bona-fide boundaries from other distinct structural units of different types." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0000483
name: epithelium
def: "Portion of tissue, that consists of one or more layers of epithelial cells connected to each other by cell junctions and which is underlain by a basal lamina. Examples: simple squamous epithelium, glandular cuboidal epithelium, transitional epithelium, myoepithelium[CARO]." []
is_a: UBERON:0000479 ! tissue

[Term]
id: UBERON:0000945
name: stomach
def: "An expanded region of the vertebrate alimentary tract that serves as a food storage compartment and digestive organ. A stomach is lined, in whole or in part by a glandular epithelium." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0000947
name: aorta
def: "The main trunk of the systemic arterial system that carries blood from the heart to all the organs and other structures of the body, bringing oxygenated blood to all parts of the body in the systemic circulation." []
is_a: UBERON:0001981 ! blood vessel

[Term]
id: UBERON:0000948
name: heart
def: "A myogenic muscular circulatory organ found in the vertebrate cardiovascular system composed of chambers of cardiac muscle. It is the primary circulatory organ." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0000955
name: brain
def: "The brain is the center of the nervous system in all vertebrate, and most invertebrate, animals. Some primitive animals such as jellyfish and starfish have a decentralized nervous system without a brain, while sponges lack any nervous system at all. In vertebrates, the brain is located in the head, protected by the skull and close to the primary sensory apparatus of vision, hearing, balance, taste, and smell[WP]." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0000956
name: cerebral cortex
def: "The thin layer of gray matter on the surface of the cerebral hemisphere that develops from the telencephalon. It consists of the neocortex (6 layered cortex or isocortex), the hippocampal formation and the olfactory cortex." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0000970
name: eye
def: "An organ that detects light." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0000978
name: leg
def: "The portion of the hindlimb that contains both the stylopod and zeugopod." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0000992
name: ovary
def: "The gonad of a female organism which contains germ cells." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0000995
name: uterus
def: "The female muscular organ of gestation in which the developing embryo or fetus is nourished until birth." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0000996
name: vagina
def: "A fibromuscular tubular tract leading from the uterus to the exterior of the body in female placental mammals and marsupials, or to the cloaca in female birds, monotremes, and some reptiles[WP]." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001003
name: skin epidermis
def: "The outer epithelial layer of the skin that is superficial to the dermis." []
is_a: UBERON:0000483 ! epithelium
is_a: UBERON:0003102 ! surface structure

[Term]
id: UBERON:0001004
name: respiratory system
def: "Functional system which consists of structures involved in respiration." []
is_a: UBERON:0000467 ! anatomical system
disjoint_from: UBERON:0001434 ! skeletal system

[Term]
id: UBERON:0001013
name: adipose tissue
def: "Portion of connective tissue composed of adipocytes enmeshed in areolar tissue." []
is_a: UBERON:0002384 ! connective tissue

[Term]
id: UBERON:0001037
name: strand of hair
def: "A filament, mostly protein, that grows from follicles found in the dermis[WP]." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001052
name: rectum
def: "The terminal portion of the intestinal tube, terminating with the anus." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001062
name: anatomical entity
def: "Biological entity that is either an individual member of a biological species or constitutes the structural organization of an individual member of a biological species." []

[Term]
id: UBERON:0001087
name: pleural fluid
def: "Transudate contained in the pleural cavity." []
is_a: UBERON:0006314 ! bodily fluid

[Term]
id: UBERON:0001088
name: urine
def: "Excretion that is the output of a kidney." []
is_a: UBERON:0000463 ! organism substance

[Term]
id: UBERON:0001089
name: sweat
def: "Secretion produced by a sweat gland." []
is_a: UBERON:0006314 ! bodily fluid

[Term]
id: UBERON:0001090
name: synovial fluid
def: "Joint fluid is a transudate of plasma that is actively secreted by synovial cells." []
is_a: UBERON:0006314 ! bodily fluid

[Term]
id: UBERON:0001103
name: diaphragm
def: "A thin musculomebranous barrier that separates the abdominal and thoracic cavities. Often used for breathing control." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0001134
name: skeletal muscle tissue
def: "Muscle tissue that consists primarily of skeletal muscle fibers." []
is_a: UBERON:0002385 ! muscle tissue

[Term]
id: UBERON:0001155
name: colon
def: "A portion of the large intestine before it becomes the rectum. In mammals, the colon is the most part of the large intestine, excluding the vermiform appendix, the rectum and the anal canal." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001159
name: sigmoid colon
def: "The part of the large intestine that is closest to the rectum and anus. It forms a loop that averages about 40 cm. in length, and normally lies within the pelvis, but on account of its freedom of movement it is liable to be displaced into the abdominal cavity." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001225
name: cortex of kidney
def: "Outer cortical portion of the kidney, between the renal capsule and the renal medulla." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001255
name: urinary bladder
def: "Distensible musculomembranous organ situated in the anterior part of the pelvic cavity in which urine collects before excretion[MP]." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0001264
name: pancreas
def: "An endoderm derived structure that produces precursors of digestive enzymes and blood glucose regulating hormones[GO]." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0001268
name: peritoneal fluid
def: "Transudate contained in the peritoneal cavity." []
is_a: UBERON:0006314 ! bodily fluid

[Term]
id: UBERON:0001323
name: tibial nerve
def: "The tibial nerve is a branch of the sciatic nerve. The tibial nerve passes through the popliteal fossa to pass below the arch of soleus. In the popliteal fossa the nerve gives off branches to gastrocnemius, popliteus, soleus and plantaris muscles, an articular branch to the knee joint, and a cutaneous branch that will become the sural nerve. The sural nerve is joined by fibres from the common peroneal nerve and runs down the calf to supply the lateral side of the foot. Below the soleus muscle the nerve lies close to the tibia and supplies the tibialis posterior, the flexor digitorum longus and the flexor hallucis longus. The nerve passes into the foot running posterior to the medial malleolus. Here it is bound down by the flexor retinaculum in company with the posterior tibial artery. [WP,unvetted]." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001359
name: cerebrospinal fluid
def: "A clear, colorless, bodily fluid, that occupies the subarachnoid space and the ventricular system around and inside the brain and spinal cord." []
is_a: UBERON:0006314 ! bodily fluid

[Term]
id: UBERON:0001434
name: skeletal system
def: "Anatomical system that is a multi-element, multi-tissue anatomical cluster that consists of the skeleton and the articular system." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001460
name: arm
def: "The part of the forelimb extending from the shoulder to the autopod[cjm]." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001485
name: knee joint
def: "The knee joint joins the thigh with the leg and consists of two articulations: one between the femur and tibia, and one between the femur and patella. It is the largest and most complicated joint in the human body. The knee is a mobile trocho-ginglymus (i.e. a pivotal hinge joint), which permits flexion and extension as well as a slight medial and lateral rotation[WP,unvetted]." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001488
name: ankle joint
def: "A joint that connects the hindlimb autopod and zeugopod skeletons." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001530
name: common carotid artery plus branches
def: "A bilaterally paired branched artery that originates from the aortic arches and divides into and includes as parts the internal and external carotid arteries[cjm]." []
is_a: UBERON:0001637 ! artery

[Term]
id: UBERON:0001555
name: digestive tract
def: "A tube extending from the mouth to the anus." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001557
name: upper respiratory tract
def: "The segment of the respiratory tract that starts proximally with the nose and ends distally with the cricoid cartilage, before continuing to the trachea." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001558
name: lower respiratory tract
def: "The segment of the respiratory tract that starts proximally with the trachea and includes all distal structures including the lungs[WP,modified]." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001567
name: cheek
def: "A fleshy subdivision of one side of the face bounded by an eye, ear and the nose." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001577
name: facial muscle
def: "A muscle innervated by a facial nerve." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0001621
name: coronary artery
def: "An artery that supplies the myocardium." []
is_a: UBERON:0001637 ! artery

[Term]
id: UBERON:0001637
name: artery
def: "An epithelial tube or tree of tibes that transports blood away from the heart[modified from AEO definition]." []
is_a: UBERON:0001981 ! blood vessel

[Term]
id: UBERON:0001638
name: vein
def: "Any of the tubular branching vessels that carry blood from the capillaries toward the heart." []
is_a: UBERON:0001981 ! blood vessel

[Term]
id: UBERON:0001723
name: tongue
def: "A muscular organ in the floor of the mouth." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0001728
name: nasopharynx
def: "The section of the pharynx that lies above the soft palate." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001729
name: oropharynx
def: "The portion of the pharynx that lies between the soft palate and the upper edge of the epiglottis." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001797
name: vitreous humor
def: "A transparent, semigelatinous substance that fills the cavity behind the crystalline lens of the eye and in front of the retina." []
is_a: UBERON:0000463 ! organism substance

[Term]
id: UBERON:0001811
name: conjunctiva
def: "The mucous membrane that lines the inner surface of the eyelids and the front of the eyeball." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001826
name: nasal cavity mucosa
def: "The mucous membrane that lines the nasal cavity[MP]." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001830
name: minor salivary gland
def: "One of the smaller, largely mucus-secreting, exocrine glands of the oral cavity, consisting of the labial, buccal, molar, lingual, and palatine glands[MP]." []
is_a: UBERON:0002530 ! gland

[Term]
id: UBERON:0001836
name: saliva
def: "A fluid produced in the oral cavity by salivary glands, typically used in predigestion, but also in other functions." []
is_a: UBERON:0000463 ! organism substance

[Term]
id: UBERON:0001873
name: caudate nucleus
def: "Subcortical nucleus of telecephalic origin consisting of an elongated gray mass lying lateral to and bordering the lateral ventricle. It is divided into a head, body and tail in some species." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001874
name: putamen
def: "Subcortical nucleus of telencephalic , which together with the caudate nucleus, forms the striatum. The putamen lies lateral to the internal capsule and medial to the external medullary lamina, and is separated from the caudate nucleus by the fibers of the internal capsule for most of its length, except at its anterior portion." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001893
name: telencephalon
def: "Part of the forebrain consisting of paired olfactory bulbs and cerebral hemispheres." []
is_a: UBERON:0000481 ! multi-tissue structure

[Term]
id: UBERON:0001913
name: milk
def: "An emulsion of fat globules within a fluid that is secreted by the mammary gland during lactation." []
is_a: UBERON:0006314 ! bodily fluid

[Term]
id: UBERON:0001968
name: semen
def: "Organism substance that is composed of sperm cells suspended in seminal fluid." []
is_a: UBERON:0000463 ! organism substance

[Term]
id: UBERON:0001970
name: bile
def: "Vital aqueous secretion of the liver that is formed by hepatocytes and modified down stream by absorptive and secretory properties of the bile duct epithelium." []
is_a: UBERON:0006314 ! bodily fluid

[Term]
id: UBERON:0001981
name: blood vessel
def: "A vessel through which blood circulates in the body." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0001987
name: placenta
def: "Organ of metabolic interchange between fetus and mother, partly of embryonic origin and partly of maternal origin[GO]. The fetal portion of the placenta is known as the villous chorion. The maternal portion is known as the decidua basalis. The two portions are held together by anchoring villi that are anchored to the decidua basalis by the cytotrophoblastic shell." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0001988
name: feces
def: "Portion of semisolid bodily waste discharged through the anus[MW,modified]." []
is_a: UBERON:0000463 ! organism substance

[Term]
id: UBERON:0002032
name: areola
def: "Subdivision of breast which consists of skin, connective tissue and smooth muscle bundle and modified sebaceous glands and which surrounds the nipple." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0002037
name: cerebellum
def: "Part of the metencephalon that lies in the posterior cranial fossa behind the brain stem. It is concerned with the coordination of movement[MESH]. A large dorsally projecting part of the brain concerned especially with the coordination of muscles and the maintenance of bodily equilibrium, situated between the brain stem and the back of the cerebrum , and formed in humans of two lateral lobes and a median lobe[BTO]. Brain structure derived from the anterior hindbrain, and perhaps including posterior midbrain. The cerebellum plays a role in somatic motor function, the control of muscle tone, and balance[ZFA]." []
is_a: UBERON:0000481 ! multi-tissue structure

[Term]
id: UBERON:0002046
name: thyroid gland
def: "A two-lobed endocrine gland found in all vertebrates, located in front of and on either side of the trachea in humans, and producing various hormones, such as triiodothyronine and calcitonin[BTO]." []
is_a: UBERON:0002530 ! gland

[Term]
id: UBERON:0002048
name: lung
def: "Respiration organ that develops as an outpocketing of the esophagus." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0002067
name: dermis
def: "The dermis is a layer of skin between the epidermis (with which it makes up the skin) and subcutaneous tissues, and is composed of two layers, the papillary and reticular dermis[WP]." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0002072
name: hypodermis
def: "Lowermost layer of the integumentary system in vertebrates. Types of cells that are found in the hypodermis are fibroblasts, adipose cells, and macrophages. It is derived from the mesoderm, but unlike the dermis, it is not derived from the dermatome region of the mesoderm. The hypodermis is used mainly for fat storage[WP]." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0002097
name: skin of body
def: "The organ covering the body that consists of the dermis and epidermis." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0002106
name: spleen
def: "The organ that functions to filter blood and to store red corpuscles and platelets." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0002107
name: liver
def: "An exocrine gland which secretes bile and functions in metabolism of protein and carbohydrate and fat, synthesizes substances involved in the clotting of the blood, synthesizes vitamin A, detoxifies poisonous substances, stores glycogen, and breaks down worn-out erythrocytes[GO]." []
is_a: UBERON:0002530 ! gland

[Term]
id: UBERON:0002116
name: ileum
def: "The portion of the small intestine that extends from the jejunum to the colon." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0002199
name: integument
def: "The dermis, epidermis and hypodermis." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0002358
name: peritoneum
def: "A serous membrane that lines the peritoneal cavity[VHOG,modified]." []
is_a: UBERON:0000481 ! multi-tissue structure

[Term]
id: UBERON:0002367
name: prostate gland
def: "The prostate gland is a partly muscular, partly glandular body that is situated near the base of the mammalian male urethra and secretes an alkaline viscid fluid which is a major constituent of the ejaculatory fluid." []
is_a: UBERON:0002530 ! gland

[Term]
id: UBERON:0002369
name: adrenal gland
def: "Either of a pair of complex endocrine organs near the anterior medial border of the kidney consisting of a mesodermal cortex that produces glucocorticoid, mineralocorticoid, and androgenic hormones and an ectodermal medulla that produces epinephrine and norepinephrine[BTO]." []
is_a: UBERON:0002530 ! gland

[Term]
id: UBERON:0002371
name: bone marrow
def: "The soft tissue that fills the cavities of bones." []
is_a: UBERON:0000479 ! tissue

[Term]
id: UBERON:0002384
name: connective tissue
def: "Tissue with cells that deposit non-polarized extracellular matrix including connective tissue fibers and ground substance." []
is_a: UBERON:0000479 ! tissue

[Term]
id: UBERON:0002385
name: muscle tissue
def: "Muscle tissue is a contractile tissue made up of actin and myosin fibers[GO]." []
is_a: UBERON:0000479 ! tissue

[Term]
id: UBERON:0002386
name: forelimb zeugopod
def: "The middle limb segment of the pectoral free limb, between the autopod and stylopod segments. Includes as parts the forelimb zeugopodial skeleton, which includes as parts the radius and ulna, or their cartilage precursors, or evolutionary variants." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0002389
name: manual digit
def: "A digit that is part of a manus (hand)." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0002391
name: lymph
def: "Lymph is the fluid that is formed when interstitial fluid enters the conduits of the lymphatic system through lymph capillaries[WP]." []
is_a: UBERON:0006314 ! bodily fluid

[Term]
id: UBERON:0002409
name: pericardial fluid
def: "Transudate contained in the pericardial cavity.[FMA]." []
is_a: UBERON:0006314 ! bodily fluid

[Term]
id: UBERON:0002415
name: tail
def: "An external caudal extension of the body. In chordates, the tail is post-anal, in other animals the anus ends in the tail." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0002465
name: lymphoid system
def: "The lymphatic system in vertebrates is a network of conduits that carry a clear fluid called lymph. It also includes the lymphoid tissue through which the lymph travels. Lymphoid tissue is found in many organs, particularly the lymph nodes, and in the lymphoid follicles associated with the digestive system such as the tonsils. The system also includes all the structures dedicated to the circulation and production of lymphocytes, which includes the spleen, thymus, bone marrow and the lymphoid tissue associated with the digestive system[WP]." []
is_a: UBERON:0000467 ! anatomical system

[Term]
id: UBERON:0002469
name: esophagus mucosa
def: "A mucosa that is part of a esophagus [Automatically generated definition]." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0002512
name: corpus luteum
def: "A transient endocrine gland that develops from the postovulatory or atretic follicles and secretes progesterone; it is thought to be related to egg retention[PMID]." []
is_a: UBERON:0002530 ! gland

[Term]
id: UBERON:0002530
name: gland
def: "An organ that functions as a secretory or excretory organ." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0002812
name: left cerebral hemisphere
def: "A cerebral hemisphere that is in the left side of a brain." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0002813
name: right cerebral hemisphere
def: "A cerebral hemisphere that is in the right side of a brain." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0003102
name: surface structure
def: "Anatomical structure that overlaps the outer epithelial layer and is adjacent to the space surrounding the organism." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0003126
name: trachea
def: "The trachea is the portion of the airway that attaches to the bronchi as it branches [GO:dph]." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0003128
name: cranium
def: "Upper portion of the skull that excludes the mandible (when present in the organism)." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0003688
name: omentum
def: "A fold of peritoneum originating at the stomach and supporting the viscera." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0004648
name: esophagus muscularis mucosa
def: "A muscularis mucosa that is part of a esophagus." []
is_a: UBERON:0002385 ! muscle tissue

[Term]
id: UBERON:0005022
name: mucosa of nasopharynx
def: "A mucosa that is part of a nasopharynx [Automatically generated definition]." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0005023
name: mucosa of oropharynx
def: "A mucosa that is part of a oropharynx [Automatically generated definition]." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0005921
name: middle nasal concha
def: "The medial surface of the labyrinth of ethmoid consists of a thin lamella, which descends from the under surface of the cribriform plate, and ends below in a free, convoluted margin, the middle nasal concha. It is rough, and marked above by numerous grooves, directed nearly vertically downward from the cribriform plate; they lodge branches of the olfactory nerves, which are distributed to the mucous membrane covering the superior nasal concha." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0006314
name: bodily fluid
def: "Liquid components of living organisms. includes fluids that are excreted or secreted from the body as well as body water that normally is not." []
is_a: UBERON:0000463 ! organism substance

[Term]
id: UBERON:0006538
name: respiratory system fluid/secretion
def: "A portion of organism substance that secreted_by a respiratory system." []
is_a: UBERON:0000463 ! organism substance

[Term]
id: UBERON:0006618
name: atrium auricular region
def: "A small conical pouch projections located on the upper anterior portion of each atrium of the heart." []
is_a: UBERON:0000481 ! multi-tissue structure

[Term]
id: UBERON:0006911
name: digestive system secreted substance
is_a: UBERON:0000463 ! organism substance

[Term]
id: UBERON:0007106
name: chorionic villus
def: "One of the minute vascular projections of the fetal chorion that combines with maternal uterine tissue to form the placenta." []
is_a: UBERON:0000465 ! material anatomical entity

[Term]
id: UBERON:0007109
name: meconium
def: "A dark greenish mass that accumulates in the bowel during fetal life and is discharged shortly after birth." []
is_a: UBERON:0001988 ! feces

[Term]
id: UBERON:0007311
name: sputum
def: "Matter ejected from the lungs, bronchi, and trachea, through the mouth." []
is_a: UBERON:0006538 ! respiratory system fluid/secretion

[Term]
id: UBERON:0007610
name: tibial artery
def: "The anterior and posterior arteries created at the bifurcation of the popliteal artery. The anterior tibial artery begins at the lower border of the popliteus muscle and lies along the tibia at the distal part of the leg to surface superficially anterior to the ankle joint. Its branches are distributed throughout the leg, ankle, and pes. The posterior tibial artery begins at the lower border of the popliteus muscle, lies behind the tibia in the lower part of its course, and is found situated between the medial malleolus and the medial process of the calcaneal tuberosity. Its branches are distributed throughout the leg and foot." []
is_a: UBERON:0001637 ! artery

[Term]
id: UBERON:0007650
name: esophagogastric junction
def: "The junction between the esophagus and the stomach epithelium." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0008188
name: tendon of biceps brachii
def: "A tendon that attaches_to a biceps brachii." []
is_a: UBERON:0002384 ! connective tissue

[Term]
id: UBERON:0008979
name: carcass
def: "A body of a multi-cellular organism that is no longer living." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0009097
name: gravid organism
def: "An organism containing a developing embryo, fetus, or unborn offspring within the body." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:0010414
name: omental fat pad
def: "Encapsulated adipose tissue associated with the fold of peritoneal tissue that extends from the stomach to the posterior abdominal wall after associating with the transverse colon." []
is_a: UBERON:0001013 ! adipose tissue

[Term]
id: UBERON:0011011
name: brachioradialis
def: "Brachioradialis is a muscle of the forearm that acts to flex the forearm at the elbow. It is also capable of both pronation and supination, depending on the position of the forearm. It is attached to the distal styloid process of the radius by way of the brachioradialis tendon, and to the lateral supracondylar ridge of the humerus." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:0012168
name: umbilical cord blood
def: "Blood that remains in the placenta and in the attached umbilical cord after childbirth[WP]." []
is_a: UBERON:0013755 ! arterial blood

[Term]
id: UBERON:0013755
name: arterial blood
def: "A blood that is part of a artery." []
is_a: UBERON:0000178 ! blood

[Term]
id: UBERON:0013756
name: venous blood
def: "A blood that is part of a vein." []
is_a: UBERON:0000178 ! blood

[Term]
id: UBERON:0013757
name: capillary blood
def: "A blood that is part of a capillary." []
is_a: UBERON:0000178 ! blood

[Term]
id: UBERON:0036149
name: suprapubic skin
def: "Area of skin in the hypoastric region of the abdomen." []
is_a: UBERON:0000061 ! anatomical structure

[Term]
id: UBERON:3000016
name: anterior nasal wall
def: "Paired, vertical, and relatively straight plates that form the anterior limit of the nasal capsule." []
is_a: UBERON:0000062 ! organ

[Term]
id: UBERON:8470000
name: placental blood
def: "Blood located in the placenta." []
is_a: UBERON:0000178 ! blood

[Term]
id: UO:0000001
name: length unit
is_a: IAO:0000003 ! measurement unit label

[Term]
id: UO:0000002
name: mass unit
is_a: IAO:0000003 ! measurement unit label

[Term]
id: UO:0000003
name: time unit
is_a: IAO:0000003 ! measurement unit label

[Term]
id: UO:0000005
name: temperature unit
is_a: IAO:0000003 ! measurement unit label

[Term]
id: UO:0000006
name: substance unit
is_a: IAO:0000003 ! measurement unit label

[Term]
id: UO:0000051
name: concentration unit
is_a: IAO:0000003 ! measurement unit label

[Term]
id: UO:0000060
name: speed/velocity unit
is_a: IAO:0000003 ! measurement unit label

[Term]
id: UO:0000095
name: volume unit
is_a: IAO:0000003 ! measurement unit label

[Term]
id: UO:0000105
name: frequency unit
is_a: IAO:0000003 ! measurement unit label

[Term]
id: UO:0000109
name: pressure unit
is_a: IAO:0000003 ! measurement unit label

[Term]
id: UO:0000270
name: volumetric flow rate unit
is_a: IAO:0000003 ! measurement unit label

[Term]
id: UO:0000280
name: rate unit
is_a: IAO:0000003 ! measurement unit label

[Term]
id: UPHENO:0001001
name: phenotype
def: "A phenotypic effect related to http://www.w3.org/2002/07/owl#Thing." []
is_a: PATO:0000001 ! quality

[Term]
id: UPHENO:0056253
name: increased number of material anatomical entity in the urine
def: "The presence of an increased number of material anatomical entity in the urine." []
is_a: UPHENO:0001001 ! phenotype

[Term]
id: VO:0000001
name: vaccine
def: "Material entity that is manufactured to realize the vaccine function." []
is_a: COB:0000026 ! processed material entity

[Term]
id: VO:0000002
name: vaccination
def: "Process of administering a vaccine in vivo to a recipient (e.g., a human), with the intent to invoke a protective or therapeutic adaptive immune response." []
is_a: OBI:0600007 ! administering substance in vivo

[Typedef]
id: BFO:0000050
name: part of
def: "a core relation that holds between a part and its whole" []
is_transitive: true
inverse_of: BFO:0000051 ! has part

[Typedef]
id: BFO:0000051
name: has part
def: "a core relation that holds between a whole and its part" []
is_transitive: true

[Typedef]
id: BFO:0000054
name: realized in

[Typedef]
id: BFO:0000055
name: realizes
def: "Paraphrase of elucidation: a relation between a process and a realizable entity, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process" []
domain: BFO:0000015 ! process
range: BFO:0000017 ! realizable entity

[Typedef]
id: BFO:0000062
name: preceded by
def: "x is preceded by y if and only if the time point at which y ends is before or equivalent to the time point at which x starts. Formally: x preceded by y iff ω(y) <= α(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." []
is_transitive: true

[Typedef]
id: BFO:0000063
name: precedes
def: "x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." []
is_transitive: true

[Typedef]
id: COB:0000016
name: executed by

[Typedef]
id: COB:0000081
name: intended to realize

[Typedef]
id: COB:0000084
name: has plan

[Typedef]
id: COB:0000085
name: intended plan process type

[Typedef]
id: IAO:0000039
name: has measurement unit label
range: IAO:0000003 ! measurement unit label
is_functional: true

[Typedef]
id: IAO:0000136
name: is about
def: "A (currently) primitive relation that relates an information artifact to an entity." []
domain: IAO:0000030 ! information content entity

[Typedef]
id: IAO:0000219
name: denotes
def: "A primitive, instance-level, relation obtaining between an information content entity and some portion of reality. Denotation is what happens when someone creates an information content entity E in order to specifically refer to something. The only relation between E and the thing is that E can be used to 'pick out' the thing. This relation connects those two together. Freedictionary.com sense 3: To signify directly; refer to specifically" []
domain: IAO:0000030 ! information content entity
is_a: IAO:0000136 ! is about
inverse_of: IAO:0000235 ! denoted by

[Typedef]
id: IAO:0000221
name: is quality measurement of
def: "m is a quality measurement of q at t. When q is a quality, there is a measurement process p that has specified output m, a measurement datum, that is about q" []
domain: IAO:0000109 ! measurement datum
is_a: IAO:0000136 ! is about

[Typedef]
id: IAO:0000235
name: denoted by
def: "inverse of the relation 'denotes'" []
range: IAO:0000030 ! information content entity

[Typedef]
id: IAO:0000407
name: has coordinate unit label
is_functional: true

[Typedef]
id: IAO:0000413
name: is duration of
def: "relates a process to a time-measurement-datum that represents the duration of the process" []
domain: IAO:0000416 ! time measurement datum
is_a: IAO:0000136 ! is about

[Typedef]
id: OBI:0000107
name: provides_service_consumer_with
def: "A relation between a service and the primary processual part of the service that is performed by the provider for the consumer." []
domain: OBI:0001173 ! service
is_a: BFO:0000051 ! has part

[Typedef]
id: OBI:0000124
name: is_supported_by_data
def: "The relation between a data item and a conclusion where the conclusion is the output of a data interpreting process and the data item is used as an input to that process" []
domain: OBI:0001909 ! conclusion based on data
range: IAO:0000027 ! data item

[Typedef]
id: OBI:0000293
name: has specified input
def: "The inverse property of is specified input of" []
domain: COB:0000035 ! completely executed planned process
is_a: RO:0000057 ! has participant
inverse_of: OBI:0000295 ! is specified input of

[Typedef]
id: OBI:0000294
name: obsolete_is_concretization_of
def: "Is a relationship between a generically dependent continuant and a specifically dependent continuant. A generically dependent continuant may inhere in more than one entity. It does so by virtue of the fact that there is, for each entity that it inheres, a specifically dependent *concretization* of the generically dependent continuant that is specifically dependent. For instance, consider a story, which is an information artifact that inheres in some number of books. Each book bears some quality that carries the story. The relation between this quality and the generically dependent continuant is that the former is the concretization of the latter." []
is_a: ObsoleteProperty
is_obsolete: true

[Typedef]
id: OBI:0000295
name: is specified input of
def: "A relation between a completely executed planned process and a continuant participating in that process that is not created during the process. The presence of the continuant during the process is explicitly specified in the plan specification which the process realizes the concretization of." []
range: COB:0000035 ! completely executed planned process
is_a: RO:0000056 ! participates in

[Typedef]
id: OBI:0000297
name: obsolete_is_concretized_as
def: "Is a relationship between a specifically dependent continuant and a generically dependent continuant. A generically dependent continuant may inhere in more than one entity. It does so by virtue of the fact that there is, for each entity that it inheres, a specifically dependent *concretization* of the generically dependent continuant that is specifically dependent. For instance, consider a story, which is an information artifact that inheres in some number of books. Each book bears some quality that carries the story. The relation between this quality and the generically dependent continuant is that the former is the concretization of the latter." []
is_a: ObsoleteProperty
is_obsolete: true

[Typedef]
id: OBI:0000298
name: obsolete_has_quality
def: "A relation between an entity and a quality. For types: E has_quality Q iff: \nfor any eEt, exists qQt such that q inheres_in e at t. \nFor instances: e has_quality q at t iff q inheres_in e at t and q instance-of Quality [GOC:cjm]" []
is_a: ObsoleteProperty
is_obsolete: true

[Typedef]
id: OBI:0000299
name: has specified output
def: "The inverse property of is specified output of" []
domain: COB:0000035 ! completely executed planned process
is_a: RO:0000057 ! has participant
inverse_of: OBI:0000312 ! is specified output of

[Typedef]
id: OBI:0000300
name: obsolete_is_realized_by
def: "Relation between a realizable and a process. Reciprocal relation of realizes [GOC:cjm]" []
synonym: "executed_during" EXACT []
synonym: "has_realization" EXACT []
synonym: "is_realized_as" EXACT []
is_a: ObsoleteProperty
is_obsolete: true

[Typedef]
id: OBI:0000301
name: obsoleted_has_specified_output_information
def: "A relation between a participant in a process, that produces a data set . The process is the realization of a concretization of a realizable information entity (objective specification or plan specification). In general, not all data present at the end of the process are specified_data." []
is_a: ObsoleteProperty
is_obsolete: true

[Typedef]
id: OBI:0000304
name: is_manufactured_by
def: "c is_manufactured_by o means that there was a process p in which c was built in which a person, or set of people or machines did the work(bore the \"Manufacturer Role\", and those people/and or machines were members or of directed by the organization to do this." []
synonym: "has_make" EXACT []
synonym: "has_manufacturer" EXACT []
domain: BFO:0000040 ! material entity
range: OBI:0000835 ! manufacturer

[Typedef]
id: OBI:0000306
name: obsolete_has_function
def: "Relation between an independent continuant and a function." []
is_a: ObsoleteProperty
is_obsolete: true

[Typedef]
id: OBI:0000307
name: obsoleted_is_reagent_in
def: "Relationship between a substance and a protocol application in which it participates, where the substance has a ReagentRole" []
is_a: ObsoleteProperty
is_obsolete: true

[Typedef]
id: OBI:0000308
name: obsolete_realizes
def: "Relation between a process and a function, where the unfolding of the \nprocess requires the execution of the function. Class level: P realizes F iff: \ngiven any p that instantiates P, there exists some f, t such that f instantiates\n F at t and p *realizes* f. Here, *realizes* is the primitive \ninstance level relation [GOC:cjm]" []
synonym: "executes" EXACT []
synonym: "has_function_part" EXACT []
synonym: "involves_execution_of" EXACT []
synonym: "is_realization_of" EXACT []
is_a: ObsoleteProperty
is_obsolete: true

[Typedef]
id: OBI:0000309
name: obsoleted_utilizes_reagent
def: "Relationship between a protocol application and a substance that has role reagent that participates in the protocol application" []
is_a: ObsoleteProperty
is_obsolete: true

[Typedef]
id: OBI:0000311
name: obsoleted_is_device_for
def: "Relationship between a device and a protocol application in which it  participates" []
is_a: ObsoleteProperty
is_obsolete: true

[Typedef]
id: OBI:0000312
name: is specified output of
def: "A relation between a completely executed planned process and a continuant participating in that process. The presence of the continuant at the end of the process is explicitly specified in the objective specification which the process realizes the concretization of." []
range: COB:0000035 ! completely executed planned process
is_a: RO:0000056 ! participates in

[Typedef]
id: OBI:0000313
name: obsoleted_utilizes_device
def: "Relationship between protocol application and an intrument in which it  participates" []
is_a: ObsoleteProperty
is_obsolete: true

[Typedef]
id: OBI:0000314
name: is_proxy_for
def: "A relation between continuant instances c1 and c2 where within an experiment/ protocol application,  measurement of c1 is used to determine what a measurement of c2 would be." []

[Typedef]
id: OBI:0000315
name: obsoleted_has_specified_input_information
def: "A relation between a process and a participant in that process, that consumes a data set . The process is the realization of a concretization of a directive information entity (objective specification or plan specification). In general, not all data present at the beginning of the process are specified_data." []
synonym: "consumes data" EXACT []
is_a: ObsoleteProperty
is_obsolete: true

[Typedef]
id: OBI:0000316
name: obsolete_has_role
def: "A relation between a continuant C and a role R. The reciprocal relation of role_of." []
is_a: ObsoleteProperty
is_obsolete: true

[Typedef]
id: OBI:0000365
name: obsolete_results_from
is_a: ObsoleteProperty
is_obsolete: true

[Typedef]
id: OBI:0000417
name: achieves_planned_objective
def: "This relation obtains between a planned process and a objective specification when the criteria specified in the objective specification are met at the end of the planned process." []
domain: COB:0000035 ! completely executed planned process
range: IAO:0000005 ! objective specification
inverse_of: OBI:0000833 ! objective_achieved_by

[Typedef]
id: OBI:0000459
name: obsoleted_is_specified_information_output_of
def: "A relation between a data set and the process in which it participates and was produced.  Inverse of outputs_specified_data relation." []
is_a: ObsoleteProperty
is_obsolete: true

[Typedef]
id: OBI:0000643
name: has grain
def: "the relation of the cells in the finger of the skin to the finger, in which an indeterminate number of grains are parts of the whole by virtue of being grains in a collective that is part of the whole, and in which removing one granular part does not nec- essarily damage or diminish the whole. Ontological Whether there is a fixed, or nearly fixed number of parts - e.g. fingers of the hand, chambers of the heart, or wheels of a car - such that there can be a notion of a single one being missing, or whether, by contrast, the number of parts is indeterminate - e.g., cells in the skin of the hand, red cells in blood, or rubber molecules in the tread of the tire of the wheel of the car." []
is_a: BFO:0000051 ! has part

[Typedef]
id: OBI:0000644
name: obsoleted_is_specified_information_intput_of
def: "Is the inverse relation of has_specfied_input_information" []
is_a: ObsoleteProperty
is_obsolete: true

[Typedef]
id: OBI:0000645
name: is grain of
def: "A relation between granular parts and the whole of which they are a part. Granular parts have indeterminate number such that removing one granular part does not necessarily damage or diminish the whole." []
is_a: BFO:0000050 ! part of

[Typedef]
id: OBI:0000646
name: provisions
def: "A relation between an organisation or person and a material entity, where the organization or person provides or supplies the material entity for others to use" []
synonym: "supplies" EXACT []
inverse_of: OBI:0000647 ! has_supplier

[Typedef]
id: OBI:0000647
name: has_supplier
def: "A relation between a material entity and an organisation or person who owned or has license to the material entity and there was a legal transfer of ownership or licensing of the material entity to the current owner." []
domain: BFO:0000040 ! material entity

[Typedef]
id: OBI:0000833
name: objective_achieved_by
def: "This relation obtains between an objective specification and a planned process when the criteria specified in the objective specification are met at the end of the planned process." []
domain: IAO:0000005 ! objective specification
range: COB:0000035 ! completely executed planned process

[Typedef]
id: OBI:0000846
name: is member of organization
def: "Relating a legal person or organization to an organization in the case where the legal person or organization has a role as member of the organization." []
range: OBI:0000245 ! organization
inverse_of: OBI:0001688 ! has organization member

[Typedef]
id: OBI:0000999
name: has category label
def: "A relation between a categorical measurement data item and the categorical label that indicates the value of that data item on the categorical scale." []
domain: OBI:0000938 ! categorical measurement datum
range: OBI:0000963 ! categorical label
is_a: BFO:0000051 ! has part

[Typedef]
id: OBI:0001637
name: has disposition to bind
def: "A relationship between two material entitites that each have disposition to form a complex with the other." []
domain: BFO:0000040 ! material entity
range: BFO:0000040 ! material entity
is_symmetric: true

[Typedef]
id: OBI:0001688
name: has organization member
def: "Relating an organization to a legal person or organization." []
domain: OBI:0000245 ! organization

[Typedef]
id: OBI:0001927
name: specifies value of
def: "A relation between a value specification and an entity which the specification is about." []
domain: OBI:0001933 ! value specification
is_a: IAO:0000136 ! is about

[Typedef]
id: OBI:0001938
name: has value specification
def: "A relation between an information content entity and a value specification that specifies its value." []
domain: IAO:0000030 ! information content entity
range: OBI:0001933 ! value specification
is_a: BFO:0000051 ! has part

[Typedef]
id: OBI:0001950
name: has performer
def: "A relation between a planned process and a continuant where the continuant can be a person, organization or device (such as a robot controlled by software workflow management system) that performs the planned process." []
comment: The 'has performer' relation covers the need to report on who performed a planned processed. It has to cover processes done by People or Devices (such as a robot controlled by software  WF management system).
domain: COB:0000035 ! completely executed planned process
is_a: RO:0000057 ! has participant

[Typedef]
id: OBI:0003385
name: has assay target context
def: "A relation between  the target entity of an assay and a material entity, where the material entity is the environment in which the target entity of an assay is measured, such as a live mouse, cell culture, test tube, etc." []
range: BFO:0000040 ! material entity

[Typedef]
id: OBI:0003703
name: has study design
def: "A relation between an investigation and a study design in which part of the investigation is a study design execution that carries out the study design." []
domain: OBI:0000066 ! investigation
range: OBI:0500000 ! study design
inverse_of: OBI:0003704 ! is study design of

[Typedef]
id: OBI:0003704
name: is study design of
def: "A relation between a study design and an investigation when part of the investigation is a study design execution that carries out the study design." []
domain: OBI:0500000 ! study design
range: OBI:0000066 ! investigation

[Typedef]
id: OBI:1110060
name: process is result of
def: "is a relationship between a process and a preceding occurrent that directly caused the later one to occur" []
is_a: RO:0002087 ! immediately preceded by

[Typedef]
id: OBI:1110112
name: obsolete_is_described_by
is_a: ObsoleteProperty
is_obsolete: true

[Typedef]
id: OBI:1110119
name: bound_to
def: "A relationship between two material entities that form a complex based on a selective, non-covalent interaction." []
domain: BFO:0000040 ! material entity
range: BFO:0000040 ! material entity

[Typedef]
id: RO:0000052
name: characteristic of
def: "a relation between a specifically dependent continuant (the characteristic) and any other entity (the bearer), in which the characteristic depends on the bearer for its existence." []

[Typedef]
id: RO:0000053
name: has characteristic
def: "Inverse of characteristic_of" []

[Typedef]
id: RO:0000056
name: participates in
def: "a relation between a continuant and a process, in which the continuant is somehow involved in the process" []

[Typedef]
id: RO:0000057
name: has participant
def: "a relation between a process and a continuant, in which the continuant is somehow involved in the process" []

[Typedef]
id: RO:0000058
name: is concretized as
def: "A relationship between a generically dependent continuant and a specifically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. A generically dependent continuant may be concretized as multiple specifically dependent continuants." []

[Typedef]
id: RO:0000059
name: concretizes
def: "A relationship between a specifically dependent continuant and a generically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. Multiple specifically dependent continuants can concretize the same generically dependent continuant." []

[Typedef]
id: RO:0000079
name: function of
def: "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" []

[Typedef]
id: RO:0000080
name: quality of
def: "a relation between a quality and an independent continuant (the bearer), in which the quality specifically depends on the bearer for its existence" []

[Typedef]
id: RO:0000081
name: role of
def: "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" []

[Typedef]
id: RO:0000085
name: has function
def: "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" []

[Typedef]
id: RO:0000086
name: has quality
def: "a relation between an independent continuant (the bearer) and a quality, in which the quality specifically depends on the bearer for its existence" []

[Typedef]
id: RO:0000087
name: has role
def: "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" []

[Typedef]
id: RO:0000091
name: has disposition
def: "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" []

[Typedef]
id: RO:0000092
name: disposition of
def: "inverse of has disposition" []

[Typedef]
id: RO:0001000
name: derives from
def: "a relation between two distinct material entities, the new entity and the old entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity" []

[Typedef]
id: RO:0001015
name: location of
def: "a relation between two independent continuants, the location and the target, in which the target is entirely within the location" []

[Typedef]
id: RO:0001025
name: located in
def: "a relation between two independent continuants, the target and the location, in which the target is entirely within the location" []
is_transitive: true

[Typedef]
id: RO:0002087
name: immediately preceded by

[Typedef]
id: RO:0002090
name: immediately precedes

[Typedef]
id: RO:0002180
name: has component
def: "w 'has component' p if w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." []

[Typedef]
id: RO:0002215
name: capable of
range: BFO:0000015 ! process

[Typedef]
id: RO:0002219
name: surrounded by
def: "x surrounded_by y if and only if (1) x is adjacent to y and for every region r that is adjacent to x, r overlaps y (2) the shared boundary between x and y occupies the majority of the outermost boundary of x" []

[Typedef]
id: RO:0002220
name: adjacent to

[Typedef]
id: RO:0002221
name: surrounds
def: "inverse of surrounded by" []

[Typedef]
id: RO:0002222
name: temporally related to

[Typedef]
id: RO:0002223
name: starts
def: "inverse of starts with" []

[Typedef]
id: RO:0002233
name: has input
def: "p has input c iff: p is a process, c is a material entity, c is a participant in p, c is present at the start of p, and the state of c is modified during p." []
domain: BFO:0000015 ! process

[Typedef]
id: RO:0002234
name: has output
def: "p has output c iff c is a participant in p, c is present at the end of p, and c is not present in the same state at the beginning of p." []

[Typedef]
id: RO:0002333
name: enabled by
def: "inverse of enables" []

[Typedef]
id: RO:0002351
name: has member
def: "has member is a mereological relation between a collection and an item." []