Datasets contained in the NIAID Data Ecosystem. A dataset is a collection of data of a particular experimental type. The NIAID Data Ecosystem is an environment to find and access and infectious and immune-mediated disease data and computational tools to speed the development of diagnostics, therapeutics, and vaccines. The NIAID Data Ecosystem Discovery Portal harvests metadata from dataset repository and harmonizes them to this schema to enable easy cross-platform dataset searching and filtering.
Datasets contained in the NIAID Data Ecosystem. A dataset is a collection of data of a particular experimental type.
Publications, datasets, or computational tools that cite the work.
Date the work has changed: most recent date of dateModified, datePublished, and dateCreated.
Digital Object Identifier (DOI) for the work, not any associated publications.
Datasets which are related to the given dataset; often datasets involved in the same study. These linkages are created via human curation.
Datasets or computational tools which are similar to the work, based on terms in the names, descriptions, authors, measurementTechniques, infectiousAgents, healthConditions, etc.
ClinicalTrials.gov identifier associated with the dataset.
How an associated work is related to the dataset.
Topic of the work. This topic may be assigned by a human curator or through automated algorithms.
Infectious agent(s) / pathogen(s) which are the focus of the work (like SARS-CoV-2).
collection of vocabulary terms defined in ontologies
The health condition(s) /infectious disease(s) which are the focus of the work (like COVID-19, coronavirus).
Funding that supports (sponsors) the collection of this dataset through some kind of financial contribution.
An organization associated with a creator or funder of a dataset
description about the funding award / grant
Unique identifier(s) for the grant(s) used to fund the Dataset
Species / host organism from which the dataset has been collected.
A downloadable form of this dataset, at a specific location, in a specific format.
Data or tool catalog where the work is published; original source of the metadata.
A technique or technology used in a dataset corresponding to the method used for measuring the corresponding variable(s) (described using variableMeasured). For example, if variableMeasured is molecule concentration, measurementTechnique could be: "mass spectrometry" or "nmr spectroscopy" or "colorimetry" or "immunofluorescence".
measurement technique used to collect the dataset
Short description that summarizes a work.
The overall rating, based on a collection of reviews or ratings, of the work. These ratings can be collected based on user reviews or through Altmetric scores of web-based citations.
Author or creator of the work. The default field for the author or creator of the work.
A citation or reference to a publication, dataset, or computational tool which uses the dataset. Examples: a publication which describes the collection/analysis of the dataset, a publication which reuses the dataset in a secondary analysis, a dataset which extends the existing dataset, or a computational tool which relies on the dataset.
Conditions that affect the availability of, or method(s) of access to, the work. Options include open (freely available), restricted (may include restrictions such as on use), closed (requires registration to access), or embargoed (unpublished).
The creator/author of this work; equivalent to author. Please use author by default. Use creator if author/creator in a record of this work submitted elsewhere differs from the author/creator entered into the author field.
Associated materials for the dataset, including data dictionaries and data limitation descriptions.
The language of the content of the dataset.
The number of interactions with the work, such as page views or tool downloads.
A flag to signal that the work is accessible for free.
A dataset, publication, or computational tool from which this work is derived, modified, or adapted.
dataset, publication, or tool used to create the work
Indicates a broader study, project, or collection the work is part of.
Keywords or tags used to describe this work.
A license document that applies to this work, typically indicated by URL.
Original publisher of the dataset metadata (like GenBank, ImmPort, etc.).
The place(s) which are the focus of the dataset.
the type of administrative area, such as country, state, county, or city
An identifier for the location, preferably a Wikidata ID
Categorization of how the location relates to the dataset
The period of time covered within the dataset.
A time interval in ISO 8601 duration format
Categorization of how the date/temporal interval relates to the dataset
Data usage agreement, specifying the terms under which the dataset can be used. Note that this is related to but distinct from the license.
Dataset identifier or accession number, such as a digital object identifier (DOI), sequence read archive (SRA) or GenBank accession number, etc.
Website which describes the work and provides additional details.
The organization, research project, working group, or funded program on whose behalf the author/creator was working.
A citation object for a resource which is cited by the dataset (ie- is a derivative of the dataset) , related to the dataset, or from which the dataset was based on (ie- is derived from).
An identifier associated with the citation such as a digital object identifier (DOI), PubMed ID (PMID), or PubMed Central ID (PMCID)
A PubMed identifier (PMID) of the referenced publication
A digital object identifier (DOI) of the referenced publication
Abbreviated journal name where the article appears
Page numbers in the journal where the article appears
Volume of the journal where the article appears
The bibliographic citation string for the article as is provided
Data or tool catalog which houses the work
A digital object identifier (DOI) of the referenced work
The bibliographic citation for the referenced work as is provided
date the metadata was harvested from the catalog
Name of the affiliation, such as a university
Name of the parent organization. For instance, the parentOrganization of NIAID is the National Institutes of health (NIH)
What role the organization played in creating the dataset
Unique identifier of the person, like an ORCID ID
Role the person played in creating the dataset
Link to the homepage or other web content describing the person
The identifier property represents any kind of identifier for any kind of Thing, such as ISBNs, GTIN codes, UUIDs etc. Schema.org provides dedicated properties for representing many of these, either as textual strings or as URL (URI) links. See background notes for more details.
The person, organization, or catalog that curated this DefinedTerm for the metadata property
A code that identifies this DefinedTerm within a DefinedTermSet.
A DefinedTermSet that contains this term.
The original name of the item, before any metadata standardization/normalization
A boolean indicator describing whether or not this DefinedTerm was curated as the value of a property.
Reusable software or algorithm definition
name of the software, computational tool, or algorithm.
date the software, computational tool, or algorithm was run
url of the software, computational tool, or algorithm
ComputationalTools (software, workflows, computational tools, code) contained in the NIAID Data Ecosystem. The NIAID Data Ecosystem is a secure environment to find, access and analyze immune-mediated and infectious disease data and computational tools to speed the development of diagnostics, therapeutics, and vaccines. The NIAID Data Ecosystem Discovery Portal harvests metadata from dataset repository and harmonizes them to this schema to enable easy cross-platform dataset searching and filtering.
A computational tool which reuses the computational tool.
Computational tools which are related to the given computational tool. These linkages are created via human curation.
Funding that supports (sponsors) the development of this computational tool through some kind of financial contribution.
An organization associated with a creator or funder of a computational tool
Unique identifier(s) for the grant(s) used to fund the development of this computational tool
Device or platform required to run the application, such as Bioconda, Docker, or Singularity.
Link to the source code repository of the tool such as GitHub.
The main programming language(s) used to build or execute the tool.
software input, such as a file or parameter.
Type of software application, e.g. 'Command-line tool', 'Database portal', 'Desktop application', 'Library', 'Ontology', 'Plug-in', 'Script', 'SPARQL endpoint', 'Suite', 'Web application', 'Web API', 'Web service', 'Workbench', 'Workflow'.
A subcategory of the computational tool, like gene regulation.
The name of the application suite to which the application belongs (e.g. Excel belongs to Office).
Features or modules provided by this application (and possibly required by other applications).
Operating systems supported (Windows 7, OSX 10.6, Android 1.6).
Processor architecture required to run the application (e.g. IA64).
Additional content for a software application.
URL to access software application help.
Component dependency requirements for application. This includes runtime environments and shared libraries that are not included in the application distribution package, but required to run the application (Examples: DirectX, Java or .NET runtime).
A citation or reference to a publication, dataset, or computational tool which uses the computational tool. Examples: a publication which describes the development of the computational tool, a publication which describes the extension or use of the computational tool, a dataset which was processed or analyzed using the tool, or a computational tool which relies on the given tool.
A secondary contributor to the developement or maintenance of the computational tool.
contributor to development or maintenance
A link to a webpage containing the comments about the computational tool.
An item that is part of this computational tool.
The language of the computational tool (not programming language).
Original publisher of the computational tool metadata (like GitHub, Dockstore, etc.).
A thumbnail image of the computational tool.
A description of the computational tool.
Additional type of the referenced work, such as a Sample, Run, Experiment, or BioProject
Role the person played in creating the computational tool
Reusable input or output parameter definition
An ontology identifier or url of the software input our output
Description of the software input or output
File type of the software input our output
ResourceCatalogs (collections of scientific information or research outputs) contained in the NIAID Data Ecosystem. Resource catalogs include databases, repositories, knowledge bases, citation indices, software indices, browser-based data portals (web portals), etc. The NIAID Data Ecosystem is an environment to find and access and infectious and immune-mediated disease data, resources and computational tools to speed the development of diagnostics, therapeutics, and vaccines. The NIAID Data Ecosystem Discovery Portal harvests metadata from dataset repository and harmonizes them to this schema to enable easy cross-platform dataset searching and filtering.
ResourceCatalogs (collections of scientific information or research outputs) contained in the NIAID Data Ecosystem. Resource catalogs include databases, repositories, knowledge bases, citation indices, software indices, browser-based data portals (web portals), etc.
Resources which are related to the given resource catalog. These linkages are created via human curation.
Resource catalogs which are similar to the work, based on terms in the names, descriptions, authors, measurementTechniques, infectiousAgents, healthConditions, etc.
A resource catalog which uses the resource catalog.
How an associated work is related to the resource catalog.
Funding that supports (sponsors) the creation or maintenance of the resource catalog through some kind of financial contribution.
An organization associated with a creator or funder of a resource catalog
Unique identifier(s) for the grant(s) used to fund the resource catalog
A downloadable form of the resource catalog, at a specific location, in a specific format.
A downloadable form of the resource catalog.
A resource catalog where the resource catalog is published.
A citation or reference to a publication, dataset, or computational tool which uses the resource catalog. Examples: a publication which describes the creation of the resource catalog, a publication which uses information or content of the resource catalog for secondary analysis, or a computational tool which relies on the content of the resource catalog.
Whether the resource is IID domain specific or generalist.
Whether the work is IID domain specific or generalist
The creator/author of this work; equivalent to author
The resource has an API through which important content may be accessed.
The resource provides downloads of its contents. Options: All content (e.g. entire data builds, tools, etc.), Partial content (just data, or just tools, etc.), Record-level (individual records, or selections of records), No downloads (information is viewable but not downloadable, users must resort to copy/paste, screenshots, etc.), Prohibited (downloading, copy/pasting, screenshotting the data is prohibited).
Associated materials for the resource catalog, including data dictionaries and data limitation descriptions
The language of the content of the resource catalog.
Original publisher of the resource catalog metadata (like GenBank, ImmPort, etc.).
The place(s) which are the focus of the resource catalog.
The period of time covered within the resource catalog.
Data usage agreement, specifying the terms under which the content from the resource catalog can be used. Note that this is related to but distinct from the license.
Resource catalog identifier or accession number, such as a digital object identifier (DOI), etc.
The number of records, datasets, tools, items, pages, etc. in the resource catalog. Min/max estimates can be used in lieu of actual number. If completely unknown, set value = 0, and unitText = 'unknown'
The type of resource/resource catalog that best describes the work.
URL(s) to one or more dataset(s) contained in this resource
A citation object for a publication which is cited by the resource catalog (ie- is a derivative of the resource catalog), related to the resource catalog, or from which the resource catalog was based on (ie- is derived from).
Data, resource or tool catalog which houses the work
Role the person played in creating the resource catalog
A numeric value and unit for a property with potentially different units
An estimated maximum numberic value if the actual value is not known. Ignore if actual numeric value is known.
An estimated minumum numeric value if the actual value is not known. Ignore if actual numeric value is known.
A unit associated with the value. E.g.- 'records' for the number of records in a database.
potential ontology-linked resource types
A word, name, acronym, phrase, etc. with a formal definition. Often used in the context of category or subject classification, glossaries or dictionaries, product or creative work types, etc. Use the name property for the term being defined, use termCode if the term has an alpha-numeric code allocated, use description to provide the definition of the term.
Publications that cite the dataset, resource/resource catalog or computational tool.
Date the dataset, resource/resource catalog or computational tool has changed: most recent date of dateModified, datePublished, and dateCreated.
Digital object identifier (DOI) for the dataset, resource/resource catalog or computational tool.
Repository or source which contains the dataset, resource/resource catalog or computational tool.
Dataset, resource/resource catalog or computational tool which incorporate this dataset, resource/resource catalog or computational tool.
Dataset, resource/resource catalog or computational tool which are related to the given dataset, resource/resource catalog or computational tool.
Dataset, resource/resource catalog or computational tool which are similar to the dataset, resource/resource catalog or computational tool, based on terms in the names, descriptions, authors, measurementTechniques, infectiousAgents, healthConditions, etc.
How an associated work is related to the dataset, resource/resource catalog.
Topic of the dataset, resource/resource catalog or computational tool. This topic may be assigned by a human curator or through automated algorithms.
The number of records, datasets, tools, items, pages, etc. in the resource/resource catalog.
The resource/resource catalog provides download access to its content. Options: All content (e.g. entire data builds, tools, etc.), Partial content (just data, or just tools, etc.), Record-level (individual records, or selections of records), No downloads (information is viewable but not downloadable, users must resort to copy/paste, screenshots, etc.), Prohibited (downloading, copy/pasting, screenshotting the data is prohibited).
The resource/resource catalog provides API access to its content.
Infectious agent(s) / pathogen(s) which are the focus of the dataset, resource/resource catalog or computational tool (e.g. SARS-CoV-2).
The infectious disease(s) / health condition(s) which are the focus of the dataset, resource/resource catalog or computational tool (e.g. COVID-19, coronavirus).
Funding that supports (sponsors) the collection of a dataset, resource/resource catalog or computational tool through some kind of financial contribution.
A downloadable form of the dataset, resource/resource catalog, at a specific location, in a specific format.
Species(es) from which dataset has been collected, or is the focus of a resource/resource catalog, or for which the tool was designed or applied.
A technique, method or technology used in an Observation, StatisticalVariable or Dataset (or DataDownload, DataCatalog), corresponding to the method used for measuring the corresponding variable(s) (for datasets, described using variableMeasured; for Observation, a StatisticalVariable). For example, if variableMeasured is: molecule concentration, measurementTechnique could be: "mass spectrometry" or "nmr spectroscopy" or "colorimetry" or "immunofluorescence". If the variableMeasured is "depression rating", the measurementTechnique could be "Zung Scale" or "HAM-D" or "Beck Depression Inventory".
The variableMeasured property can indicate (repeated as necessary) the variables that are measured in some dataset, either described as text or as pairs of identifier and description using PropertyValue, or more explicitly as a StatisticalVariable.
The curator who generated the metadata annotation.
The original name or term that was provided in the metadata.
A boolean indicating whether or not a Defined Term was curated by an annotator (true) or programmatically generated (false).