aberowl: availability: alternate_providers: irrelevant contact: missing description: required example: irrelevant fair: true fair_note: null homepage: required license: missing name: required pattern: missing provider: irrelevant search: true synonyms: missing version: present contact: email: ali.syed@kaust.edu.sa github: aliraza995 name: Ali Syed orcid: 0000-0002-5103-9058 description: AberOWL is a framework for ontology-based access to biological data. It consists of a repository of bio-ontologies, a set of webservices which provide access to OWL(-EL) reasoning over the ontologies, and several frontends which utilise the ontology repository and reasoning services to provide access to specific biological datasets. download: http://aber-owl.net/api/ontology/?format=json example: CHEBI homepage: http://aber-owl.net license: See https://github.com/biopragmatics/bioregistry/issues/339 name: AberOWL prefix: aberowl provider_uri_format: http://aber-owl.net/ontology/$1 resolver_type: lookup resolver_uri_format: http://aber-owl.net/ontology/$1/#/Browse/ agroportal: availability: alternate_providers: irrelevant contact: present description: required example: irrelevant fair: false fair_note: The API for AgroPortal requires authentication homepage: required license: present name: required pattern: missing provider: irrelevant search: false synonyms: missing version: present contact: email: clement.jonquet@inrae.fr github: jonquet name: Clement Jonquet orcid: 0000-0002-2404-1582 description: A vocabulary and ontology repository for agronomy and related domains. example: ENVO homepage: http://agroportal.lirmm.fr license: See https://github.com/biopragmatics/bioregistry/issues/336 name: AgroPortal prefix: agroportal provider_uri_format: http://agroportal.lirmm.fr/ontologies/$1 biolink: availability: alternate_providers: missing contact: missing description: missing example: missing fair: true fair_note: null homepage: missing license: present name: required pattern: missing provider: required search: false synonyms: missing version: missing bioregistry_prefix: biolink contact: email: deepak.unni3@lbl.gov github: deepakunni3 name: Deepak Unni orcid: 0000-0002-3583-7340 description: A modeling paradigm-specific registry of prefixes and their URL expansions download: https://raw.githubusercontent.com/biolink/biolink-model/master/biolink-model.yaml example: doi homepage: https://github.com/biolink/biolink-model license: Apache 2.0 name: Biolink Model Registry prefix: biolink short_name: Biolink bioportal: availability: alternate_providers: irrelevant contact: present description: required example: irrelevant fair: false fair_note: The API for BioPortal requires authentication homepage: required license: missing name: required pattern: missing provider: irrelevant search: false synonyms: missing version: required bioregistry_prefix: bioportal contact: email: jgraybeal@stanford.edu github: graybeal name: John Graybeal orcid: 0000-0001-6875-5360 description: The BioPortal is a less stringent registry of biomedical ontologies than the OBO Foundry example: CHEBI homepage: https://bioportal.bioontology.org/ license: See https://github.com/biopragmatics/bioregistry/issues/337 name: BioPortal Prefixes prefix: bioportal provider_uri_format: https://bioportal.bioontology.org/ontologies/$1 short_name: BioPortal bioregistry: availability: alternate_providers: present contact: present description: required example: required fair: true fair_note: null homepage: required license: present name: required pattern: present provider: present search: false synonyms: present version: present bioregistry_prefix: bioregistry contact: email: cthoyt@gmail.com github: cthoyt name: Charles Tapley Hoyt orcid: 0000-0003-4423-4370 description: The Bioregistry is integrative meta-registry of biological databases, ontologies, and nomenclatures that is backed by an open database. download: https://bioregistry.io/api/registry/ example: chebi homepage: https://bioregistry.io license: CC0 name: Bioregistry prefix: bioregistry provider_uri_format: https://bioregistry.io/registry/$1 resolver_type: resolver resolver_uri_format: https://bioregistry.io/$1:$2 cellosaurus: availability: alternate_providers: missing contact: missing description: missing example: missing fair: true fair_note: Data is available but requires custom parser homepage: required license: missing name: required pattern: missing provider: required search: false synonyms: missing version: missing bioregistry_prefix: cellosaurus.resource contact: email: Amos.Bairoch@sib.swiss github: AmosBairoch name: Amos Bairoch orcid: 0000-0003-2826-6444 description: The set of prefixes used in the Cellosaurus resource example: 4DN homepage: https://web.expasy.org/cellosaurus/ license: CC BY 4.0 name: Cellosaurus Registry prefix: cellosaurus short_name: Cellosaurus cheminf: availability: alternate_providers: missing contact: missing description: missing example: missing fair: false fair_note: No additional metadata included besides name in ontology homepage: missing license: missing name: required pattern: missing provider: missing search: false synonyms: missing version: missing bioregistry_prefix: cheminf contact: email: egon.willighagen@gmail.com github: egonw name: Egon Willighagen orcid: 0000-0001-7542-0286 description: Contains entries for various database identifiers example: '000140' homepage: https://github.com/semanticchemistry/semanticchemistry license: CC BY 3.0 name: Chemical Information Ontology prefix: cheminf provider_uri_format: https://www.ebi.ac.uk/ols/ontologies/cheminf/terms?iri=http%3A%2F%2Fsemanticscience.org%2Fresource%2FCHEMINF_$1 short_name: CHEMINF cropoct: availability: alternate_providers: irrelevant contact: missing description: missing example: irrelevant fair: true fair_note: null homepage: irrelevant* license: missing name: required pattern: missing provider: irrelevant search: true synonyms: missing version: missing contact: email: e.arnaud@cgiar.org github: elizabetharnaud name: Elizabeth Arnaud orcid: 0000-0002-6020-5919 description: The Crop Ontology (CO) current objective is to compile validated concepts along with their inter-relationships on anatomy, structure and phenotype of Crops, on trait measurement and methods as well as on Germplasm with the multi-crop passport terms download: https://github.com/bioversity/Crop-Ontology/blob/master/public/dump.json example: CO_010 homepage: https://www.cropontology.org license: CC BY 4.0 name: Crop Ontology Curation Tool prefix: cropoct provider_uri_format: https://www.cropontology.org/ontology/$1 ecoportal: availability: alternate_providers: irrelevant contact: present description: required example: irrelevant fair: false fair_note: The API for EcoPortal requires authentication homepage: present license: present name: required pattern: missing provider: irrelevant search: false synonyms: missing version: present contact: email: xeni.kechagioglou@lifewatch.eu github: xeniacs name: Xeni Kechagioglou orcid: 0000-0003-4494-839X description: The LifeWatch ERIC repository of semantic resources for the ecological domain. example: ALIENSPECIES homepage: http://ecoportal.lifewatch.eu license: See https://github.com/biopragmatics/bioregistry/issues/338 name: EcoPortal prefix: ecoportal provider_uri_format: http://ecoportal.lifewatch.eu/ontologies/$1 fairsharing: availability: alternate_providers: missing contact: required description: required example: missing fair: false fair_note: The API for FAIRsharing requires authentication homepage: required license: missing name: required pattern: missing provider: missing search: true synonyms: missing version: missing bioregistry_prefix: fairsharing contact: email: allyson.lister@oerc.ox.ac.uk github: allysonlister name: Allyson Lister orcid: 0000-0002-7702-4495 description: A curated, informative and educational resource on data and metadata standards, inter-related to databases and data policies. example: FAIRsharing.62qk8w homepage: https://fairsharing.org/ license: CC BY-SA 4.0 logo_url: https://api.fairsharing.org/img/fairsharing-attribution.svg name: FAIRSharing prefix: fairsharing provider_uri_format: https://fairsharing.org/$1 go: availability: alternate_providers: present contact: missing description: present example: present fair: true fair_note: null homepage: present license: missing name: required pattern: present provider: present search: false synonyms: missing version: missing bioregistry_prefix: go.resource contact: email: cjmungall@lbl.gov github: cmungall name: Chris Mungall orcid: 0000-0002-6601-2165 description: A database-specific registry supporting curation in the Gene Ontology download: https://raw.githubusercontent.com/geneontology/go-site/master/metadata/db-xrefs.yaml example: CHEBI homepage: http://geneontology.org/ license: CC BY 4.0 name: Gene Ontology Registry prefix: go short_name: GO miriam: availability: alternate_providers: present contact: missing description: required example: required fair: true fair_note: null homepage: required license: missing name: required pattern: required provider: required search: true synonyms: missing version: missing bioregistry_prefix: miriam contact: email: hhe@ebi.ac.uk github: hHermjakob name: Henning Hermjakob orcid: 0000-0001-8479-0262 description: The Identifiers.org Resolution Service provides consistent access to life science data using Compact Identifiers. Compact Identifiers consist of an assigned unique prefix and a local provider designated accession number (prefix:accession). download: https://registry.api.identifiers.org/resolutionApi/getResolverDataset example: chebi homepage: https://identifiers.org license: CC BY 4.0 logo_url: https://identifiers.org/identifiers_logo.c7cbd962.png name: Identifiers.org prefix: miriam provider_uri_format: https://registry.identifiers.org/registry/$1 resolver_type: resolver resolver_uri_format: https://identifiers.org/$1:$2 n2t: availability: alternate_providers: present contact: missing description: required example: required fair: true fair_note: null homepage: required license: missing name: required pattern: required provider: required search: false synonyms: present version: missing bioregistry_prefix: n2t contact: email: jak@ucop.edu github: jkunze name: John Kunze orcid: 0000-0001-7604-8041 description: An ARK resolver as well as resolver built with common prefixes as in Identifiers.org download: https://n2t.net/e/n2t_full_prefixes.yaml example: chebi homepage: https://n2t.net license: CC0 logo_url: https://n2t.net/e/images/n2t_net_logo.png name: Name-to-Thing prefix: n2t provider_uri_format: 'https://n2t.net/$1:' resolver_type: resolver resolver_uri_format: https://n2t.net/$1:$2 ncbi: availability: alternate_providers: missing contact: missing description: missing example: required fair: false fair_note: Requires web scraping homepage: required license: missing name: required pattern: missing provider: missing search: false synonyms: missing version: missing bioregistry_prefix: ncbi.resource contact: email: gb-admin@ncbi.nlm.nih.gov github: null name: GenBank Support orcid: null description: A database-specific registry supporting curation in the NCBI GenBank and related NCBI resources example: ECOCYC homepage: https://www.ncbi.nlm.nih.gov/genbank/collab/db_xref/ license: See https://github.com/biopragmatics/bioregistry/issues/342 name: National Center for Biotechnology Information Registry prefix: ncbi short_name: NCBI obofoundry: availability: alternate_providers: missing contact: required description: required example: missing fair: true fair_note: null homepage: required license: required name: required pattern: missing provider: missing search: false synonyms: missing version: missing contact: email: cjmungall@lbl.gov github: cmungall name: Chris Mungall orcid: 0000-0002-6601-2165 description: The mission of the OBO Foundry is to develop a family of interoperable ontologies that are both logically well-formed and scientifically accurate. download: http://www.obofoundry.org/registry/ontologies.yml example: chebi homepage: http://www.obofoundry.org/ license: CC0 logo_url: https://obofoundry.org/images/foundrylogo.png name: OBO Foundry prefix: obofoundry provider_uri_format: http://www.obofoundry.org/ontology/$1 resolver_type: resolver resolver_uri_format: http://purl.obolibrary.org/obo/$1_$2 ols: availability: alternate_providers: irrelevant contact: present description: required example: irrelevant fair: true fair_note: null homepage: present license: required name: required pattern: missing provider: irrelevant search: true synonyms: missing version: present contact: email: henriette007@ebi.ac.uk github: henrietteharmse name: Henriette Harmse orcid: 0000-0001-7251-9504 description: 'The Ontology Lookup Service (OLS) is a repository for biomedical ontologies that aims to provide a single point of access to the latest ontology versions. ' example: chebi homepage: https://www.ebi.ac.uk/ols license: See https://github.com/biopragmatics/bioregistry/issues/340 logo_url: https://www.ebi.ac.uk/ols/img/OLS_logo_2017.png name: Ontology Lookup Service prefix: ols provider_uri_format: https://www.ebi.ac.uk/ols/ontologies/$1 short_name: OLS ontobee: availability: alternate_providers: irrelevant contact: required description: required example: irrelevant fair: false fair_note: No API available, data download requires web scraping homepage: required license: missing name: required pattern: missing provider: irrelevant search: false synonyms: missing version: missing contact: email: yongqunh@med.umich.edu github: yongqunh name: Yongqun Oliver He orcid: 0000-0001-9189-9661 description: ' Ontobee is aimed to facilitate ontology data sharing, visualization, query, integration, and analysis.' example: AGRO homepage: http://www.ontobee.org/ license: See https://github.com/biopragmatics/bioregistry/issues/341 name: OntoBee prefix: ontobee provider_uri_format: http://www.ontobee.org/ontology/$1 resolver_type: lookup resolver_uri_format: http://www.ontobee.org/ontology/$1?iri=http://purl.obolibrary.org/obo/$1_$2 prefixcc: availability: alternate_providers: present contact: missing description: missing example: missing fair: true fair_note: null homepage: missing license: missing name: missing pattern: missing provider: required search: false synonyms: missing version: missing contact: email: richard@cyganiak.de github: cygri name: Richard Cyganiak orcid: 0000-0001-9950-5209 description: A web-developer centric archive of prefixes and URI prefixes download: https://prefix.cc/context.jsonld example: foaf homepage: https://prefix.cc/ license: CC0 name: Prefix.cc prefix: prefixcc provider_uri_format: https://prefix.cc/$1 prefixcommons: availability: alternate_providers: required contact: missing description: present example: present fair: true fair_note: null homepage: present license: missing name: required pattern: present provider: present search: true synonyms: present version: missing contact: email: michel.dumontier@gmail.com github: micheldumontier name: Michel Dumontier orcid: 0000-0003-4727-9435 description: A registry of commonly used prefixes in the life sciences and linked data download: https://raw.githubusercontent.com/prefixcommons/biocontext/master/registry/commons_context.jsonld example: CHEBI homepage: https://prefixcommons.org license: missing name: Prefix Commons prefix: prefixcommons provider_uri_format: https://prefixcommons.org/?q=$1 scholia: availability: alternate_providers: missing contact: missing description: missing example: missing fair: false fair_note: There is not a structured resource that lists what prefixes are covered by Scholia homepage: missing license: missing name: missing pattern: missing provider: missing search: false synonyms: missing version: missing bioregistry_prefix: scholia.resource contact: email: faan@dtu.dk github: fnielsen name: "Finn \xC5rup Nielsen" orcid: 0000-0001-6128-3356 description: A frontend to Wikidata example: doi homepage: https://scholia.toolforge.org/ license: CC0 name: Scholia prefix: scholia resolver_type: lookup resolver_uri_format: https://scholia.toolforge.org/$1/$2 uniprot: availability: alternate_providers: missing contact: missing description: missing example: missing fair: true fair_note: null homepage: required license: missing name: required pattern: missing provider: required search: true synonyms: missing version: missing bioregistry_prefix: uniprot.resource contact: email: agb@ebi.ac.uk github: bateman-research name: Alex Bateman orcid: 0000-0002-6982-4660 description: The cross-references section of UniProtKB entries displays explicit and implicit links to databases such as nucleotide sequence databases, model organism databases and genomics and proteomics resources. download: https://www.uniprot.org/database/?format=rdf example: '0174' homepage: https://www.uniprot.org/database/ license: CC BY 4.0 name: UniProt Cross-ref database prefix: uniprot provider_uri_format: https://www.uniprot.org/database/DB-$1 short_name: UniProt wikidata: availability: alternate_providers: present contact: present* description: required example: present fair: true fair_note: null homepage: present license: present* name: required pattern: present provider: present search: true synonyms: missing version: present* bioregistry_prefix: wikidata contact: email: info@wikidata.org github: null name: WikiData Support orcid: null description: An open, community-curated knowledgebase that contains several properties corresponding to resources listed in other biomedical registries. example: P683 homepage: https://www.wikidata.org license: CC0 logo_url: https://upload.wikimedia.org/wikipedia/commons/6/66/Wikidata-logo-en.svg name: Wikidata Property prefix: wikidata provider_uri_format: https://www.wikidata.org/wiki/Property:$1 short_name: Wikidata