{"configurations":[{"id":"bto","reasoner":"none","oboSlims":false,"is_foundary":true,"ontology_purl":"http://purl.obolibrary.org/obo/bto.obo","creator":["Christian-Alexander Dudek"],"preferredPrefix":"BTO","title":"BRENDA Tissue Ontology","description":"The Brenda tissue ontology is a structured controlled vocabulary eastablished to identify the source of an enzyme cited in the Brenda enzyme database. It comprises terms of tissues, cell lines, cell types and cell cultures from uni- and multicellular organisms. 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Licensed under CC-BY-4.0.","uri":"http://www.ebi.ac.uk/chebi","homepage":"http://www.ebi.ac.uk/chebi","mailing_list":"amalik@ebi.ac.uk","label_property":"https://www.w3.org/2000/01/rdf-schema#label","definition_property":["http://purl.org/dc/terms/description"],"synonym_property":["http://www.geneontology.org/formats/oboInOwl#hasExactSynonym","http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym","http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym","http://www.geneontology.org/formats/oboInOwl#hasCloseSynonym"],"hierarchical_property":["https://www.w3.org/2000/01/rdf-schema#subClassOf"],"hidden_property":[],"base_uri":["http://purl.obolibrary.org/obo/CHEBI_"]},{"id":"civic.gid","reasoner":"none","oboSlims":false,"is_foundary":false,"ontology_purl":"https://w3id.org/biopragmatics/resources/civic.gid/civic.gid.obo","creator":["Malachi Griffith"],"preferredPrefix":"civic.gid","title":"CIViC gene","description":"A CIViC Gene Summary is created to provide a high-level overview of clinical relevance of cancer variants for the gene. 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Gene Summaries include relevant cancer subtypes, specific treatments for the gene’s associated variants, pathway interactions, functional alterations caused by the variants in the gene, and normal/abnormal functions of the gene with associated roles in oncogenesis Licensed under CC0-1.0.","uri":"https://civicdb.org/","homepage":"https://civicdb.org/","mailing_list":"help@civicdb.org","label_property":"https://www.w3.org/2000/01/rdf-schema#label","definition_property":["http://purl.org/dc/terms/description"],"synonym_property":["http://www.geneontology.org/formats/oboInOwl#hasExactSynonym","http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym","http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym","http://www.geneontology.org/formats/oboInOwl#hasCloseSynonym"],"hierarchical_property":["https://www.w3.org/2000/01/rdf-schema#subClassOf"],"hidden_property":[],"base_uri":["https://civicdb.org/links/gene/"]},{"id":"eupath","reasoner":"none","oboSlims":false,"is_foundary":true,"ontology_purl":"http://purl.obolibrary.org/obo/eupath.owl","creator":["Jie Zheng"],"preferredPrefix":"EUPATH","title":"VEuPathDB ontology","description":"The VEuPathDB ontology is an application ontology developed to encode our understanding of what data is about in the public resources developed and maintained by the Eukaryotic Pathogen, Host and Vector Genomics Resource (VEuPathDB; https://veupathdb.org). The VEuPathDB ontology was previously named the EuPathDB ontology prior to EuPathDB joining with VectorBase.The ontology was built based on the Ontology of Biomedical Investigations (OBI) with integration of other OBO ontologies such as PATO, OGMS, DO, etc. as needed for coverage. Currently the VEuPath ontology is primarily intended to be used for support of the VEuPathDB sites. Terms with VEuPathDB ontology IDs that are not specific to VEuPathDB will be submitted to OBO Foundry ontologies for subsequent import and replacement of those terms when they are available. Licensed under CC-BY-4.0.","uri":"https://github.com/VEuPathDB-ontology/VEuPathDB-ontology","homepage":"https://github.com/VEuPathDB-ontology/VEuPathDB-ontology","mailing_list":"jiezhen@med.umich.edu","label_property":"https://www.w3.org/2000/01/rdf-schema#label","definition_property":["http://purl.org/dc/terms/description"],"synonym_property":["http://www.geneontology.org/formats/oboInOwl#hasExactSynonym","http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym","http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym","http://www.geneontology.org/formats/oboInOwl#hasCloseSynonym"],"hierarchical_property":["https://www.w3.org/2000/01/rdf-schema#subClassOf"],"hidden_property":[],"base_uri":["http://purl.obolibrary.org/obo/EUPATH_"]},{"id":"flybase","reasoner":"none","oboSlims":false,"is_foundary":false,"ontology_purl":"https://w3id.org/biopragmatics/resources/flybase/flybase.obo","creator":["Victoria K. Jenkins"],"preferredPrefix":"FlyBase","title":"FlyBase Gene","description":"FlyBase is the database of the Drosophila Genome Projects and of associated literature. Licensed under CC-BY-4.0.","uri":"https://bioentity.link/","homepage":"https://bioentity.link/","mailing_list":"vjenkins@morgan.harvard.edu","label_property":"https://www.w3.org/2000/01/rdf-schema#label","definition_property":["http://purl.org/dc/terms/description"],"synonym_property":["http://www.geneontology.org/formats/oboInOwl#hasExactSynonym","http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym","http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym","http://www.geneontology.org/formats/oboInOwl#hasCloseSynonym"],"hierarchical_property":["https://www.w3.org/2000/01/rdf-schema#subClassOf"],"hidden_property":[],"base_uri":["https://flybase.org/reports/"]},{"id":"go","reasoner":"none","oboSlims":false,"is_foundary":true,"ontology_purl":"http://purl.obolibrary.org/obo/go.obo","creator":["Suzi Aleksander"],"preferredPrefix":"GO","title":"Gene Ontology","description":"The Gene Ontology project provides a controlled vocabulary to describe gene and gene product attributes in any organism. Licensed under CC-BY-4.0.","uri":"http://geneontology.org/","homepage":"http://geneontology.org/","mailing_list":"suzia@stanford.edu","label_property":"https://www.w3.org/2000/01/rdf-schema#label","definition_property":["http://purl.org/dc/terms/description"],"synonym_property":["http://www.geneontology.org/formats/oboInOwl#hasExactSynonym","http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym","http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym","http://www.geneontology.org/formats/oboInOwl#hasCloseSynonym"],"hierarchical_property":["https://www.w3.org/2000/01/rdf-schema#subClassOf"],"hidden_property":[],"base_uri":["http://purl.obolibrary.org/obo/GO_"]},{"id":"hgnc","reasoner":"none","oboSlims":false,"is_foundary":false,"ontology_purl":"https://w3id.org/biopragmatics/resources/hgnc/hgnc.obo","creator":["Elspeth Bruford","Susan Tweedie"],"preferredPrefix":"hgnc","title":"HUGO Gene Nomenclature Committee","description":"The HGNC (HUGO Gene Nomenclature Committee) provides an approved gene name and symbol (short-form abbreviation) for each known human gene.  All approved symbols are stored in the HGNC database, and each symbol is unique. HGNC identifiers refer to records in the HGNC symbol database. Licensed under CC0-1.0.","uri":"http://www.genenames.org","homepage":"http://www.genenames.org","mailing_list":"hgnc@genenames.org","label_property":"https://www.w3.org/2000/01/rdf-schema#label","definition_property":["http://purl.org/dc/terms/description"],"synonym_property":["http://www.geneontology.org/formats/oboInOwl#hasExactSynonym","http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym","http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym","http://www.geneontology.org/formats/oboInOwl#hasCloseSynonym"],"hierarchical_property":["https://www.w3.org/2000/01/rdf-schema#subClassOf"],"hidden_property":[],"base_uri":["https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"]},{"id":"interpro","reasoner":"none","oboSlims":false,"is_foundary":true,"ontology_purl":"https://w3id.org/biopragmatics/resources/interpro/interpro.obo","creator":["Alex Bateman"],"preferredPrefix":"interpro","title":"InterPro","description":"InterPro is a database of protein families, domains and functional sites in which identifiable features found in known proteins can be applied to unknown protein sequences. Licensed under CC0-1.0.","uri":"http://www.ebi.ac.uk/interpro/index.html","homepage":"http://www.ebi.ac.uk/interpro/index.html","mailing_list":"interhelp@ebi.ac.uk","label_property":"https://www.w3.org/2000/01/rdf-schema#label","definition_property":["http://purl.org/dc/terms/description"],"synonym_property":["http://www.geneontology.org/formats/oboInOwl#hasExactSynonym","http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym","http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym","http://www.geneontology.org/formats/oboInOwl#hasCloseSynonym"],"hierarchical_property":["https://www.w3.org/2000/01/rdf-schema#subClassOf"],"hidden_property":[],"base_uri":["http://purl.obolibrary.org/obo/IPR_"]},{"id":"mgi","reasoner":"none","oboSlims":false,"is_foundary":false,"ontology_purl":"https://w3id.org/biopragmatics/resources/mgi/mgi.obo.gz","creator":["Joel Richardson"],"preferredPrefix":"MGI","title":"Mouse Genome Informatics","description":"The Mouse Genome Database (MGD) project includes data on gene characterization, nomenclature, mapping, gene homologies among mammals, sequence links, phenotypes, allelic variants and mutants, and strain data. Licensed under CC-BY-4.0.","uri":"http://www.informatics.jax.org/","homepage":"http://www.informatics.jax.org/","mailing_list":"joel.richardson@jax.org","label_property":"https://www.w3.org/2000/01/rdf-schema#label","definition_property":["http://purl.org/dc/terms/description"],"synonym_property":["http://www.geneontology.org/formats/oboInOwl#hasExactSynonym","http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym","http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym","http://www.geneontology.org/formats/oboInOwl#hasCloseSynonym"],"hierarchical_property":["https://www.w3.org/2000/01/rdf-schema#subClassOf"],"hidden_property":[],"base_uri":["http://www.informatics.jax.org/accession/MGI:"]},{"id":"orpha","reasoner":"none","oboSlims":false,"is_foundary":false,"ontology_purl":"http://www.orphadata.org/data/ORDO/ordo_orphanet.owl","creator":["Marc Hanauer"],"preferredPrefix":"ORPHA","title":"Orphanet","description":"Orphanet is a reference portal for information on rare diseases and orphan drugs. It’s aim is to help improve the diagnosis, care and treatment of patients with rare diseases. Licensed under CC-BY-4.0.","uri":"https://www.orpha.net","homepage":"https://www.orpha.net","mailing_list":"marc.hanauer@inserm.fr","label_property":"https://www.w3.org/2000/01/rdf-schema#label","definition_property":["http://purl.org/dc/terms/description"],"synonym_property":["http://www.geneontology.org/formats/oboInOwl#hasExactSynonym","http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym","http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym","http://www.geneontology.org/formats/oboInOwl#hasCloseSynonym"],"hierarchical_property":["https://www.w3.org/2000/01/rdf-schema#subClassOf"],"hidden_property":[],"base_uri":["http://www.orpha.net/ORDO/Orphanet_"]},{"id":"orphanet.ordo","reasoner":"none","oboSlims":false,"is_foundary":false,"ontology_purl":"http://www.orphadata.org/data/ORDO/ordo_orphanet.owl","creator":["Marc Hanauer"],"preferredPrefix":"orphanet.ordo","title":"Orphanet Rare Disease Ontology","description":"The Orphanet Rare Disease ontology (ORDO) is a structured vocabulary for rare diseases, capturing relationships between diseases, genes and other relevant features which will form a useful resource for the computational analysis of rare diseases.\nIt integrates a nosology (classification of rare diseases), relationships (gene-disease relations, epiemological data) and connections with other terminologies (MeSH, UMLS, MedDRA), databases (OMIM, UniProtKB, HGNC, ensembl, Reactome, IUPHAR, Geantlas) and classifications (ICD10). Licensed under CC-BY-4.0.","uri":"https://www.orpha.net","homepage":"https://www.orpha.net","mailing_list":"marc.hanauer@inserm.fr","label_property":"https://www.w3.org/2000/01/rdf-schema#label","definition_property":["http://purl.org/dc/terms/description"],"synonym_property":["http://www.geneontology.org/formats/oboInOwl#hasExactSynonym","http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym","http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym","http://www.geneontology.org/formats/oboInOwl#hasCloseSynonym"],"hierarchical_property":["https://www.w3.org/2000/01/rdf-schema#subClassOf"],"hidden_property":[],"base_uri":["http://www.orpha.net/ORDO/Orphanet_"]},{"id":"pharmgkb.disease","reasoner":"none","oboSlims":false,"is_foundary":false,"ontology_purl":"https://w3id.org/biopragmatics/resources/pharmgkb.disease/pharmgkb.disease.obo","creator":["Teri E Klein"],"preferredPrefix":"pharmgkb.disease","title":"PharmGKB Disease","description":"The PharmGKB database is a central repository for genetic, genomic, molecular and cellular phenotype data and clinical information about people who have participated in pharmacogenomics research studies. The data includes, but is not limited to, clinical and basic pharmacokinetic and pharmacogenomic research in the cardiovascular, pulmonary, cancer, pathways, metabolic and transporter domains. Licensed under CC-BY-SA-4.0.","uri":"http://www.pharmgkb.org/","homepage":"http://www.pharmgkb.org/","mailing_list":"feedback@clinpgx.org","label_property":"https://www.w3.org/2000/01/rdf-schema#label","definition_property":["http://purl.org/dc/terms/description"],"synonym_property":["http://www.geneontology.org/formats/oboInOwl#hasExactSynonym","http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym","http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym","http://www.geneontology.org/formats/oboInOwl#hasCloseSynonym"],"hierarchical_property":["https://www.w3.org/2000/01/rdf-schema#subClassOf"],"hidden_property":[],"base_uri":["http://www.pharmgkb.org/disease/"]},{"id":"pharmgkb.drug","reasoner":"none","oboSlims":false,"is_foundary":false,"ontology_purl":"https://w3id.org/biopragmatics/resources/pharmgkb.drug/pharmgkb.drug.obo","creator":["Teri E Klein"],"preferredPrefix":"pharmgkb.drug","title":"PharmGKB Drug","description":"The PharmGKB database is a central repository for genetic, genomic, molecular and cellular phenotype data and clinical information about people who have participated in pharmacogenomics research studies. The data includes, but is not limited to, clinical and basic pharmacokinetic and pharmacogenomic research in the cardiovascular, pulmonary, cancer, pathways, metabolic and transporter domains. Licensed under CC-BY-SA-4.0.","uri":"http://www.pharmgkb.org/","homepage":"http://www.pharmgkb.org/","mailing_list":"feedback@clinpgx.org","label_property":"https://www.w3.org/2000/01/rdf-schema#label","definition_property":["http://purl.org/dc/terms/description"],"synonym_property":["http://www.geneontology.org/formats/oboInOwl#hasExactSynonym","http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym","http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym","http://www.geneontology.org/formats/oboInOwl#hasCloseSynonym"],"hierarchical_property":["https://www.w3.org/2000/01/rdf-schema#subClassOf"],"hidden_property":[],"base_uri":["http://www.pharmgkb.org/drug/"]},{"id":"pharmgkb.gene","reasoner":"none","oboSlims":false,"is_foundary":false,"ontology_purl":"https://w3id.org/biopragmatics/resources/pharmgkb.gene/pharmgkb.gene.obo","creator":["Teri E Klein"],"preferredPrefix":"pharmgkb.gene","title":"PharmGKB Gene","description":"The PharmGKB database is a central repository for genetic, genomic, molecular and cellular phenotype data and clinical information about people who have participated in pharmacogenomics research studies. The data includes, but is not limited to, clinical and basic pharmacokinetic and pharmacogenomic research in the cardiovascular, pulmonary, cancer, pathways, metabolic and transporter domains. Licensed under CC-BY-SA-4.0.","uri":"http://www.pharmgkb.org/","homepage":"http://www.pharmgkb.org/","mailing_list":"feedback@clinpgx.org","label_property":"https://www.w3.org/2000/01/rdf-schema#label","definition_property":["http://purl.org/dc/terms/description"],"synonym_property":["http://www.geneontology.org/formats/oboInOwl#hasExactSynonym","http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym","http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym","http://www.geneontology.org/formats/oboInOwl#hasCloseSynonym"],"hierarchical_property":["https://www.w3.org/2000/01/rdf-schema#subClassOf"],"hidden_property":[],"base_uri":["http://www.pharmgkb.org/gene/"]},{"id":"pharmgkb.pathways","reasoner":"none","oboSlims":false,"is_foundary":false,"ontology_purl":"https://w3id.org/biopragmatics/resources/pharmgkb.pathways/pharmgkb.pathways.obo","creator":["Teri E Klein"],"preferredPrefix":"pharmgkb.pathways","title":"PharmGKB pathway","description":"The PharmGKB database is a central repository for genetic, genomic, molecular and cellular phenotype data and clinical information about people who have participated in pharmacogenomics research studies. The data includes, but is not limited to, clinical and basic pharmacokinetic and pharmacogenomic research in the cardiovascular, pulmonary, cancer, pathways, metabolic and transporter domains. \nPharmGKB Pathways are drug centric, gene based, interactive pathways which focus on candidate genes and gene groups and associated genotype and phenotype data of relevance for pharmacogenetic and pharmacogenomic studies. Licensed under CC-BY-SA-4.0.","uri":"http://www.pharmgkb.org/","homepage":"http://www.pharmgkb.org/","mailing_list":"feedback@clinpgx.org","label_property":"https://www.w3.org/2000/01/rdf-schema#label","definition_property":["http://purl.org/dc/terms/description"],"synonym_property":["http://www.geneontology.org/formats/oboInOwl#hasExactSynonym","http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym","http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym","http://www.geneontology.org/formats/oboInOwl#hasCloseSynonym"],"hierarchical_property":["https://www.w3.org/2000/01/rdf-schema#subClassOf"],"hidden_property":[],"base_uri":["http://www.pharmgkb.org/pathway/"]},{"id":"pombase","reasoner":"none","oboSlims":false,"is_foundary":false,"ontology_purl":"https://w3id.org/biopragmatics/resources/pombase/pombase.obo","creator":["Valerie Wood"],"preferredPrefix":"pombase","title":"PomBase","description":"PomBase is a model organism database established to provide access to molecular data and biological information for the fission yeast Schizosaccharomyces pombe. It encompasses annotation of genomic sequence and features, comprehensive manual literature curation and genome-wide data sets. Licensed under CC-BY-4.0.","uri":"https://www.pombase.org/","homepage":"https://www.pombase.org/","mailing_list":"vw253@cam.ac.uk","label_property":"https://www.w3.org/2000/01/rdf-schema#label","definition_property":["http://purl.org/dc/terms/description"],"synonym_property":["http://www.geneontology.org/formats/oboInOwl#hasExactSynonym","http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym","http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym","http://www.geneontology.org/formats/oboInOwl#hasCloseSynonym"],"hierarchical_property":["https://www.w3.org/2000/01/rdf-schema#subClassOf"],"hidden_property":[],"base_uri":["https://www.pombase.org/gene/"]},{"id":"reactome","reasoner":"none","oboSlims":false,"is_foundary":false,"ontology_purl":"https://w3id.org/biopragmatics/resources/reactome/reactome.obo","creator":["Peter D'Eustachio"],"preferredPrefix":"reactome","title":"Reactome","description":"The Reactome project is a collaboration to develop a curated resource of core pathways and reactions in human biology. Licensed under CC0-1.0.","uri":"https://www.reactome.org/","homepage":"https://www.reactome.org/","mailing_list":"deustp01@med.nyu.edu","label_property":"https://www.w3.org/2000/01/rdf-schema#label","definition_property":["http://purl.org/dc/terms/description"],"synonym_property":["http://www.geneontology.org/formats/oboInOwl#hasExactSynonym","http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym","http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym","http://www.geneontology.org/formats/oboInOwl#hasCloseSynonym"],"hierarchical_property":["https://www.w3.org/2000/01/rdf-schema#subClassOf"],"hidden_property":[],"base_uri":["https://reactome.org/content/detail/"]},{"id":"rgd","reasoner":"none","oboSlims":false,"is_foundary":false,"ontology_purl":"https://w3id.org/biopragmatics/resources/rgd/rgd.obo","creator":["Converted to OWL by Charles Tapley Hoyt (cthoyt@gmail.com), no primary contact information is available."],"preferredPrefix":"rgd","title":"Rat Genome Database","description":"Rat Genome Database seeks to collect, consolidate, and integrate rat genomic and genetic data with curated functional and physiological data and make these data widely available to the scientific community. This collection references genes. Licensed under CC-BY-4.0.","uri":"http://rgd.mcw.edu/","homepage":"http://rgd.mcw.edu/","mailing_list":null,"label_property":"https://www.w3.org/2000/01/rdf-schema#label","definition_property":["http://purl.org/dc/terms/description"],"synonym_property":["http://www.geneontology.org/formats/oboInOwl#hasExactSynonym","http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym","http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym","http://www.geneontology.org/formats/oboInOwl#hasCloseSynonym"],"hierarchical_property":["https://www.w3.org/2000/01/rdf-schema#subClassOf"],"hidden_property":[],"base_uri":["http://rgd.mcw.edu/rgdweb/report/gene/main.html?id="]},{"id":"rhea","reasoner":"none","oboSlims":false,"is_foundary":false,"ontology_purl":"https://w3id.org/biopragmatics/resources/rhea/rhea.obo","creator":["Converted to OWL by Charles Tapley Hoyt (cthoyt@gmail.com), no primary contact information is available."],"preferredPrefix":"rhea","title":"Rhea reaction","description":"Rhea is an expert-curated knowledgebase of chemical and transport reactions of biological interest. Enzyme-catalyzed and spontaneously occurring reactions are curated from peer-reviewed literature and represented in a computationally tractable manner by using the ChEBI (Chemical Entities of Biological Interest) ontology to describe reaction participants.\n\nRhea covers the reactions described by the IUBMB Enzyme Nomenclature as well as many additional reactions and can be used for enzyme annotation, genome-scale metabolic modeling and omics-related analyses. Rhea is the standard for enzyme and transporter annotation in UniProtKB. 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