Cell Ontology
The Cell Ontology is a structured controlled vocabulary for cell types in animals.
[{"category": "Individual", "contact_details": [{"contact_type": "email", "value": "addiehl@buffalo.edu"}, {"contact_type": "github", "value": "addiehl"}], "label": "Alexander Diehl", "orcid": "0000-0001-9990-8331"}]
[{"category": "OntologyProduct", "description": "Complete ontology, plus inter-ontology axioms, and imports modules", "format": "owl", "id": "cl.owl", "name": "Main CL OWL edition", "product_file_size": 64529552, "product_url": "http://purl.obolibrary.org/obo/cl.owl"}, {"category": "OntologyProduct", "description": "Complete ontology, plus inter-ontology axioms, and imports modules merged in", "format": "obo", "id": "cl.obo", "name": "CL obo format edition", "product_file_size": 16759306, "product_url": "http://purl.obolibrary.org/obo/cl.obo"}, {"category": "OntologyProduct", "description": "Complete ontology, plus inter-ontology axioms, and imports modules merged in", "format": "json", "id": "cl.json", "name": "CL OBOGraph-JSON format edition", "product_file_size": 37217868, "product_url": "http://purl.obolibrary.org/obo/cl.json"}, {"category": "OntologyProduct", "description": "Basic version, no inter-ontology axioms", "format": "owl", "id": "cl.cl-basic.owl", "name": "Basic CL", "product_file_size": 8509431, "product_url": "http://purl.obolibrary.org/obo/cl/cl-basic.owl"}, {"category": "OntologyProduct", "description": "Basic version, no inter-ontology axioms", "format": "obo", "id": "cl.cl-basic.obo", "name": "Basic CL (OBO version)", "product_file_size": 2918556, "product_url": "http://purl.obolibrary.org/obo/cl/cl-basic.obo"}, {"category": "OntologyProduct", "description": "Basic version, no inter-ontology axioms", "format": "json", "id": "cl.cl-basic.json", "name": "Basic CL (OBOGraph-JSON version)", "product_file_size": 4955842, "product_url": "http://purl.obolibrary.org/obo/cl/cl-basic.json"}, {"category": "OntologyProduct", "description": "complete CL but with no imports or external axioms", "format": "owl", "id": "cl.cl-base.owl", "name": "CL base module", "product_file_size": 11471475, "product_url": "http://purl.obolibrary.org/obo/cl/cl-base.owl"}, {"category": "OntologyProduct", "description": "complete CL but with no imports or external axioms", "format": "obo", "id": "cl.cl-base.obo", "name": "CL base module (OBO version)", "product_file_size": 3317655, "product_url": "http://purl.obolibrary.org/obo/cl/cl-base.obo"}, {"category": "OntologyProduct", "description": "complete CL but with no imports or external axioms", "format": "json", "id": "cl.cl-base.json", "name": "CL base module (OBOGraph-JSON version)", "product_file_size": 6597689, "product_url": "http://purl.obolibrary.org/obo/cl/cl-base.json"}, {"category": "GraphProduct", "description": "Turnkey neo4j distributions that deploy fully-indexed, standalone UBKG instances as neo4j graph databases, running in a Docker container. Requires UMLS API key to access.", "dump_format": "neo4j", "id": "ubkg.neo4j", "name": "UBKG Neo4j Docker Distribution", "original_source": ["hgnc", "loinc", "icd10", "snomedct", "uberon", "pato", "cl", "doid", "obi", "obib", "edam", "hsapdv", "sbo", "mi", "chebi", "mp", "ordo", "uniprot", "uo", "mondo", "efo", "pgo", "gencode", "reactome", "hra", "hubmap", "sennet", "stellar", "dct", "clinvar", "connectivitymap", "hp", "mp", "msigdb", "wikipathways", "clingen", "string", "4dn", "erccrbp", "erccreg", "faldo", "glycordf", "glycocoo", "gtex", "kidsfirst", "lincs", "motrpac", "mw", "npo", "sckan", "disgenet", "biomarker", "opentargets"], "product_url": "https://ubkg-downloads.xconsortia.org/", "secondary_source": ["ubkg"]}, {"category": "GraphProduct", "description": "Ontology CSV files that can be imported into a neo4j instance to create a UBKG database. Requires UMLS API key to access.", "format": "csv", "id": "ubkg.csv", "name": "UBKG Ontology CSV Files", "original_source": ["hgnc", "loinc", "icd10", "snomedct", "uberon", "pato", "cl", "doid", "obi", "obib", "edam", "hsapdv", "sbo", "mi", "chebi", "mp", "ordo", "uniprot", "uo", "mondo", "efo", "pgo", "gencode", "reactome", "hra", "hubmap", "sennet", "stellar", "dct", "clinvar", "connectivitymap", "hp", "mp", "msigdb", "wikipathways", "clingen", "string", "4dn", "erccrbp", "erccreg", "faldo", "glycordf", "glycocoo", "gtex", "kidsfirst", "lincs", "motrpac", "mw", "npo", "sckan", "disgenet", "biomarker", "opentargets"], "product_url": "https://ubkg-downloads.xconsortia.org/", "secondary_source": ["ubkg"]}, {"category": "GraphProduct", "description": "The SPOKE knowledge graph containing nodes and edges from multiple biomedical data sources.", "id": "spoke.graph", "name": "SPOKE Graph", "original_source": ["ncbigene", "pubmed", "mesh", "pid", "doid", "diseases", "drugcentral", "go", "gwascatalog", "reactome", "lincs-l1000", "uberon", "wikipathways", "bindingdb", "drugbank", "sider", "bgee", "uniprot", "string", "omim", "chembl", "foodb", "civic", "gdsc", "clinicaltrialsgov", "hpa", "cl", "kegg", "metacyc", "bv-brc", "ncbitaxon", "pathophenodb", "pfam", "interpro", "protcid"], "secondary_source": ["spoke"]}, {"category": "GraphProduct", "description": "PheKnowLator graph files, including subsets with and without inverse relations.", "format": "owl", "id": "pheknowlator.graph", "latest_version": "current_build", "name": "PheKnowLator graph", "original_source": ["cl", "clo", "chebi", "go", "hp", "mondo", "pw", "pr", "ro", "so", "uberon", "vo", "bioportal", "clinvar", "ctd", "disgenet", "ensembl", "genemania", "hgnc", "hpa", "ncbigene", "medgen", "reactome", "string", "uniprot"], "product_url": "https://console.cloud.google.com/storage/browser/pheknowlator/current_build/knowledge_graphs?pageState=(%22StorageObjectListTable%22:(%22f%22:%22%255B%255D%22))&inv=1&invt=Ab5_1Q&project=pheknowlator", "secondary_source": ["pheknowlator"], "versions": ["v1.0.0", "v2.0.0", "v2.1.0", "v3.0.2", "v4.0.0", "current_build"]}, {"description": "The MechRepoNet knowledge graph in its original format", "id": "mechreponet.kg", "name": "MechRepoNet Knowledge Graph", "original_source": ["ctd", "doid", "go", "chebi", "reactome", "interpro", "hp", "cl", "pr", "uberon", "ncbitaxon", "hetionet", "complexportal", "rnacentral", "mirtarbase", "unii", "biolink"], "product_url": "https://github.com/SuLab/MechRepoNet/releases/tag/publication", "secondary_source": ["mechreponet"]}, {"category": "GraphProduct", "description": "RNA-KG as a Neo4j Dump", "format": "neo4j", "id": "rna-kg.kg.neo4j", "name": "RNA-KG Neo4j Dump", "original_source": ["dbsnp", "cosmic", "rnacentral", "ensembl", "circbase", "chebi", "pr", "ncbigene", "cl", "go", "mondo", "hp", "uberon", "vo", "pw", "reactome", "wikipathways"], "product_file_size": 3976840239, "product_url": "https://rna-kg.biodata.di.unimi.it/rnakgv20.dump", "secondary_source": ["rna-kg"]}, {"category": "GraphProduct", "description": "RNA-KG Nodes in CSV format", "format": "csv", "id": "rna-kg.kg.nodes", "name": "RNA-KG Nodes", "original_source": ["dbsnp", "cosmic", "rnacentral", "ensembl", "circbase", "chebi", "pr", "ncbigene", "cl", "go", "mondo", "hp", "uberon", "vo", "pw", "reactome", "wikipathways"], "product_file_size": 4424633304, "product_url": "https://rna-kg.biodata.di.unimi.it/nodes.csv", "secondary_source": ["rna-kg"]}, {"category": "GraphProduct", "description": "RNA-KG Edges in CSV format", "format": "csv", "id": "rna-kg.kg.edges", "name": "RNA-KG Edges", "original_source": ["dbsnp", "cosmic", "rnacentral", "ensembl", "circbase", "chebi", "pr", "ncbigene", "cl", "go", "mondo", "hp", "uberon", "vo", "pw", "reactome", "wikipathways"], "product_file_size": 18370248815, "product_url": "https://rna-kg.biodata.di.unimi.it/edges.csv", "secondary_source": ["rna-kg"]}, {"category": "GraphProduct", "compatibility": [{"standard": "biolink"}], "compression": "zip", "description": "Curated mechanistic drug\u2013disease paths comprising the DrugMechDB dataset packaged as a downloadable archive.", "dump_format": "other", "format": "mixed", "id": "drugmechdb.graph", "latest_version": "2.0.1", "name": "DrugMechDB Graph Dataset", "original_source": ["go", "cl", "mesh", "chebi", "drugbank", "interpro", "uberon", "pr", "ncbitaxon", "reactome", "hp", "uniprot"], "product_url": "https://doi.org/10.5281/zenodo.8139357", "repository": "https://github.com/SuLab/DrugMechDB", "versions": ["2.0.1", "2.0.0", "1.0.2", "1.0"]}, {"category": "OntologyProduct", "description": "The latest release of EFO in OWL format", "format": "owl", "id": "efo.owl", "name": "EFO OWL", "original_source": ["bfo", "bto", "chebi", "cl", "clo", "cob", "dc", "doid", "ecto", "efo", "fbbt", "fbdv", "fma", "go", "hancestro", "hp", "iao", "ido", "ma", "mondo", "mp", "mpath", "ncbitaxon", "ncit", "oba", "obi", "ogms", "oio", "omit", "omo", "ordo", "pato", "po", "pr", "ro", "semapv", "skos", "so", "to", "uberon", "uo", "wbls", "zfa"], "product_file_size": 240665663, "product_url": "https://www.ebi.ac.uk/efo/efo.owl", "secondary_source": ["efo"]}, {"category": "OntologyProduct", "description": "The latest release of EFO in OBO format", "format": "obo", "id": "efo.obo", "name": "EFO OBO", "original_source": ["bfo", "bto", "chebi", "cl", "clo", "cob", "dc", "doid", "ecto", "efo", "fbbt", "fbdv", "fma", "go", "hancestro", "hp", "iao", "ido", "ma", "mondo", "mp", "mpath", "ncbitaxon", "ncit", "oba", "obi", "ogms", "oio", "omit", "omo", "ordo", "pato", "po", "pr", "ro", "semapv", "skos", "so", "to", "uberon", "uo", "wbls", "zfa"], "product_file_size": 64058275, "product_url": "https://www.ebi.ac.uk/efo/efo.obo", "secondary_source": ["efo"]}]
{"activity_status": "active", "category": "Ontology", "collection": ["obo-foundry"], "contacts": [{"category": "Individual", "contact_details": [{"contact_type": "email", "value": "addiehl@buffalo.edu"}, {"contact_type": "github", "value": "addiehl"}], "label": "Alexander Diehl", "orcid": "0000-0001-9990-8331"}], "description": "The Cell Ontology is a structured controlled vocabulary for cell types in animals.", "domains": ["anatomy and development"], "homepage_url": "https://obophenotype.github.io/cell-ontology/", "id": "cl", "layout": "resource_detail", "license": {"id": "http://creativecommons.org/licenses/by/4.0/", "label": "CC BY 4.0", "logo": "http://mirrors.creativecommons.org/presskit/buttons/80x15/png/by.png"}, "name": "Cell Ontology", "products": [{"category": "OntologyProduct", "description": "Complete ontology, plus inter-ontology axioms, and imports modules", "format": "owl", "id": "cl.owl", "name": "Main CL OWL edition", "product_file_size": 64529552, "product_url": "http://purl.obolibrary.org/obo/cl.owl"}, {"category": "OntologyProduct", "description": "Complete ontology, plus inter-ontology axioms, and imports modules merged in", "format": "obo", "id": "cl.obo", "name": "CL obo format edition", "product_file_size": 16759306, "product_url": "http://purl.obolibrary.org/obo/cl.obo"}, {"category": "OntologyProduct", "description": "Complete ontology, plus inter-ontology axioms, and imports modules merged in", "format": "json", "id": "cl.json", "name": "CL OBOGraph-JSON format edition", "product_file_size": 37217868, "product_url": "http://purl.obolibrary.org/obo/cl.json"}, {"category": "OntologyProduct", "description": "Basic version, no inter-ontology axioms", "format": "owl", "id": "cl.cl-basic.owl", "name": "Basic CL", "product_file_size": 8509431, "product_url": "http://purl.obolibrary.org/obo/cl/cl-basic.owl"}, {"category": "OntologyProduct", "description": "Basic version, no inter-ontology axioms", "format": "obo", "id": "cl.cl-basic.obo", "name": "Basic CL (OBO version)", "product_file_size": 2918556, "product_url": "http://purl.obolibrary.org/obo/cl/cl-basic.obo"}, {"category": "OntologyProduct", "description": "Basic version, no inter-ontology axioms", "format": "json", "id": "cl.cl-basic.json", "name": "Basic CL (OBOGraph-JSON version)", "product_file_size": 4955842, "product_url": "http://purl.obolibrary.org/obo/cl/cl-basic.json"}, {"category": "OntologyProduct", "description": "complete CL but with no imports or external axioms", "format": "owl", "id": "cl.cl-base.owl", "name": "CL base module", "product_file_size": 11471475, "product_url": "http://purl.obolibrary.org/obo/cl/cl-base.owl"}, {"category": "OntologyProduct", "description": "complete CL but with no imports or external axioms", "format": "obo", "id": "cl.cl-base.obo", "name": "CL base module (OBO version)", "product_file_size": 3317655, "product_url": "http://purl.obolibrary.org/obo/cl/cl-base.obo"}, {"category": "OntologyProduct", "description": "complete CL but with no imports or external axioms", "format": "json", "id": "cl.cl-base.json", "name": "CL base module (OBOGraph-JSON version)", "product_file_size": 6597689, "product_url": "http://purl.obolibrary.org/obo/cl/cl-base.json"}, {"category": "GraphProduct", "description": "Turnkey neo4j distributions that deploy fully-indexed, standalone UBKG instances as neo4j graph databases, running in a Docker container. Requires UMLS API key to access.", "dump_format": "neo4j", "id": "ubkg.neo4j", "name": "UBKG Neo4j Docker Distribution", "original_source": ["hgnc", "loinc", "icd10", "snomedct", "uberon", "pato", "cl", "doid", "obi", "obib", "edam", "hsapdv", "sbo", "mi", "chebi", "mp", "ordo", "uniprot", "uo", "mondo", "efo", "pgo", "gencode", "reactome", "hra", "hubmap", "sennet", "stellar", "dct", "clinvar", "connectivitymap", "hp", "mp", "msigdb", "wikipathways", "clingen", "string", "4dn", "erccrbp", "erccreg", "faldo", "glycordf", "glycocoo", "gtex", "kidsfirst", "lincs", "motrpac", "mw", "npo", "sckan", "disgenet", "biomarker", "opentargets"], "product_url": "https://ubkg-downloads.xconsortia.org/", "secondary_source": ["ubkg"]}, {"category": "GraphProduct", "description": "Ontology CSV files that can be imported into a neo4j instance to create a UBKG database. Requires UMLS API key to access.", "format": "csv", "id": "ubkg.csv", "name": "UBKG Ontology CSV Files", "original_source": ["hgnc", "loinc", "icd10", "snomedct", "uberon", "pato", "cl", "doid", "obi", "obib", "edam", "hsapdv", "sbo", "mi", "chebi", "mp", "ordo", "uniprot", "uo", "mondo", "efo", "pgo", "gencode", "reactome", "hra", "hubmap", "sennet", "stellar", "dct", "clinvar", "connectivitymap", "hp", "mp", "msigdb", "wikipathways", "clingen", "string", "4dn", "erccrbp", "erccreg", "faldo", "glycordf", "glycocoo", "gtex", "kidsfirst", "lincs", "motrpac", "mw", "npo", "sckan", "disgenet", "biomarker", "opentargets"], "product_url": "https://ubkg-downloads.xconsortia.org/", "secondary_source": ["ubkg"]}, {"category": "GraphProduct", "description": "The SPOKE knowledge graph containing nodes and edges from multiple biomedical data sources.", "id": "spoke.graph", "name": "SPOKE Graph", "original_source": ["ncbigene", "pubmed", "mesh", "pid", "doid", "diseases", "drugcentral", "go", "gwascatalog", "reactome", "lincs-l1000", "uberon", "wikipathways", "bindingdb", "drugbank", "sider", "bgee", "uniprot", "string", "omim", "chembl", "foodb", "civic", "gdsc", "clinicaltrialsgov", "hpa", "cl", "kegg", "metacyc", "bv-brc", "ncbitaxon", "pathophenodb", "pfam", "interpro", "protcid"], "secondary_source": ["spoke"]}, {"category": "GraphProduct", "description": "PheKnowLator graph files, including subsets with and without inverse relations.", "format": "owl", "id": "pheknowlator.graph", "latest_version": "current_build", "name": "PheKnowLator graph", "original_source": ["cl", "clo", "chebi", "go", "hp", "mondo", "pw", "pr", "ro", "so", "uberon", "vo", "bioportal", "clinvar", "ctd", "disgenet", "ensembl", "genemania", "hgnc", "hpa", "ncbigene", "medgen", "reactome", "string", "uniprot"], "product_url": "https://console.cloud.google.com/storage/browser/pheknowlator/current_build/knowledge_graphs?pageState=(%22StorageObjectListTable%22:(%22f%22:%22%255B%255D%22))&inv=1&invt=Ab5_1Q&project=pheknowlator", "secondary_source": ["pheknowlator"], "versions": ["v1.0.0", "v2.0.0", "v2.1.0", "v3.0.2", "v4.0.0", "current_build"]}, {"description": "The MechRepoNet knowledge graph in its original format", "id": "mechreponet.kg", "name": "MechRepoNet Knowledge Graph", "original_source": ["ctd", "doid", "go", "chebi", "reactome", "interpro", "hp", "cl", "pr", "uberon", "ncbitaxon", "hetionet", "complexportal", "rnacentral", "mirtarbase", "unii", "biolink"], "product_url": "https://github.com/SuLab/MechRepoNet/releases/tag/publication", "secondary_source": ["mechreponet"]}, {"category": "GraphProduct", "description": "RNA-KG as a Neo4j Dump", "format": "neo4j", "id": "rna-kg.kg.neo4j", "name": "RNA-KG Neo4j Dump", "original_source": ["dbsnp", "cosmic", "rnacentral", "ensembl", "circbase", "chebi", "pr", "ncbigene", "cl", "go", "mondo", "hp", "uberon", "vo", "pw", "reactome", "wikipathways"], "product_file_size": 3976840239, "product_url": "https://rna-kg.biodata.di.unimi.it/rnakgv20.dump", "secondary_source": ["rna-kg"]}, {"category": "GraphProduct", "description": "RNA-KG Nodes in CSV format", "format": "csv", "id": "rna-kg.kg.nodes", "name": "RNA-KG Nodes", "original_source": ["dbsnp", "cosmic", "rnacentral", "ensembl", "circbase", "chebi", "pr", "ncbigene", "cl", "go", "mondo", "hp", "uberon", "vo", "pw", "reactome", "wikipathways"], "product_file_size": 4424633304, "product_url": "https://rna-kg.biodata.di.unimi.it/nodes.csv", "secondary_source": ["rna-kg"]}, {"category": "GraphProduct", "description": "RNA-KG Edges in CSV format", "format": "csv", "id": "rna-kg.kg.edges", "name": "RNA-KG Edges", "original_source": ["dbsnp", "cosmic", "rnacentral", "ensembl", "circbase", "chebi", "pr", "ncbigene", "cl", "go", "mondo", "hp", "uberon", "vo", "pw", "reactome", "wikipathways"], "product_file_size": 18370248815, "product_url": "https://rna-kg.biodata.di.unimi.it/edges.csv", "secondary_source": ["rna-kg"]}, {"category": "GraphProduct", "compatibility": [{"standard": "biolink"}], "compression": "zip", "description": "Curated mechanistic drug\u2013disease paths comprising the DrugMechDB dataset packaged as a downloadable archive.", "dump_format": "other", "format": "mixed", "id": "drugmechdb.graph", "latest_version": "2.0.1", "name": "DrugMechDB Graph Dataset", "original_source": ["go", "cl", "mesh", "chebi", "drugbank", "interpro", "uberon", "pr", "ncbitaxon", "reactome", "hp", "uniprot"], "product_url": "https://doi.org/10.5281/zenodo.8139357", "repository": "https://github.com/SuLab/DrugMechDB", "versions": ["2.0.1", "2.0.0", "1.0.2", "1.0"]}, {"category": "OntologyProduct", "description": "The latest release of EFO in OWL format", "format": "owl", "id": "efo.owl", "name": "EFO OWL", "original_source": ["bfo", "bto", "chebi", "cl", "clo", "cob", "dc", "doid", "ecto", "efo", "fbbt", "fbdv", "fma", "go", "hancestro", "hp", "iao", "ido", "ma", "mondo", "mp", "mpath", "ncbitaxon", "ncit", "oba", "obi", "ogms", "oio", "omit", "omo", "ordo", "pato", "po", "pr", "ro", "semapv", "skos", "so", "to", "uberon", "uo", "wbls", "zfa"], "product_file_size": 240665663, "product_url": "https://www.ebi.ac.uk/efo/efo.owl", "secondary_source": ["efo"]}, {"category": "OntologyProduct", "description": "The latest release of EFO in OBO format", "format": "obo", "id": "efo.obo", "name": "EFO OBO", "original_source": ["bfo", "bto", "chebi", "cl", "clo", "cob", "dc", "doid", "ecto", "efo", "fbbt", "fbdv", "fma", "go", "hancestro", "hp", "iao", "ido", "ma", "mondo", "mp", "mpath", "ncbitaxon", "ncit", "oba", "obi", "ogms", "oio", "omit", "omo", "ordo", "pato", "po", "pr", "ro", "semapv", "skos", "so", "to", "uberon", "uo", "wbls", "zfa"], "product_file_size": 64058275, "product_url": "https://www.ebi.ac.uk/efo/efo.obo", "secondary_source": ["efo"]}], "repository": "https://github.com/obophenotype/cell-ontology", "taxon": ["NCBITaxon:33208"]}