{ "graphs" : [ { "id" : "http://purl.obolibrary.org/obo/go/subsets/goslim_drosophila.owl", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", "val" : "2026-04-06" } ], "version" : "http://purl.obolibrary.org/obo/go/releases/2026-04-06/subsets/goslim_drosophila.owl" }, "nodes" : [ { "id" : "http://purl.obolibrary.org/obo/GO_0000278", "lbl" : "mitotic cell cycle", "type" : "CLASS", "meta" : { "definition" : { "val" : "Progression through the phases of the mitotic cell cycle, the most common eukaryotic cell cycle, which canonically comprises four successive phases called G1, S, G2, and M and includes replication of the genome and the subsequent segregation of chromosomes into daughter cells. In some variant cell cycles nuclear replication or nuclear division may not be followed by cell division, or G1 and G2 phases may be absent.", "xrefs" : [ "GOC:mah", "ISBN:0815316194" ] }, "comments" : [ "Note that this term should not be confused with 'GO:0140014 ; mitotic nuclear division'. 'GO:0000278 ; mitotic cell cycle represents the entire mitotic cell cycle, while 'GO:0140014 ; mitotic nuclear division' specifically represents the actual nuclear division step of the mitotic cell cycle." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "mitosis" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-69278" }, { "val" : "Wikipedia:Mitosis" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0007067" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000902", "lbl" : "cell morphogenesis", "type" : "CLASS", "meta" : { "definition" : { "val" : "The developmental process in which the size or shape of a cell is generated and organized.", "xrefs" : [ "GOC:clt", "GOC:curators", "GOC:dph", "GOC:tb" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular morphogenesis" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0007148" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0045790" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0045791" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002520", "lbl" : "immune system development", "type" : "CLASS", "meta" : { "definition" : { "val" : "The process whose specific outcome is the progression of an organismal system whose objective is to provide calibrated responses by an organism to a potential internal or invasive threat, over time, from its formation to the mature structure. A system is a regularly interacting or interdependent group of organs or tissues that work together to carry out a given biological process.", "xrefs" : [ "GOC:add", "GOC:dph" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003012", "lbl" : "muscle system process", "type" : "CLASS", "meta" : { "definition" : { "val" : "An organ system process carried out at the level of a muscle. Muscle tissue is composed of contractile cells or fibers.", "xrefs" : [ "GOC:mtg_cardio" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "muscle physiological process" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003677", "lbl" : "DNA binding", "type" : "CLASS", "meta" : { "definition" : { "val" : "Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).", "xrefs" : [ "GOC:dph", "GOC:jl", "GOC:tb", "GOC:vw" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "plasmid binding" }, { "pred" : "hasRelatedSynonym", "val" : "microtubule/chromatin interaction" }, { "pred" : "hasRelatedSynonym", "val" : "structure specific DNA binding" }, { "pred" : "hasRelatedSynonym", "val" : "structure-specific DNA binding" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0043566" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003682", "lbl" : "chromatin binding", "type" : "CLASS", "meta" : { "definition" : { "val" : "Binding to chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase.", "xrefs" : [ "GOC:jl", "ISBN:0198506732", "PMID:20404130" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "lamin/chromatin binding" }, { "pred" : "hasNarrowSynonym", "val" : "microtubule/chromatin interaction" }, { "pred" : "hasNarrowSynonym", "val" : "nuclear membrane vesicle binding to chromatin" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003700", "lbl" : "DNA-binding transcription factor activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "A transcription regulator activity that modulates transcription of gene sets via selective and non-covalent binding to a specific double-stranded genomic DNA sequence (sometimes referred to as a motif) within a cis-regulatory region. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units, and include bacterial operons.", "xrefs" : [ "GOC:txnOH-2018" ] }, "comments" : [ "Usage guidance: Most DNA-binding transcription factors do not have enzymatic activity. The presence of specific DNA-binding domains known to be present in DNA-binding transcription factors (HOX, GATA etc) should be used to help decide whether a protein is a DNA binding transcription factor or a coregulator. If a protein has an enzymatic activity (for example, ubiquitin ligase, histone acetyl transferase) and no known DNA binding domain, consider annotating to GO:0003712 transcription coregulator activity. Special care should be taken with proteins containing zinc fingers, Myb/SANT and ARID domains, since only a subset of proteins containing these domains directly and selectively bind to regulatory DNA motifs in cis-regulatory regions." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "nucleic acid binding transcription factor activity" }, { "pred" : "hasBroadSynonym", "val" : "transcription factor activity" }, { "pred" : "hasExactSynonym", "val" : "DNA binding transcription factor activity" }, { "pred" : "hasExactSynonym", "val" : "gene-specific transcription factor activity" }, { "pred" : "hasExactSynonym", "val" : "sequence-specific DNA binding transcription factor activity" }, { "pred" : "hasNarrowSynonym", "val" : "bacterial-type DNA binding transcription factor activity" }, { "pred" : "hasNarrowSynonym", "val" : "bacterial-type RNA polymerase core promoter proximal region sequence-specific DNA binding transcription factor activity" }, { "pred" : "hasNarrowSynonym", "val" : "bacterial-type RNA polymerase transcription enhancer sequence-specific DNA binding transcription factor activity" }, { "pred" : "hasNarrowSynonym", "val" : "bacterial-type RNA polymerase transcription factor activity, metal ion regulated sequence-specific DNA binding" }, { "pred" : "hasNarrowSynonym", "val" : "bacterial-type RNA polymerase transcription factor activity, sequence-specific DNA binding" }, { "pred" : "hasNarrowSynonym", "val" : "metal ion regulated sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity" }, { "pred" : "hasNarrowSynonym", "val" : "metal ion regulated sequence-specific DNA binding transcription factor activity" }, { "pred" : "hasNarrowSynonym", "val" : "sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity" }, { "pred" : "hasNarrowSynonym", "val" : "transcription factor activity, bacterial-type RNA polymerase core promoter proximal region sequence-specific binding" }, { "pred" : "hasNarrowSynonym", "val" : "transcription factor activity, bacterial-type RNA polymerase proximal promoter sequence-specific DNA binding" }, { "pred" : "hasNarrowSynonym", "val" : "transcription factor activity, bacterial-type RNA polymerase transcription enhancer sequence-specific binding" }, { "pred" : "hasNarrowSynonym", "val" : "transcription factor activity, metal ion regulated sequence-specific DNA binding" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-163666" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/15704" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/16534" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/20253" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "krc" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-10-21T04:37:54Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0000130" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0001071" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0001130" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0001131" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0001151" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0001199" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0001204" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003712", "lbl" : "transcription coregulator activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "A transcription regulator activity that modulates the transcription of specific gene sets via binding to a DNA-binding transcription factor at a specific genomic locus, either on its own or as part of a complex. Coregulators often act by altering chromatin structure and modifications. For example, one class of transcription coregulators modifies chromatin structure through covalent modification of histones. A second class remodels the conformation of chromatin in an ATP-dependent fashion. A third class modulates interactions of DNA-bound DNA-binding transcription factors with other transcription coregulators.", "xrefs" : [ "GOC:txnOH-2018", "PMID:10213677", "PMID:16858867", "PMID:24203923", "PMID:25957681", "Wikipedia:Transcription_coregulator" ] }, "comments" : [ "Usage guidance: Most transcription coregulators do not bind DNA. Those that do usually bind DNA either in a non-specific or non-direct manner. If a protein binds DNA specifically, consider annotating to GO:0003700 DNA binding transcription factor activity." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "transcription cofactor activity" }, { "pred" : "hasExactSynonym", "val" : "transcription coreceptor activity" }, { "pred" : "hasExactSynonym", "val" : "transcriptional co-regulator" }, { "pred" : "hasNarrowSynonym", "val" : "nuclear receptor coreceptor activity" }, { "pred" : "hasRelatedSynonym", "val" : "RNA polymerase II transcriptional cofactor activity" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-5340251" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/15536" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/15665" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/15998" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/20253" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/20464" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/20862" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/20962" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/26489" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/28926" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/31471" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "krc" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-11-24T03:02:15Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0001104" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0016455" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003723", "lbl" : "RNA binding", "type" : "CLASS", "meta" : { "definition" : { "val" : "Binding to an RNA molecule or a portion thereof.", "xrefs" : [ "GOC:jl", "GOC:mah" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "base pairing with RNA" }, { "pred" : "hasRelatedSynonym", "val" : "poly(A) RNA binding" }, { "pred" : "hasRelatedSynonym", "val" : "poly(A)-RNA binding" }, { "pred" : "hasRelatedSynonym", "val" : "poly-A RNA binding" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-203922" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0000498" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0044822" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003735", "lbl" : "structural constituent of ribosome", "type" : "CLASS", "meta" : { "definition" : { "val" : "The action of a molecule that contributes to the structural integrity of the ribosome.", "xrefs" : [ "GOC:mah" ] }, "comments" : [ "Note that this term may be used to annotate ribosomal RNAs as well as ribosomal proteins." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "ribosomal protein" }, { "pred" : "hasRelatedSynonym", "val" : "ribosomal RNA" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0003736" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0003737" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0003738" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0003739" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0003740" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0003741" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0003742" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003924", "lbl" : "GTPase activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "Catalysis of the reaction: GTP + H2O = GDP + H+ + phosphate.", "xrefs" : [ "PMID:26832457", "PMID:27218782" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "hydrolase activity, acting on acid anhydrides, acting on GTP, involved in cellular and subcellular movement" }, { "pred" : "hasNarrowSynonym", "val" : "ARF small monomeric GTPase activity" }, { "pred" : "hasNarrowSynonym", "val" : "RHEB small monomeric GTPase activity" }, { "pred" : "hasNarrowSynonym", "val" : "Rab small monomeric GTPase activity" }, { "pred" : "hasNarrowSynonym", "val" : "Ran small monomeric GTPase activity" }, { "pred" : "hasNarrowSynonym", "val" : "Ras small monomeric GTPase activity" }, { "pred" : "hasNarrowSynonym", "val" : "Rho small monomeric GTPase activity" }, { "pred" : 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For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "extracellular" } ], "xrefs" : [ { "val" : "Wikipedia:Extracellular" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0005634", "lbl" : "nucleus", "type" : "CLASS", "meta" : { "definition" : { "val" : "A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.", "xrefs" : [ "GOC:curators" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell nucleus" }, { "pred" : "hasNarrowSynonym", "val" : "horsetail nucleus", "xrefs" : [ "GOC:al", "GOC:mah", "GOC:vw", "PMID:15030757" ] } ], "xrefs" : [ { "val" : "NIF_Subcellular:sao1702920020" }, { "val" : "Wikipedia:Cell_nucleus" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0005694", "lbl" : "chromosome", "type" : "CLASS", "meta" : { "definition" : { "val" : "A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.", "xrefs" : [ "ISBN:0198547684" ] }, "comments" : [ "Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "interphase chromosome" }, { "pred" : "hasNarrowSynonym", "val" : "prophase chromosome" }, { "pred" : "hasRelatedSynonym", "val" : "chromatid" } ], "xrefs" : [ { "val" : "Wikipedia:Chromosome" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0005730", "lbl" : "nucleolus", "type" : "CLASS", "meta" : { "definition" : { "val" : "A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome.", "xrefs" : [ "ISBN:0198506732" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "xrefs" : [ { "val" : "NIF_Subcellular:sao1820400233" }, { "val" : "Wikipedia:Nucleolus" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0005739", "lbl" : "mitochondrion", "type" : "CLASS", "meta" : { "definition" : { "val" : "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.", "xrefs" : [ "GOC:giardia", "ISBN:0198506732" ] }, "comments" : [ "Some anaerobic or microaerophilic organisms (e.g. Entamoeba histolytica, Giardia intestinalis and several Microsporidia species) do not have mitochondria, and contain mitochondrion-related organelles (MROs) instead, called mitosomes or hydrogenosomes, very likely derived from mitochondria. To annotate gene products located in these mitochondrial relics in species such as Entamoeba histolytica, Giardia intestinalis or others, please use GO:0032047 'mitosome' or GO:0042566 'hydrogenosome'. (See PMID:24316280 for a list of species currently known to contain mitochondrion-related organelles.)" ], "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "mitochondria" } ], "xrefs" : [ { "val" : "NIF_Subcellular:sao1860313010" }, { "val" : "Wikipedia:Mitochondrion" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0005768", "lbl" : "endosome", "type" : "CLASS", "meta" : { "definition" : { "val" : "A vacuole to which materials ingested by endocytosis are delivered.", "xrefs" : [ "ISBN:0198506732", "PMID:19696797" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "xrefs" : [ { "val" : "NIF_Subcellular:sao1720343330" }, { "val" : "Wikipedia:Endosome" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0005773", "lbl" : "vacuole", "type" : "CLASS", "meta" : { "definition" : { "val" : "A closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material. Cells contain one or several vacuoles, that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products, as a degradative compartment, as a cost-effective way of increasing cell size, and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol.", "xrefs" : [ "GOC:mtg_sensu", "ISBN:0198506732" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "vacuolar carboxypeptidase Y" } ], "xrefs" : [ { "val" : "Wikipedia:Vacuole" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0005777", "lbl" : "peroxisome", "type" : "CLASS", "meta" : { "definition" : { "val" : "A small organelle enclosed by a single membrane, and found in most eukaryotic cells. Contains peroxidases and other enzymes involved in a variety of metabolic processes including free radical detoxification, lipid catabolism and biosynthesis, and hydrogen peroxide metabolism.", "xrefs" : [ "GOC:pm", "PMID:9302272", "UniProtKB-KW:KW-0576" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "peroxisome vesicle" }, { "pred" : "hasRelatedSynonym", "val" : "peroxisomal" } ], "xrefs" : [ { "val" : "NIF_Subcellular:sao499555322" }, { "val" : "Wikipedia:Peroxisome" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0019818" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0005783", "lbl" : "endoplasmic reticulum", "type" : "CLASS", "meta" : { "definition" : { "val" : "The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached).", "xrefs" : [ "ISBN:0198506732" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "ER" } ], "xrefs" : [ { "val" : "NIF_Subcellular:sao1036339110" }, { "val" : "Wikipedia:Endoplasmic_reticulum" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0005794", "lbl" : "Golgi apparatus", "type" : "CLASS", "meta" : { "definition" : { "val" : "A membrane-bound cytoplasmic organelle of the endomembrane system that further processes the core oligosaccharides (e.g. N-glycans) added to proteins in the endoplasmic reticulum and packages them into membrane-bound vesicles. The Golgi apparatus operates at the intersection of the secretory, lysosomal, and endocytic pathways.", "xrefs" : [ "ISBN:0198506732", "PMID:9695800" ] }, "comments" : [ "Note that the Golgi apparatus can be located in various places in the cytoplasm. In plants and lower animal cells, the Golgi apparatus exists as many copies of discrete stacks dispersed throughout the cytoplasm, while the Golgi apparatus of interphase mammalian cells is a juxtanuclear, often pericentriolar reticulum, where the discrete Golgi stacks are stitched together to form a compact and interconnected ribbon, sometimes called the Golgi ribbon." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "Golgi" }, { "pred" : "hasExactSynonym", "val" : "Golgi complex" }, { "pred" : "hasNarrowSynonym", "val" : "Golgi ribbon" } ], "xrefs" : [ { "val" : "NIF_Subcellular:sao451912436" }, { "val" : "Wikipedia:Golgi_apparatus" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/14798" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0005829", "lbl" : "cytosol", "type" : "CLASS", "meta" : { "definition" : { "val" : "The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.", "xrefs" : [ "GOC:hjd", "GOC:jl" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "xrefs" : [ { "val" : "NIF_Subcellular:sao101633890" }, { "val" : "Wikipedia:Cytosol" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0005856", "lbl" : "cytoskeleton", "type" : "CLASS", "meta" : { "definition" : { "val" : "A cellular structure that forms the internal framework of eukaryotic and prokaryotic cells. The cytoskeleton includes intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.", "xrefs" : [ "GOC:mah", "PMID:16959967", "PMID:27419875" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "xrefs" : [ { "val" : "Wikipedia:Cytoskeleton" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0005886", "lbl" : "plasma membrane", "type" : "CLASS", "meta" : { "definition" : { "val" : "The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.", "xrefs" : [ "ISBN:0716731363" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "juxtamembrane" }, { "pred" : "hasExactSynonym", "val" : "cell membrane" }, { "pred" : "hasExactSynonym", "val" : "cellular membrane", "xrefs" : [ "NIF_Subcellular:sao6433132645" ] }, { "pred" : "hasExactSynonym", "val" : "cytoplasmic membrane" }, { "pred" : "hasExactSynonym", "val" : "plasmalemma" }, { "pred" : "hasNarrowSynonym", "val" : "bacterial inner membrane" }, { "pred" : "hasNarrowSynonym", "val" : "inner endospore membrane" }, { "pred" : "hasNarrowSynonym", "val" : "integral component of plasma membrane" }, { "pred" : "hasNarrowSynonym", "val" : "integral to plasma membrane" }, { "pred" : "hasNarrowSynonym", "val" : "plasma membrane lipid bilayer", "xrefs" : [ "GOC:mah" ] } ], "xrefs" : [ { "val" : "NIF_Subcellular:sao1663586795" }, { "val" : "Wikipedia:Cell_membrane" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0005887" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0005904" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0005929", "lbl" : "cilium", "type" : "CLASS", "meta" : { "definition" : { "val" : "A specialized eukaryotic organelle that consists of a filiform extrusion of the cell surface and of some cytoplasmic parts. 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Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "response to environmental stimulus" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0010256", "lbl" : "endomembrane system organization", "type" : "CLASS", "meta" : { "definition" : { "val" : "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the endomembrane system.", "xrefs" : [ "GOC:mah", "GOC:sm" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "endomembrane organization" }, { "pred" : "hasExactSynonym", "val" : "endomembrane system organisation", "xrefs" : [ "GOC:mah" ] } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0010586", "lbl" : "miRNA metabolic process", "type" : "CLASS", "meta" : { "definition" : { "val" : "The chemical reactions and pathways involving miRNA, microRNA, a class of single-stranded RNA molecules of about 21-23 nucleotides in length, which regulates gene expression.", "xrefs" : [ "PMID:17993620" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "microRNA metabolic process" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-203927" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0012501", "lbl" : "programmed cell death", "type" : "CLASS", "meta" : { "definition" : { "val" : "A process which begins when a cell receives an internal or external signal and activates a series of biochemical events (signaling pathway). The process ends with the death of the cell.", "xrefs" : [ "GOC:lr", "GOC:mtg_apoptosis" ] }, "comments" : [ "Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "regulated cell death" }, { "pred" : "hasNarrowSynonym", "val" : "caspase-independent cell death" 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For cleavage events involved in generating a mature protein from a precursor, consider instead the term 'protein maturation ; GO:0051604' and its children." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pombe", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular protein breakdown" }, { "pred" : "hasExactSynonym", "val" : "cellular protein catabolic process" }, { "pred" : "hasExactSynonym", "val" : "cellular protein catabolism" }, { "pred" : "hasExactSynonym", "val" : "cellular protein degradation" }, { "pred" : "hasExactSynonym", "val" : "protein breakdown" }, { "pred" : "hasExactSynonym", "val" : "protein catabolism" }, { "pred" : "hasExactSynonym", "val" : "protein degradation" }, { "pred" : "hasNarrowSynonym", "val" : "multicellular organismal protein catabolic process" }, { "pred" : "hasRelatedSynonym", "val" : "pheromone catabolic process" }, { "pred" : "hasRelatedSynonym", "val" : "pheromone catabolism" } ], "xrefs" : [ { "val" : "Wikipedia:Protein_catabolism" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/23112" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0044254" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0044257" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0030198", "lbl" : "extracellular matrix organization", "type" : "CLASS", "meta" : { "definition" : { "val" : "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an extracellular matrix.", "xrefs" : [ "GOC:mah" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "extracellular matrix organisation" }, { "pred" : "hasRelatedSynonym", "val" : "extracellular matrix organization and biogenesis", "xrefs" : [ "GOC:mah" ] } ], "xrefs" : [ { "val" : "Reactome:R-HSA-1474244" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0030234", "lbl" : "enzyme regulator activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "A molecular function regulator that modulates a catalytic activity.", "xrefs" : [ "GOC:pdt" ] }, "comments" : [ "This term should only be used in cases when the regulator directly interacts with the enzyme, but does not result in a covalent modification." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "catalytic regulator activity", "xrefs" : [ "GOC:dph" ] }, { "pred" : "hasExactSynonym", "val" : "enzyme modulator" }, { "pred" : "hasNarrowSynonym", "val" : "metalloenzyme regulator activity" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0010576" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0030246", "lbl" : "carbohydrate binding", "type" : "CLASS", "meta" : { "definition" : { "val" : "Binding to a carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.", "xrefs" : [ "GOC:mah" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "sugar binding" }, { "pred" : "hasRelatedSynonym", "val" : "selectin" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0005529" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0030312", "lbl" : "external encapsulating structure", "type" : "CLASS", "meta" : { "definition" : { "val" : "A structure that lies outside the plasma membrane and surrounds the entire cell or cells. This does not include the periplasmic space.", "xrefs" : [ "GOC:curators" ] }, "comments" : [ "The outer membrane (of gram negative bacteria) or cell wall (of yeast or Gram positive bacteria) are defined as parts of this structure, see 'external encapsulating structure part'." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/31720" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0030705", "lbl" : "cytoskeleton-dependent intracellular transport", "type" : "CLASS", "meta" : { "definition" : { "val" : "The directed movement of substances along cytoskeletal fibers such as microfilaments or microtubules within a cell.", "xrefs" : [ "GOC:mah" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0031012", "lbl" : "extracellular matrix", "type" : "CLASS", "meta" : { "definition" : { "val" : "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues.", "xrefs" : [ "GOC:BHF", "GOC:mah", "GOC:rph", "PMID:21123617", "PMID:28089324", "PMID:33605520" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "proteinaceous extracellular matrix" }, { "pred" : "hasNarrowSynonym", "val" : "matrisome" } ], "xrefs" : [ { "val" : "NIF_Subcellular:nlx_subcell_20090513" }, { "val" : "Wikipedia:Extracellular_matrix" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0005578" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0031047", "lbl" : "regulatory ncRNA-mediated gene silencing", "type" : "CLASS", "meta" : { "definition" : { "val" : "A process in which an regulatory non-coding RNA molecule reduces expression of target genes. This can occur pre-transcriptionally by assembly of heterochromatin and prevention of transcription or co- or post-transcriptionally by targeting RNAs for degradation or by interfering with splicing or translation. This process starts once the inhibitory RNA molecule has been transcribed, and includes processing of the RNA such as cleavage, modifications, transport from the nucleus to the cytoplasm, loading onto the RISC complex, and the effect on transcription or translation.", "xrefs" : [ "PMID:15020054" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "RNA-dependent gene silencing" }, { "pred" : "hasRelatedSynonym", "val" : "RNA-mediated gene silencing" }, { "pred" : "hasRelatedSynonym", "val" : "gene silencing by RNA" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-211000" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/22202" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/22635" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0031386", "lbl" : "protein tag activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "A molecular function exhibited by a protein that is covalently attached (AKA tagged or conjugated) to another protein where it acts as a marker, recognized by the cellular apparatus to target the tagged protein for some cellular process such as modification, sequestration, transport or degradation.", "xrefs" : [ "GOC:dos", "PMID:19028679", "PMID:20054389", "PMID:6305978" ] }, "comments" : [ "Use this term to annotate conjugated tags, not for conjugating enzymes. At the time of writing, all known gene products with this activity are ubiquitin-like, either based on overall sequence similarity or the presence of common motifs and structures." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_prokaryote" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "covalent modifier", "xrefs" : [ "GOC:vw" ] }, { "pred" : "hasExactSynonym", "val" : "protein tag" }, { "pred" : "hasExactSynonym", "val" : "ubiquitin-like protein modifier" }, { "pred" : "hasRelatedSynonym", "val" : "protein tagging activity" }, { "pred" : "hasRelatedSynonym", "val" : "ubiquitin" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0034587", "lbl" : "piRNA processing", "type" : "CLASS", "meta" : { "definition" : { "val" : "A process leading to the generation of a functional piRNA. piRNAs (Piwi-associated RNAs) are a class of 24- to 30-nucleotide RNAs derived from repeat or complex DNA sequence elements and processed by a Dicer-independent mechanism.", "xrefs" : [ "GOC:kmv", "PMID:23329111", "PMID:24696457", "PMID:34724117" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "PIWI-associated RNA biogenesis" }, { "pred" : "hasExactSynonym", "val" : "PIWI-associated RNA processing" }, { "pred" : "hasExactSynonym", "val" : "piRNA biogenesis" }, { "pred" : "hasRelatedSynonym", "val" : "Piwi-associated RNA biosynthetic process" }, { "pred" : "hasRelatedSynonym", "val" : "Piwi-associated RNA metabolic process" }, { "pred" : "hasRelatedSynonym", "val" : "piRNA biosynthetic process" }, { "pred" : "hasRelatedSynonym", "val" : "piRNA metabolic process" }, { "pred" : "hasRelatedSynonym", "val" : "piRNA metabolism" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-5601884" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/23135" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:1990511" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0035556", "lbl" : "intracellular signal transduction", "type" : "CLASS", "meta" : { "definition" : { "val" : "The process in which a signal is passed on to downstream components within the cell, which become activated themselves to further propagate the signal and finally trigger a change in the function or state of the cell.", "xrefs" : [ "GOC:bf", "GOC:jl", "GOC:signaling", "ISBN:3527303782" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "intracellular signal transduction pathway" }, { "pred" : "hasNarrowSynonym", "val" : "signal transmission via intracellular cascade" }, { "pred" : "hasRelatedSynonym", "val" : "intracellular signaling cascade", "xrefs" : [ "GOC:signaling" ] }, { "pred" : "hasRelatedSynonym", "val" : "intracellular signaling pathway" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "bf" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-05-14T01:14:37Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0007242" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0007243" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0023013" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0023034" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0038023", "lbl" : "signaling receptor activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "Receiving a signal and transmitting it in the cell to initiate a change in cell activity. A signal is a physical entity or change in state that is used to transfer information in order to trigger a response.", "xrefs" : [ "GOC:bf", "GOC:signaling" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "receptor activity" }, { "pred" : "hasExactSynonym", "val" : "receptor activity involved in signal transduction", "xrefs" : [ "GOC:bf" ] }, { "pred" : "hasExactSynonym", "val" : "signalling receptor activity" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "bf" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2011-08-01T02:45:27Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0004872" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0019041" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0038024", "lbl" : "cargo receptor activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "Binding specifically to a substance (cargo) to deliver it to a transport vesicle. Cargo receptors span membranes (for instance the plasma membrane or the endoplasmic reticulum membrane), binding simultaneously to cargo molecules and coat adaptors, to efficiently recruit the cargo molecules to nascent vesicles.", "xrefs" : [ "PMID:15239958", "PMID:27903609" ] }, "comments" : [ "Notes: (1) For receptors binding a molecule but coupled to a signal transduction pathway, consider instead the term 'signaling receptor activity ; GO:0038023' and its children. (2) Cargo receptors transport substances by vesicular transport, not by transmembrane transport. For transmembrane transporters, consider instead the term 'transmembrane transporter activity ; GO:0022857'." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "receptor activity" }, { "pred" : "hasBroadSynonym", "val" : "transport receptor activity", "xrefs" : [ "GOC:signaling" ] }, { "pred" : "hasNarrowSynonym", "val" : "endocytic receptor activity", "xrefs" : [ "GOC:signaling", "ISBN:0123645387", "PMID:12671190" ] }, { "pred" : "hasNarrowSynonym", "val" : "receptor activity involved in receptor-mediated endocytosis", "xrefs" : [ "GOC:bf" ] } ], "xrefs" : [ { "val" : "Reactome:R-HSA-203716" }, { "val" : "Reactome:R-HSA-2160915" }, { "val" : "Reactome:R-HSA-3000103" }, { "val" : "Reactome:R-HSA-3000112" }, { "val" : "Reactome:R-HSA-3000122" }, { "val" : "Reactome:R-HSA-3000137" }, { "val" : "Reactome:R-HSA-350168" }, { "val" : "Reactome:R-HSA-350186" }, { "val" : "Reactome:R-HSA-9759202" }, { "val" : "Reactome:R-HSA-9759209" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/26872" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/30576" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "bf" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2011-08-01T02:50:45Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0042221", "lbl" : "response to chemical", "type" : "CLASS", "meta" : { "definition" : { "val" : "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 chemical stimulus.", "xrefs" : [ "GOC:jl" ] }, "comments" : [ "Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. 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