format-version: 1.2 date: 04:08:2010 09:34 auto-generated-by: OBO-Edit 2.0 subsetdef: goslim_candida "Candida GO slim" subsetdef: goslim_generic "Generic GO slim" subsetdef: goslim_goa "GOA and proteome slim" subsetdef: goslim_pir "PIR GO slim" subsetdef: goslim_plant "Plant GO slim" subsetdef: goslim_pombe "Fission yeast GO slim" subsetdef: goslim_yeast "Yeast GO slim" subsetdef: gosubset_prok "Prokaryotic GO subset" subsetdef: unvetted "unvetted" synonymtypedef: systematic_synonym "Systematic synonym" EXACT default-namespace: gene_ontology remark: cvs version: $Revision: 1.1359 $ [Term] id: GO:0000001 name: mitochondrion inheritance namespace: biological_process def: "The distribution of mitochondria, including the mitochondrial genome, into daughter cells after mitosis or meiosis, mediated by interactions between mitochondria and the cytoskeleton." [GOC:mcc, PMID:10873824, PMID:11389764] synonym: "mitochondrial inheritance" EXACT [] is_a: GO:0048308 ! organelle inheritance is_a: GO:0048311 ! mitochondrion distribution [Term] id: GO:0000002 name: mitochondrial genome maintenance namespace: biological_process def: "The maintenance of the structure and integrity of the mitochondrial genome; includes replication and segregation of the mitochondrial chromosome." [GOC:ai, GOC:vw] is_a: GO:0007005 ! mitochondrion organization [Term] id: GO:0000003 name: reproduction namespace: biological_process alt_id: GO:0019952 alt_id: GO:0050876 def: "The production by an organism of new individuals that contain some portion of their genetic material inherited from that organism." [GOC:go_curators, GOC:isa_complete, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] subset: goslim_generic subset: goslim_pir subset: goslim_plant subset: gosubset_prok synonym: "reproductive physiological process" EXACT [] xref: Wikipedia:Reproduction is_a: GO:0008150 ! biological_process [Term] id: GO:0000005 name: ribosomal chaperone activity namespace: molecular_function def: "OBSOLETE. Assists in the correct assembly of ribosomes or ribosomal subunits in vivo, but is not a component of the assembled ribosome when performing its normal biological function." [GOC:jl, PMID:12150913] comment: This term was made obsolete because it refers to a class of gene products and a biological process rather than a molecular function. is_obsolete: true consider: GO:0042254 consider: GO:0044183 consider: GO:0051082 [Term] id: GO:0000006 name: high affinity zinc uptake transmembrane transporter activity namespace: molecular_function def: "Catalysis of the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: Zn2+(out) = Zn2+(in), probably powered by proton motive force. In high affinity transport the transporter is able to bind the solute even if it is only present at very low concentrations." [TC:2.A.5.1.1] is_a: GO:0005385 ! zinc ion transmembrane transporter activity [Term] id: GO:0000007 name: low-affinity zinc ion transmembrane transporter activity namespace: molecular_function def: "Catalysis of the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: Zn2+ = Zn2+, probably powered by proton motive force. In low affinity transport the transporter is able to bind the solute only if it is present at very high concentrations." [GOC:mtg_transport, ISBN:0815340729] is_a: GO:0005385 ! zinc ion transmembrane transporter activity [Term] id: GO:0000008 name: thioredoxin namespace: molecular_function alt_id: GO:0000013 def: "OBSOLETE. A small disulfide-containing redox protein that serves as a general protein disulfide oxidoreductase. Interacts with a broad range of proteins by a redox mechanism, based on the reversible oxidation of 2 cysteine thiol groups to a disulfide, accompanied by the transfer of 2 electrons and 2 protons. The net result is the covalent interconversion of a disulfide and a dithiol." [GOC:kd] comment: This term was made obsolete because it represents gene products. is_obsolete: true consider: GO:0006467 consider: GO:0015036 [Term] id: GO:0000009 name: alpha-1,6-mannosyltransferase activity namespace: molecular_function def: "Catalysis of the transfer of a mannose residue from GDP-mannose to an oligosaccharide, forming an alpha-1,6-linkage." [GOC:mcc, PMID:2644248] xref: EC:2.4.1.- is_a: GO:0000030 ! mannosyltransferase activity [Term] id: GO:0000010 name: trans-hexaprenyltranstransferase activity namespace: molecular_function def: "Catalysis of the reaction: all-trans-hexaprenyl diphosphate + isopentenyl diphosphate = diphosphate + all-trans-heptaprenyl diphosphate." [EC:2.5.1.30] subset: gosubset_prok synonym: "all-trans-heptaprenyl-diphosphate synthase activity" EXACT [EC:2.5.1.30] synonym: "all-trans-hexaprenyl-diphosphate:isopentenyl-diphosphate hexaprenyltranstransferase activity" EXACT [EC:2.5.1.30] synonym: "heptaprenyl diphosphate synthase activity" EXACT [EC:2.5.1.30] synonym: "heptaprenyl pyrophosphate synthase activity" EXACT [EC:2.5.1.30] synonym: "heptaprenyl pyrophosphate synthetase activity" EXACT [EC:2.5.1.30] xref: EC:2.5.1.30 xref: MetaCyc:TRANS-HEXAPRENYLTRANSTRANSFERASE-RXN is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than methyl) groups [Term] id: GO:0000011 name: vacuole inheritance namespace: biological_process def: "The distribution of vacuoles into daughter cells after mitosis or meiosis, mediated by interactions between vacuoles and the cytoskeleton." [GOC:mcc, PMID:10873824, PMID:14616069] is_a: GO:0007033 ! vacuole organization is_a: GO:0048308 ! organelle inheritance [Term] id: GO:0000012 name: single strand break repair namespace: biological_process def: "The repair of single strand breaks in DNA. Repair of such breaks is mediated by the same enzyme systems as are used in base excision repair." [http://www.ultranet.com/~jkimball/BiologyPages/D/DNArepair.html] subset: gosubset_prok is_a: GO:0006281 ! DNA repair [Term] id: GO:0000014 name: single-stranded DNA specific endodeoxyribonuclease activity namespace: molecular_function def: "Catalysis of the hydrolysis of ester linkages within a single-stranded deoxyribonucleic acid molecule by creating internal breaks." [GOC:mah] synonym: "ssDNA-specific endodeoxyribonuclease activity" EXACT [GOC:mah] is_a: GO:0004520 ! endodeoxyribonuclease activity [Term] id: GO:0000015 name: phosphopyruvate hydratase complex namespace: cellular_component def: "A multimeric enzyme complex, usually a dimer or an octamer, that catalyzes the conversion of 2-phospho-D-glycerate to phosphoenolpyruvate and water." [GOC:jl, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] subset: gosubset_prok synonym: "enolase complex" EXACT [] is_a: GO:0043234 ! protein complex is_a: GO:0044445 ! cytosolic part [Term] id: GO:0000016 name: lactase activity namespace: molecular_function def: "Catalysis of the reaction: lactose + H2O = D-glucose + D-galactose." [EC:3.2.1.108] synonym: "lactase-phlorizin hydrolase activity" BROAD [EC:3.2.1.108] synonym: "lactose galactohydrolase activity" EXACT [EC:3.2.1.108] xref: EC:3.2.1.108 xref: MetaCyc:LACTASE-RXN xref: Reactome:20536 "lactase activity" is_a: GO:0004553 ! hydrolase activity, hydrolyzing O-glycosyl compounds [Term] id: GO:0000017 name: alpha-glucoside transport namespace: biological_process def: "The directed movement of alpha-glucosides into, out of, within or between cells by means of some external agent such as a transporter or pore. Alpha-glucosides are glycosides in which the sugar moiety is a glucose residue, and the anomeric carbon of the bond is in an alpha configuration." [GOC:jl, http://www.biochem.purdue.edu/, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] is_a: GO:0042946 ! glucoside transport [Term] id: GO:0000018 name: regulation of DNA recombination namespace: biological_process def: "Any process that modulates the frequency, rate or extent of DNA recombination, a process by which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents." [GOC:go_curators, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] subset: gosubset_prok is_a: GO:0051052 ! regulation of DNA metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006310 ! DNA recombination relationship: regulates GO:0006310 ! DNA recombination [Term] id: GO:0000019 name: regulation of mitotic recombination namespace: biological_process def: "Any process that modulates the frequency, rate or extent of DNA recombination during mitosis." [GOC:go_curators] synonym: "regulation of recombination within rDNA repeats" NARROW [] is_a: GO:0000018 ! regulation of DNA recombination intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006312 ! mitotic recombination relationship: regulates GO:0006312 ! mitotic recombination [Term] id: GO:0000020 name: negative regulation of recombination within rDNA repeats namespace: biological_process def: "OBSOLETE. Any process that stops, prevents or reduces the frequency, rate or extent of genetic recombination within the DNA of the genes coding for ribosomal RNA." [GOC:go_curators, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] comment: This term was made obsolete because it describes a substrate-specific process. is_obsolete: true consider: GO:0045950 [Term] id: GO:0000022 name: mitotic spindle elongation namespace: biological_process def: "Lengthening of the distance between poles of the mitotic spindle." [GOC:mah] synonym: "spindle elongation during mitosis" EXACT [] is_a: GO:0051231 ! spindle elongation relationship: part_of GO:0007052 ! mitotic spindle organization [Term] id: GO:0000023 name: maltose metabolic process namespace: biological_process def: "The chemical reactions and pathways involving the disaccharide maltose (4-O-alpha-D-glucopyranosyl-D-glucopyranose), an intermediate in the catabolism of glycogen and starch." [GOC:jl, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] subset: gosubset_prok synonym: "malt sugar metabolic process" EXACT [] synonym: "malt sugar metabolism" EXACT [] synonym: "maltose metabolism" EXACT [] is_a: GO:0005984 ! disaccharide metabolic process [Term] id: GO:0000024 name: maltose biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of the disaccharide maltose (4-O-alpha-D-glucopyranosyl-D-glucopyranose)." [GOC:jl, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] subset: gosubset_prok synonym: "malt sugar biosynthesis" EXACT [] synonym: "malt sugar biosynthetic process" EXACT [] synonym: "maltose anabolism" EXACT [] synonym: "maltose biosynthesis" EXACT [] synonym: "maltose formation" EXACT [] synonym: "maltose synthesis" EXACT [] is_a: GO:0000023 ! maltose metabolic process is_a: GO:0046351 ! disaccharide biosynthetic process [Term] id: GO:0000025 name: maltose catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of the disaccharide maltose (4-O-alpha-D-glucopyranosyl-D-glucopyranose)." [GOC:jl, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] subset: gosubset_prok synonym: "malt sugar catabolic process" EXACT [] synonym: "malt sugar catabolism" EXACT [] synonym: "maltose breakdown" EXACT [] synonym: "maltose degradation" EXACT [] synonym: "maltose hydrolysis" NARROW [] xref: MetaCyc:MALTOSECAT-PWY is_a: GO:0000023 ! maltose metabolic process is_a: GO:0046352 ! disaccharide catabolic process [Term] id: GO:0000026 name: alpha-1,2-mannosyltransferase activity namespace: molecular_function def: "Catalysis of the transfer of a mannose residue from GDP-mannose to an oligosaccharide, forming an alpha-1,2-linkage." [GOC:mcc, PMID:10521541] xref: EC:2.4.1.- is_a: GO:0000030 ! mannosyltransferase activity [Term] id: GO:0000027 name: ribosomal large subunit assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of constituent RNAs and proteins to form the large ribosomal subunit." [GOC:jl] subset: gosubset_prok is_a: GO:0042257 ! ribosomal subunit assembly relationship: part_of GO:0042273 ! ribosomal large subunit biogenesis [Term] id: GO:0000028 name: ribosomal small subunit assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of constituent RNAs and proteins to form the small ribosomal subunit." [GOC:jl] subset: gosubset_prok is_a: GO:0042257 ! ribosomal subunit assembly relationship: part_of GO:0042274 ! ribosomal small subunit biogenesis [Term] id: GO:0000030 name: mannosyltransferase activity namespace: molecular_function def: "Catalysis of the transfer of a mannosyl group to an acceptor molecule, typically another carbohydrate or a lipid." [GOC:ai] subset: gosubset_prok xref: EC:2.4.1.- xref: Reactome:7672 "mannosyltransferase activity" is_a: GO:0016758 ! transferase activity, transferring hexosyl groups [Term] id: GO:0000031 name: mannosylphosphate transferase activity namespace: molecular_function def: "Catalysis of the transfer of a mannosylphosphate group from one compound to another." [GOC:jl] is_a: GO:0016740 ! transferase activity [Term] id: GO:0000032 name: cell wall mannoprotein biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of cell wall mannoproteins, any cell wall protein that contains covalently bound mannose residues other than as a moiety of nucleic acid." [GOC:ai] subset: gosubset_prok synonym: "cell wall mannoprotein anabolism" EXACT [] synonym: "cell wall mannoprotein biosynthesis" EXACT [] synonym: "cell wall mannoprotein formation" EXACT [] synonym: "cell wall mannoprotein synthesis" EXACT [] is_a: GO:0006057 ! mannoprotein biosynthetic process is_a: GO:0031506 ! cell wall glycoprotein biosynthetic process [Term] id: GO:0000033 name: alpha-1,3-mannosyltransferase activity namespace: molecular_function def: "Catalysis of the transfer of a mannose residue from GDP-mannose to an oligosaccharide, forming an alpha-1,3-linkage." [GOC:mcc, PMID:10521541] xref: EC:2.4.1.- is_a: GO:0000030 ! mannosyltransferase activity [Term] id: GO:0000034 name: adenine deaminase activity namespace: molecular_function def: "Catalysis of the reaction: adenine + H2O = hypoxanthine + NH3." [EC:3.5.4.2] subset: gosubset_prok synonym: "ADase activity" EXACT [EC:3.5.4.2] synonym: "adenase activity" EXACT [EC:3.5.4.2] synonym: "adenine aminase activity" EXACT [EC:3.5.4.2] synonym: "adenine aminohydrolase activity" EXACT [EC:3.5.4.2] xref: EC:3.5.4.2 xref: MetaCyc:ADENINE-DEAMINASE-RXN is_a: GO:0016814 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines is_a: GO:0019239 ! deaminase activity [Term] id: GO:0000035 name: acyl binding namespace: molecular_function def: "Interacting selectively and non-covalently with an acyl group, any group formally derived by removal of the hydroxyl group from the acid function of a carboxylic acid." [http://cancerweb.ncl.ac.uk/, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] subset: gosubset_prok synonym: "acyl-CoA or acyl binding" BROAD [] is_a: GO:0005488 ! binding [Term] id: GO:0000036 name: acyl carrier activity namespace: molecular_function def: "Enables the directed movement of acyl groups into, out of, within or between cells." [ChEBI:22221, GOC:cb] subset: gosubset_prok is_a: GO:0022892 ! substrate-specific transporter activity [Term] id: GO:0000038 name: very long-chain fatty acid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving fatty acids with a chain length of C18 or greater." [GOC:hjd] subset: gosubset_prok synonym: "very-long-chain fatty acid metabolic process" EXACT [] synonym: "very-long-chain fatty acid metabolism" EXACT [] is_a: GO:0006631 ! fatty acid metabolic process [Term] id: GO:0000039 name: plasma membrane long-chain fatty acid transporter namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it describes a gene product and it contains component information. is_obsolete: true consider: GO:0005324 consider: GO:0005886 [Term] id: GO:0000040 name: low-affinity iron ion transport namespace: biological_process def: "The directed, low-affinity movement of iron (Fe) ions into, out of, within or between cells by means of some external agent such as a transporter or pore. In low affinity transport the transporter is able to bind the solute only if it is only present at very low concentrations." [GOC:mah] synonym: "low affinity iron ion transport" EXACT [] is_a: GO:0034755 ! iron ion transmembrane transport [Term] id: GO:0000041 name: transition metal ion transport namespace: biological_process def: "The directed movement of transition metal ions into, out of, within or between cells by means of some external agent such as a transporter or pore. A transition metal is an element whose atom has an incomplete d-subshell of extranuclear electrons, or which gives rise to a cation or cations with an incomplete d-subshell. Transition metals often have more than one valency state. Biologically relevant transition metals include vanadium, manganese, iron, copper, cobalt, nickel, molybdenum and silver." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] subset: gosubset_prok synonym: "transition metal transport" EXACT [] is_a: GO:0030001 ! metal ion transport [Term] id: GO:0000042 name: protein targeting to Golgi namespace: biological_process def: "The process of directing proteins towards the Golgi; usually uses signals contained within the protein." [GOC:ai, GOC:mah] synonym: "protein-Golgi targeting" EXACT [] is_a: GO:0000301 ! retrograde transport, vesicle recycling within Golgi is_a: GO:0006605 ! protein targeting relationship: part_of GO:0034067 ! protein localization in Golgi apparatus [Term] id: GO:0000044 name: ascorbate stabilization namespace: biological_process def: "OBSOLETE. The reduction of the ascorbate free radical to a stable form." [GOC:ai, GOC:mtg_electron_transport] comment: This term was made obsolete because it is defined as a function term and is in the process ontology. synonym: "vitamin C stabilization" EXACT [] is_obsolete: true [Term] id: GO:0000045 name: autophagic vacuole assembly namespace: biological_process def: "The formation of a double membrane-bounded structure, the autophagosome, that occurs when a specialized membrane sac, called the isolation membrane, starts to enclose a portion of the cytoplasm." [PMID:9412464] synonym: "autophagic vacuole formation" RELATED [GOC:mah] synonym: "autophagosome biosynthesis" EXACT [] synonym: "autophagosome formation" EXACT [] synonym: "PAS formation" NARROW [] is_a: GO:0007033 ! vacuole organization is_a: GO:0070925 ! organelle assembly relationship: part_of GO:0016236 ! macroautophagy [Term] id: GO:0000046 name: autophagic vacuole fusion namespace: biological_process def: "The fusion of an autophagic vacuole with a vacuole (yeast) or lysosome (e.g. mammals and insects). In the case of yeast, inner membrane-bounded structures (autophagic bodies) appear in the vacuole." [PMID:11099404] synonym: "fusion of autophagosome with lysosome" NARROW [] is_a: GO:0048284 ! organelle fusion is_a: GO:0090174 ! organelle membrane fusion relationship: part_of GO:0016236 ! macroautophagy [Term] id: GO:0000047 name: Rieske iron-sulfur protein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a gene product. synonym: "Rieske iron-sulphur protein" EXACT [] is_obsolete: true consider: GO:0009055 [Term] id: GO:0000048 name: peptidyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: peptidyl-tRNA(1) + aminoacyl-tRNA(2) = tRNA(1) + peptidylaminoacyl-tRNA(2)." [EC:2.3.2.12, PMID:11433365, PMID:9242921] synonym: "peptidyl-tRNA:aminoacyl-tRNA N-peptidyltransferase activity" EXACT [EC:2.3.2.12] xref: EC:2.3.2.12 xref: MetaCyc:PEPTIDYLTRANSFERASE-RXN xref: Reactome:20610 "peptidyltransferase activity" is_a: GO:0016755 ! transferase activity, transferring amino-acyl groups [Term] id: GO:0000049 name: tRNA binding namespace: molecular_function def: "Interacting selectively and non-covalently with transfer RNA." [GOC:ai] subset: gosubset_prok is_a: GO:0003723 ! RNA binding [Term] id: GO:0000050 name: urea cycle namespace: biological_process alt_id: GO:0006594 alt_id: GO:0006871 def: "A cyclic metabolic pathway that converts waste nitrogen in the form of ammonium to urea." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] synonym: "ornithine cycle" EXACT [] synonym: "urea biosynthesis" EXACT [] synonym: "urea biosynthetic process" EXACT [] xref: Reactome:562580 "Urea cycle" xref: Reactome:588206 "Urea cycle" xref: Reactome:608967 "Urea cycle" xref: Reactome:633649 "Urea cycle" xref: Reactome:645277 "Urea cycle" xref: Reactome:655654 "Urea cycle" xref: Reactome:660929 "Urea cycle" xref: Reactome:666704 "Urea cycle" xref: Reactome:672800 "Urea cycle" xref: Reactome:678524 "Urea cycle" xref: Reactome:683480 "Urea cycle" xref: Reactome:689684 "Urea cycle" xref: Reactome:701420 "Urea cycle" xref: Reactome:70635 "Urea cycle" xref: Reactome:715991 "Urea cycle" xref: Reactome:720736 "Urea cycle" xref: Reactome:727938 "Urea cycle" xref: Reactome:730910 "Urea cycle" xref: Reactome:732996 "Urea cycle" xref: Reactome:733842 "Urea cycle" xref: Reactome:735550 "Urea cycle" xref: Reactome:736531 "Urea cycle" xref: Reactome:738460 "Urea cycle" xref: Wikipedia:Urea_cycle is_a: GO:0019627 ! urea metabolic process is_a: GO:0043604 ! amide biosynthetic process [Term] id: GO:0000051 name: urea cycle intermediate metabolic process namespace: biological_process def: "OBSOLETE. The chemical reactions and pathways involving any of the intermediate compounds involved in the urea cycle, a cyclic metabolic pathway that converts waste nitrogen in the form of ammonium to urea." [GOC:jl, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] comment: This term was made obsolete because it is a grouping term that is not useful, but has caused true path violations. subset: gosubset_prok synonym: "urea cycle intermediate metabolism" EXACT [] is_obsolete: true [Term] id: GO:0000052 name: citrulline metabolic process namespace: biological_process def: "The chemical reactions and pathways involving citrulline, N5-carbamoyl-L-ornithine, an alpha amino acid not found in proteins." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] subset: gosubset_prok synonym: "citrulline metabolism" EXACT [] is_a: GO:0006520 ! cellular amino acid metabolic process is_a: GO:0006575 ! cellular amino acid derivative metabolic process [Term] id: GO:0000053 name: argininosuccinate metabolic process namespace: biological_process def: "The chemical reactions and pathways involving argininosuccinate, 2-(N(omega)-arginino)succinate, an intermediate in the ornithine-urea cycle, where it is synthesized from citrulline and aspartate." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] synonym: "argininosuccinate metabolism" EXACT [] is_a: GO:0006520 ! cellular amino acid metabolic process [Term] id: GO:0000054 name: ribosomal subunit export from nucleus namespace: biological_process def: "The directed movement of a ribosomal subunit from the nucleus into the cytoplasm." [GOC:ai] synonym: "ribosomal subunit export from cell nucleus" EXACT [GOC:mah] synonym: "ribosomal subunit export out of nucleus" EXACT [GOC:mah] synonym: "ribosomal subunit transport from nucleus to cytoplasm" EXACT [GOC:mah] synonym: "ribosomal subunit-nucleus export" EXACT [GOC:mah] synonym: "ribosome export from nucleus" RELATED [GOC:mah, GOC:rb] is_a: GO:0033753 ! establishment of ribosome localization is_a: GO:0051168 ! nuclear export relationship: part_of GO:0042254 ! ribosome biogenesis [Term] id: GO:0000055 name: ribosomal large subunit export from nucleus namespace: biological_process alt_id: GO:0000057 def: "The directed movement of a ribosomal large subunit from the nucleus into the cytoplasm." [GOC:mah] synonym: "ribosomal large subunit export from cell nucleus" EXACT [] synonym: "ribosomal large subunit export out of nucleus" EXACT [] synonym: "ribosomal large subunit transport from nucleus to cytoplasm" EXACT [] synonym: "ribosomal large subunit-nucleus export" EXACT [] is_a: GO:0000054 ! ribosomal subunit export from nucleus [Term] id: GO:0000056 name: ribosomal small subunit export from nucleus namespace: biological_process alt_id: GO:0000058 def: "The directed movement of a ribosomal small subunit from the nucleus into the cytoplasm." [GOC:mah] synonym: "ribosomal small subunit export from cell nucleus" EXACT [] synonym: "ribosomal small subunit export out of nucleus" EXACT [] synonym: "ribosomal small subunit transport from nucleus to cytoplasm" EXACT [] synonym: "ribosomal small subunit-nucleus export" EXACT [] is_a: GO:0000054 ! ribosomal subunit export from nucleus [Term] id: GO:0000059 name: protein import into nucleus, docking namespace: biological_process def: "The aggregation, arrangement and bonding together of the nuclear localization signal of a protein with nuclear envelope proteins such as importins." [GOC:isa_complete, PMID:7878057] synonym: "protein docking during protein import into nucleus" EXACT [] synonym: "protein docking during protein transport from cytoplasm to nucleus" EXACT [] synonym: "protein docking during protein-nucleus import" EXACT [] synonym: "protein transport from cytoplasm to nucleus, docking" EXACT [] synonym: "protein-nucleus import, docking" EXACT [] is_a: GO:0043623 ! cellular protein complex assembly relationship: part_of GO:0006606 ! protein import into nucleus [Term] id: GO:0000060 name: protein import into nucleus, translocation namespace: biological_process def: "The vectorial transfer of a protein from the cytoplasm into the nucleus, through the nuclear pore and across the nuclear envelope." [GOC:jl, GOC:vw, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] synonym: "protein import into cell nucleus, translocation" EXACT [] synonym: "protein translocation during protein import into nucleus" EXACT [] synonym: "protein translocation during protein transport from cytoplasm to nucleus" EXACT [] synonym: "protein translocation during protein-nucleus import" EXACT [] synonym: "protein transport from cytoplasm to nucleus, translocation" EXACT [] synonym: "protein-nucleus import, translocation" EXACT [] is_a: GO:0006886 ! intracellular protein transport relationship: part_of GO:0006606 ! protein import into nucleus [Term] id: GO:0000061 name: protein import into nucleus, substrate release namespace: biological_process def: "The disaggregation of a protein complex composed of the nuclear localization sequence and the importin alpha, and importin beta proteins." [PMID:9687515] synonym: "protein import into cell nucleus, substrate release" EXACT [] synonym: "protein substrate release during protein import into nucleus" EXACT [] synonym: "protein substrate release during protein transport from cytoplasm to nucleus" EXACT [] synonym: "protein substrate release during protein-nucleus import" EXACT [] synonym: "protein transport from cytoplasm to nucleus, substrate release" EXACT [] synonym: "protein-nucleus import, substrate release" EXACT [] is_a: GO:0043624 ! cellular protein complex disassembly relationship: part_of GO:0006606 ! protein import into nucleus [Term] id: GO:0000062 name: acyl-CoA binding namespace: molecular_function def: "Interacting selectively and non-covalently with acyl-CoA, any derivative of coenzyme A in which the sulfhydryl group is in thiolester linkage with a fatty acyl group." [GOC:jl, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] subset: gosubset_prok synonym: "acyl-CoA or acyl binding" BROAD [] is_a: GO:0005504 ! fatty acid binding is_a: GO:0050662 ! coenzyme binding [Term] id: GO:0000064 name: L-ornithine transmembrane transporter activity namespace: molecular_function def: "Catalysis of the transfer of L-ornithine from one side of a membrane to the other. L-ornithine is 2,5-diaminopentanoic acid." [GOC:ai, GOC:mtg_transport, ISBN:0815340729] subset: gosubset_prok synonym: "histidine/arginine/lysine/ornithine porter activity" RELATED [] synonym: "L-ornithine transporter activity" BROAD [] xref: Reactome:20635 "L-ornithine transmembrane transporter activity" is_a: GO:0015179 ! L-amino acid transmembrane transporter activity relationship: part_of GO:0015822 ! ornithine transport [Term] id: GO:0000066 name: mitochondrial ornithine transport namespace: biological_process def: "The directed movement of ornithine, 2,5-diaminopentanoic acid, into, out of or within a mitochondrion." [GOC:ai] is_a: GO:0006839 ! mitochondrial transport is_a: GO:0015822 ! ornithine transport [Term] id: GO:0000067 name: DNA replication and chromosome cycle namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it has been superseded by more accurate terms to represent the biological processes occurring, and it is not clear that this term represents a useful entity. is_obsolete: true consider: GO:0006260 consider: GO:0007059 consider: GO:0051276 [Term] id: GO:0000070 name: mitotic sister chromatid segregation namespace: biological_process alt_id: GO:0016359 def: "The cell cycle process whereby replicated homologous chromosomes are organized and then physically separated and apportioned to two sets during the mitotic cell cycle. Each replicated chromosome, composed of two sister chromatids, aligns at the cell equator, paired with its homologous partner. One homolog of each morphologic type goes into each of the resulting chromosome sets." [GOC:ai] synonym: "mitotic chromosome segregation" EXACT [] synonym: "mitotic sister-chromatid adhesion release" NARROW [] is_a: GO:0000819 ! sister chromatid segregation relationship: part_of GO:0007067 ! mitosis [Term] id: GO:0000072 name: M phase specific microtubule process namespace: biological_process def: "A microtubule-based process that occurs only during M phase of the cell cycle." [GOC:mah] synonym: "M-phase specific microtubule process" EXACT [] is_a: GO:0007017 ! microtubule-based process relationship: part_of GO:0000279 ! M phase [Term] id: GO:0000073 name: spindle pole body separation namespace: biological_process alt_id: GO:0030475 def: "A largely uncharacterized process involving the release of duplicated spindle pole bodies (SPBs) and their migration away from each other within the nuclear membrane. Duplicated SPBs are connected by a bridge structure that may be severed in order to release the SPBs from one another. Following liberation, SPBs diffuse through the nuclear membrane until they are across from each other. SPB separation must take place in order for a bipolar mitotic spindle to assemble." [GOC:sgd_curators] is_a: GO:0022402 ! cell cycle process relationship: part_of GO:0051300 ! spindle pole body organization [Term] id: GO:0000075 name: cell cycle checkpoint namespace: biological_process def: "The cell cycle regulatory process by which progression through the cycle can be halted until conditions are suitable for the cell to proceed to the next stage." [GOC:mah, ISBN:0815316194] xref: Reactome:562759 "Cell Cycle Checkpoints" xref: Reactome:588615 "Cell Cycle Checkpoints" xref: Reactome:609115 "Cell Cycle Checkpoints" xref: Reactome:633811 "Cell Cycle Checkpoints" xref: Reactome:645581 "Cell Cycle Checkpoints" xref: Reactome:656123 "Cell Cycle Checkpoints" xref: Reactome:661257 "Cell Cycle Checkpoints" xref: Reactome:667030 "Cell Cycle Checkpoints" xref: Reactome:673178 "Cell Cycle Checkpoints" xref: Reactome:678713 "Cell Cycle Checkpoints" xref: Reactome:683635 "Cell Cycle Checkpoints" xref: Reactome:690004 "Cell Cycle Checkpoints" xref: Reactome:69620 "Cell Cycle Checkpoints" xref: Reactome:701599 "Cell Cycle Checkpoints" xref: Reactome:716184 "Cell Cycle Checkpoints" xref: Reactome:720889 "Cell Cycle Checkpoints" xref: Reactome:728134 "Cell Cycle Checkpoints" xref: Wikipedia:Cell_cycle_checkpoint is_a: GO:0051726 ! regulation of cell cycle [Term] id: GO:0000076 name: DNA replication checkpoint namespace: biological_process def: "A signal transduction based surveillance mechanism that prevents the initiation of mitosis until DNA replication is complete, thereby ensuring that progeny inherit a full complement of the genome." [GOC:rn, PMID:11728327, PMID:12537518] is_a: GO:0007165 ! signal transduction is_a: GO:0031570 ! DNA integrity checkpoint is_a: GO:0032297 ! negative regulation of DNA-dependent DNA replication initiation [Term] id: GO:0000077 name: DNA damage checkpoint namespace: biological_process def: "A signal transduction pathway, induced by DNA damage, that blocks cell cycle progression (in G1, G2 or metaphase) or slows the rate at which S phase proceeds." [PMID:11891124] synonym: "DNA damage response, signal transduction resulting in cell cycle arrest" NARROW [] xref: Wikipedia:DNA_damage_checkpoint xref: Wikipedia:Postreplication_checkpoint is_a: GO:0007165 ! signal transduction is_a: GO:0031570 ! DNA integrity checkpoint is_a: GO:0042770 ! DNA damage response, signal transduction [Term] id: GO:0000078 name: cell morphogenesis checkpoint namespace: biological_process def: "A cell cycle checkpoint observed when aspects of polarity control are defective, which maintains coordination between the process of cellular morphogenesis and the nuclear events of the cell cycle. For example, in budding yeast cell-cycle delay or arrest is induced when aspects of bud formation are defective." [GOC:vw, PMID:14644188] is_a: GO:0007093 ! mitotic cell cycle checkpoint relationship: part_of GO:0000902 ! cell morphogenesis [Term] id: GO:0000079 name: regulation of cyclin-dependent protein kinase activity namespace: biological_process def: "Any process that modulates the frequency, rate or extent of CDK activity." [GOC:go_curators] synonym: "regulation of CDK activity" EXACT [] is_a: GO:0045859 ! regulation of protein kinase activity is_a: GO:0051726 ! regulation of cell cycle intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0004693 ! cyclin-dependent protein kinase activity relationship: regulates GO:0004693 ! cyclin-dependent protein kinase activity [Term] id: GO:0000080 name: G1 phase of mitotic cell cycle namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through G1 phase, one of two 'gap' phases in the mitotic cell cycle; G1 is the interval between the completion of mitosis and the beginning of DNA synthesis." [GOC:dph, GOC:mah, ISBN:0815316194] xref: Reactome:563078 "G1 Phase" xref: Reactome:588690 "G1 Phase" xref: Reactome:609426 "G1 Phase" xref: Reactome:634126 "G1 Phase" xref: Reactome:69236 "G1 Phase" is_a: GO:0051318 ! G1 phase relationship: part_of GO:0051329 ! interphase of mitotic cell cycle [Term] id: GO:0000082 name: G1/S transition of mitotic cell cycle namespace: biological_process def: "Progression from G1 phase to S phase of the mitotic cell cycle." [GOC:mah] xref: Reactome:562723 "G1/S Transition" xref: Reactome:588343 "G1/S Transition" xref: Reactome:609086 "G1/S Transition" xref: Reactome:633781 "G1/S Transition" xref: Reactome:645384 "G1/S Transition" xref: Reactome:655752 "G1/S Transition" xref: Reactome:660985 "G1/S Transition" xref: Reactome:666764 "G1/S Transition" xref: Reactome:672872 "G1/S Transition" xref: Reactome:678586 "G1/S Transition" xref: Reactome:683544 "G1/S Transition" xref: Reactome:689750 "G1/S Transition" xref: Reactome:69206 "G1/S Transition" xref: Reactome:701481 "G1/S Transition" xref: Reactome:716052 "G1/S Transition" xref: Reactome:720691 "G1/S Transition" xref: Reactome:728003 "G1/S Transition" xref: Reactome:730933 "G1/S Transition" xref: Reactome:733033 "G1/S Transition" xref: Reactome:733875 "G1/S Transition" xref: Reactome:735596 "G1/S Transition" xref: Reactome:738507 "G1/S Transition" is_a: GO:0022402 ! cell cycle process relationship: part_of GO:0051329 ! interphase of mitotic cell cycle [Term] id: GO:0000083 name: regulation of transcription involved in G1/S-phase of mitotic cell cycle namespace: biological_process def: "Any process that regulates transcription such that the target genes are transcribed as part of the G1/S phase of the mitotic cell cycle." [GOC:dph, GOC:mah, GOC:tb] synonym: "G1/S-specific transcription in mitotic cell cycle" RELATED [] synonym: "regulation of transcription from RNA polymerase II promoter of G1/S-phase of mitotic cell cycle" RELATED [] xref: Reactome:69205 "G1/S-Specific Transcription" is_a: GO:0006357 ! regulation of transcription from RNA polymerase II promoter is_a: GO:0022402 ! cell cycle process relationship: part_of GO:0000082 ! G1/S transition of mitotic cell cycle [Term] id: GO:0000084 name: S phase of mitotic cell cycle namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through S phase, the part of the mitotic cell cycle during which DNA synthesis takes place." [GOC:dph, GOC:mah, ISBN:0815316194] xref: Reactome:562903 "S Phase" xref: Reactome:588524 "S Phase" xref: Reactome:609265 "S Phase" xref: Reactome:634035 "S Phase" xref: Reactome:645520 "S Phase" xref: Reactome:655877 "S Phase" xref: Reactome:661101 "S Phase" xref: Reactome:666879 "S Phase" xref: Reactome:673001 "S Phase" xref: Reactome:678722 "S Phase" xref: Reactome:683655 "S Phase" xref: Reactome:689993 "S Phase" xref: Reactome:69242 "S Phase" xref: Reactome:701627 "S Phase" xref: Reactome:716211 "S Phase" xref: Reactome:720784 "S Phase" xref: Reactome:728160 "S Phase" xref: Reactome:731116 "S Phase" xref: Reactome:733118 "S Phase" xref: Reactome:733928 "S Phase" xref: Reactome:736604 "S Phase" xref: Reactome:738583 "S Phase" is_a: GO:0051320 ! S phase relationship: part_of GO:0051329 ! interphase of mitotic cell cycle [Term] id: GO:0000085 name: G2 phase of mitotic cell cycle namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through G2 phase, one of two 'gap' phases in the mitotic cell cycle; G2 is the interval between the completion of DNA synthesis and the beginning of mitosis." [GOC:dph, GOC:mah, ISBN:0815316194] xref: Reactome:563344 "G2 Phase" xref: Reactome:588959 "G2 Phase" xref: Reactome:609681 "G2 Phase" xref: Reactome:634371 "G2 Phase" xref: Reactome:645836 "G2 Phase" xref: Reactome:656157 "G2 Phase" xref: Reactome:683841 "G2 Phase" xref: Reactome:68911 "G2 Phase" xref: Reactome:690089 "G2 Phase" xref: Reactome:701840 "G2 Phase" xref: Reactome:716415 "G2 Phase" xref: Reactome:728366 "G2 Phase" is_a: GO:0051319 ! G2 phase relationship: part_of GO:0051329 ! interphase of mitotic cell cycle [Term] id: GO:0000086 name: G2/M transition of mitotic cell cycle namespace: biological_process def: "Progression from G2 phase to M phase of the mitotic cell cycle." [GOC:mah] xref: Reactome:562747 "G2/M Transition" xref: Reactome:588367 "G2/M Transition" xref: Reactome:609289 "G2/M Transition" xref: Reactome:634060 "G2/M Transition" xref: Reactome:645587 "G2/M Transition" xref: Reactome:655913 "G2/M Transition" xref: Reactome:661098 "G2/M Transition" xref: Reactome:666876 "G2/M Transition" xref: Reactome:672998 "G2/M Transition" xref: Reactome:678719 "G2/M Transition" xref: Reactome:683652 "G2/M Transition" xref: Reactome:689990 "G2/M Transition" xref: Reactome:69275 "G2/M Transition" xref: Reactome:701624 "G2/M Transition" xref: Reactome:716208 "G2/M Transition" xref: Reactome:720812 "G2/M Transition" xref: Reactome:728157 "G2/M Transition" is_a: GO:0022402 ! cell cycle process relationship: part_of GO:0051329 ! interphase of mitotic cell cycle [Term] id: GO:0000087 name: M phase of mitotic cell cycle namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through M phase, the part of the mitotic cell cycle during which mitosis takes place." [GOC:dph, GOC:mah, ISBN:0815316194] synonym: "M-phase of mitotic cell cycle" EXACT [] xref: Reactome:562807 "M Phase" xref: Reactome:588423 "M Phase" xref: Reactome:609163 "M Phase" xref: Reactome:633858 "M Phase" xref: Reactome:645443 "M Phase" xref: Reactome:655806 "M Phase" xref: Reactome:661016 "M Phase" xref: Reactome:666794 "M Phase" xref: Reactome:672905 "M Phase" xref: Reactome:678619 "M Phase" xref: Reactome:683844 "M Phase" xref: Reactome:68886 "M Phase" xref: Reactome:689775 "M Phase" xref: Reactome:720919 "M Phase" xref: Reactome:728036 "M Phase" is_a: GO:0000279 ! M phase relationship: part_of GO:0000278 ! mitotic cell cycle [Term] id: GO:0000088 name: mitotic prophase namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through prophase, the initial stage of mitosis in which the chromosomes are condensed but are not yet attached to a mitotic spindle." [GOC:dph, GOC:mah, ISBN:0815316194] xref: Reactome:562806 "Mitotic Prophase" xref: Reactome:588422 "Mitotic Prophase" xref: Reactome:609162 "Mitotic Prophase" xref: Reactome:633857 "Mitotic Prophase" xref: Reactome:645442 "Mitotic Prophase" xref: Reactome:655805 "Mitotic Prophase" xref: Reactome:661015 "Mitotic Prophase" xref: Reactome:666793 "Mitotic Prophase" xref: Reactome:672904 "Mitotic Prophase" xref: Reactome:678618 "Mitotic Prophase" xref: Reactome:68875 "Mitotic Prophase" xref: Reactome:689774 "Mitotic Prophase" xref: Reactome:728035 "Mitotic Prophase" is_a: GO:0051324 ! prophase relationship: part_of GO:0007067 ! mitosis [Term] id: GO:0000089 name: mitotic metaphase namespace: biological_process def: "Progression through metaphase, the stage of mitosis at which chromosomes are firmly attached to the mitotic spindle at its equator but have not yet segregated to opposite poles." [ISBN:0815316194] xref: Reactome:68879 "Mitotic Metaphase" is_a: GO:0051323 ! metaphase relationship: part_of GO:0007067 ! mitosis [Term] id: GO:0000090 name: mitotic anaphase namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through anaphase, the stage of mitosis during which the two sets of chromosomes separate and move away from each other." [GOC:dph, ISBN:0815316194] xref: Reactome:68882 "Mitotic Anaphase" is_a: GO:0051322 ! anaphase relationship: part_of GO:0007067 ! mitosis [Term] id: GO:0000091 name: mitotic anaphase A namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through anaphase A, the part of mitotic anaphase in which the kinetochore microtubules shorten as chromosomes move toward the spindle poles." [GOC:dph, GOC:mah, ISBN:0815316194] is_a: GO:0000090 ! mitotic anaphase [Term] id: GO:0000092 name: mitotic anaphase B namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through anaphase B, the part of mitotic anaphase in which the polar microtubules elongate and the two poles of the spindle move farther apart." [GOC:dph, GOC:mah, ISBN:0815316194] is_a: GO:0000090 ! mitotic anaphase [Term] id: GO:0000093 name: mitotic telophase namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through telophase, the last of the stages of mitosis; in the canonical cell cycle, telophase begins when the chromosomes arrive at the poles of the cell and the division of the cytoplasm starts." [GOC:dph, GOC:mah, ISBN:0721662544 "Dorland's Illustrated Medical Dictionary"] is_a: GO:0051326 ! telophase relationship: part_of GO:0007067 ! mitosis [Term] id: GO:0000094 name: septin assembly and septum formation namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it was not defined and the string name implied two separate processes. is_obsolete: true consider: GO:0000917 consider: GO:0000918 consider: GO:0000921 [Term] id: GO:0000095 name: S-adenosylmethionine transmembrane transporter activity namespace: molecular_function alt_id: GO:0015177 def: "Catalysis of the transfer of S-adenosylmethionine from one side of a membrane to the other. S-adenosylmethionine is S-(5'-adenosyl)-L-methionine, an important intermediate in one-carbon metabolism." [GOC:ai] synonym: "S-adenosyl methionine permease activity" EXACT [] synonym: "S-adenosyl methionine transporter activity" EXACT [] synonym: "S-adenosylmethionine permease activity" EXACT [] synonym: "S-adenosylmethionine transporter activity" BROAD [] is_a: GO:0000099 ! sulfur amino acid transmembrane transporter activity is_a: GO:0051184 ! cofactor transporter activity relationship: part_of GO:0015805 ! S-adenosylmethionine transport [Term] id: GO:0000096 name: sulfur amino acid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving amino acids containing sulfur, comprising cysteine, homocysteine, methionine and selenocysteine." [GOC:ai] subset: gosubset_prok synonym: "sulfur amino acid metabolism" EXACT [] synonym: "sulphur amino acid metabolic process" EXACT [] synonym: "sulphur amino acid metabolism" EXACT [] is_a: GO:0006520 ! cellular amino acid metabolic process is_a: GO:0006790 ! sulfur metabolic process [Term] id: GO:0000097 name: sulfur amino acid biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of amino acids containing sulfur, comprising cysteine, methionine and selenocysteine." [GOC:ai] subset: gosubset_prok synonym: "sulfur amino acid anabolism" EXACT [] synonym: "sulfur amino acid biosynthesis" EXACT [] synonym: "sulfur amino acid formation" EXACT [] synonym: "sulfur amino acid synthesis" EXACT [] synonym: "sulphur amino acid biosynthesis" EXACT [] synonym: "sulphur amino acid biosynthetic process" EXACT [] is_a: GO:0000096 ! sulfur amino acid metabolic process is_a: GO:0008652 ! cellular amino acid biosynthetic process is_a: GO:0044272 ! sulfur compound biosynthetic process [Term] id: GO:0000098 name: sulfur amino acid catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of amino acids containing sulfur, comprising cysteine, methionine and selenocysteine." [GOC:ai] subset: gosubset_prok synonym: "sulfur amino acid breakdown" EXACT [] synonym: "sulfur amino acid catabolism" EXACT [] synonym: "sulfur amino acid degradation" EXACT [] synonym: "sulphur amino acid catabolic process" EXACT [] synonym: "sulphur amino acid catabolism" EXACT [] is_a: GO:0000096 ! sulfur amino acid metabolic process is_a: GO:0009063 ! cellular amino acid catabolic process is_a: GO:0044273 ! sulfur compound catabolic process [Term] id: GO:0000099 name: sulfur amino acid transmembrane transporter activity namespace: molecular_function def: "Catalysis of the transfer of sulfur amino acids from one side of a membrane to the other. Sulphur amino acids contain sulfur in the form of cystine, methionine or their derivatives." [GOC:ai, GOC:mtg_transport, ISBN:0815340729] subset: gosubset_prok synonym: "sulfur amino acid transporter activity" BROAD [] synonym: "sulphur amino acid transmembrane transporter activity" EXACT [] synonym: "sulphur amino acid transporter activity" BROAD [] is_a: GO:0015171 ! amino acid transmembrane transporter activity relationship: part_of GO:0000101 ! sulfur amino acid transport [Term] id: GO:0000100 name: S-methylmethionine transmembrane transporter activity namespace: molecular_function alt_id: GO:0015178 def: "Catalysis of the transfer of S-methylmethionine from one side of a membrane to the other." [GOC:ai] subset: gosubset_prok synonym: "S-methylmethionine permease activity" EXACT [] synonym: "S-methylmethionine transporter activity" BROAD [] is_a: GO:0000099 ! sulfur amino acid transmembrane transporter activity relationship: part_of GO:0015806 ! S-methylmethionine transport [Term] id: GO:0000101 name: sulfur amino acid transport namespace: biological_process def: "The directed movement of amino acids containing sulfur (cystine, methionine and their derivatives) into, out of, within or between cells by means of some external agent such as a transporter or pore." [GOC:ai] subset: gosubset_prok synonym: "sulphur amino acid transport" EXACT [] is_a: GO:0006865 ! amino acid transport [Term] id: GO:0000102 name: L-methionine secondary active transmembrane transporter activity namespace: molecular_function def: "Catalysis of the transfer of L-methionine from one side of a membrane to the other, up its concentration gradient. The transporter binds the solute and undergoes a series of conformational changes. Transport works equally well in either direction and is driven by a chemiosmotic source of energy. Chemiosmotic sources of energy include uniport, symport or antiport." [GOC:mtg_transport] synonym: "L-methionine porter activity" RELATED [] is_a: GO:0005294 ! neutral L-amino acid secondary active transmembrane transporter activity is_a: GO:0015191 ! L-methionine transmembrane transporter activity [Term] id: GO:0000103 name: sulfate assimilation namespace: biological_process alt_id: GO:0019378 def: "The pathways by which inorganic sulfate is processed and incorporated into sulfated compounds." [GOC:jl] subset: gosubset_prok synonym: "sulfate assimilation, phosphoadenylyl sulfate reduction by an oxidoreductase, acting on sulfur group of donors, NAD or NADP as acceptor" NARROW [] synonym: "sulphate assimilation" EXACT [] synonym: "sulphate assimilation, phosphoadenylyl sulphate reduction by an oxidoreductase, acting on sulphur group of donors, NAD or NADP as acceptor" NARROW [] is_a: GO:0006790 ! sulfur metabolic process [Term] id: GO:0000104 name: succinate dehydrogenase activity namespace: molecular_function alt_id: GO:0019739 def: "Catalysis of the reaction: succinate + acceptor = fumarate + reduced acceptor." [EC:1.3.99.1, GOC:kd] subset: gosubset_prok synonym: "fumarate dehydrogenase activity" EXACT [EC:1.3.99.1] synonym: "fumarate reductase activity" EXACT [EC:1.3.99.1] synonym: "fumaric hydrogenase activity" EXACT [EC:1.3.99.1] synonym: "succinate oxidoreductase activity" EXACT [EC:1.3.99.1] synonym: "succinate:(acceptor) oxidoreductase activity" EXACT [EC:1.3.99.1] synonym: "succinate:acceptor oxidoreductase activity" EXACT [EC:1.3.99.1] synonym: "succinic acid dehydrogenase activity" EXACT [EC:1.3.99.1] synonym: "succinic dehydrogenase activity" BROAD [EC:1.3.99.1] synonym: "succinodehydrogenase activity" EXACT [EC:1.3.99.1] synonym: "succinyl dehydrogenase activity" EXACT [EC:1.3.99.1] xref: EC:1.3.99.1 xref: MetaCyc:SUCC-FUM-OXRED-RXN xref: Reactome:21566 "succinate dehydrogenase activity" is_a: GO:0016627 ! oxidoreductase activity, acting on the CH-CH group of donors [Term] id: GO:0000105 name: histidine biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of histidine, 2-amino-3-(1H-imidazol-4-yl)propanoic acid." [GOC:go_curators] subset: gosubset_prok synonym: "histidine anabolism" EXACT [] synonym: "histidine biosynthesis" EXACT [] synonym: "histidine formation" EXACT [] synonym: "histidine synthesis" EXACT [] xref: MetaCyc:HISTSYN-PWY is_a: GO:0006547 ! histidine metabolic process is_a: GO:0009076 ! histidine family amino acid biosynthetic process is_a: GO:0018130 ! heterocycle biosynthetic process [Term] id: GO:0000107 name: imidazoleglycerol-phosphate synthase activity namespace: molecular_function def: "Catalysis of the reaction: phosphoribulosylformimino-AICAR-P + L-glutamine = D-erythro-imidazole-glycerol-phosphate + AICAR + L-glutamate." [MetaCyc:GLUTAMIDOTRANS-RXN] subset: gosubset_prok synonym: "glutamine amidotransferase:cyclase activity" BROAD [] synonym: "imidazole glycerol phosphate synthase activity" EXACT [] synonym: "imidazole-glycerol-phosphate synthase activity" RELATED [] synonym: "imidazoleglycerol phosphate synthase activity" EXACT [] xref: EC:2.4.2.- xref: MetaCyc:GLUTAMIDOTRANS-RXN is_a: GO:0016763 ! transferase activity, transferring pentosyl groups [Term] id: GO:0000108 name: repairosome namespace: cellular_component def: "A stable complex of proteins that carry out the DNA damage recognition and incision reactions characteristic of nucleotide excision repair (NER), such as DNA damage recognition, DNA helix unwinding, and endonucleolytic cleavage at sites flanking damaged DNA; includes TFIIH subunits and additional polypeptides; may form in the absence of DNA damage." [PMID:10681587, PMID:9852079] is_a: GO:0000109 ! nucleotide-excision repair complex [Term] id: GO:0000109 name: nucleotide-excision repair complex namespace: cellular_component def: "Any complex formed of proteins that act in nucleotide-excision repair." [PMID:10915862] comment: Note that process information is included in the term and definition for the purpose of describing and distinguishing the complex. subset: goslim_pir is_a: GO:0043234 ! protein complex is_a: GO:0044428 ! nuclear part [Term] id: GO:0000110 name: nucleotide-excision repair factor 1 complex namespace: cellular_component def: "One of several protein complexes involved in nucleotide-excision repair; possesses DNA damage recognition and endodeoxynuclease activities. In S. cerevisiae, it is composed of Rad1p, Rad10p, and Rad14p; in human the subunits are ERCC4/XPF, ERCC1 and XPA, respectively." [PMID:10915862] comment: Note that process and function information are included in the term and definition for the purpose of describing and distinguishing the complex. synonym: "NEF1 complex" EXACT [] synonym: "XPA-ERCC1-ERCC4 complex" EXACT [PMID:8197175] is_a: GO:0000109 ! nucleotide-excision repair complex [Term] id: GO:0000111 name: nucleotide-excision repair factor 2 complex namespace: cellular_component def: "One of several protein complexes involved in nucleotide-excision repair; possesses damaged DNA binding activity. In S. cerevisiae, it is composed of Rad4p and Rad23p." [PMID:10915862] comment: Note that process and function information are included in the term and definition for the purpose of describing and distinguishing the complex. synonym: "NEF2 complex" EXACT [] is_a: GO:0000109 ! nucleotide-excision repair complex [Term] id: GO:0000112 name: nucleotide-excision repair factor 3 complex namespace: cellular_component def: "One of several protein complexes involved in nucleotide-excision repair; possesses endodeoxynuclease and DNA helicase activities. In S. cerevisiae, it is composed of Rad2p and the core TFIIH-Ssl2p complex (Core TFIIH is composed of Rad3p, Tfb1p, Tfb2p, Ssl1p, and Tfb4p. Note that Ssl2p is also called Rad25p)." [PMID:10915862, PMID:14500720, PMID:7813015] comment: Note that process and function information are included in the term and definition for the purpose of describing and distinguishing the complex. synonym: "NEF3 complex" EXACT [] is_a: GO:0000109 ! nucleotide-excision repair complex [Term] id: GO:0000113 name: nucleotide-excision repair factor 4 complex namespace: cellular_component def: "One of several protein complexes involved in nucleotide-excision repair; possesses DNA damage recognition and DNA-dependent ATPase activities. In S. cerevisiae, it is composed of Rad7p and Rad16p." [PMID:10915862] comment: Note that process and function information are included in the term and definition for the purpose of describing and distinguishing the complex. synonym: "NEF4 complex" EXACT [] is_a: GO:0000109 ! nucleotide-excision repair complex [Term] id: GO:0000114 name: regulation of transcription involved in G1 phase of mitotic cell cycle namespace: biological_process def: "Any process that regulates transcription such that the target genes are transcribed as part of the G1 phase of the mitotic cell cycle." [GOC:dph, GOC:mah, GOC:tb] synonym: "G1-specific transcription in mitotic cell cycle" RELATED [] synonym: "regulation of transcription from RNA polymerase II promoter during G1 phase of cell cycle" EXACT [] is_a: GO:0006357 ! regulation of transcription from RNA polymerase II promoter is_a: GO:0022402 ! cell cycle process relationship: part_of GO:0000080 ! G1 phase of mitotic cell cycle [Term] id: GO:0000115 name: regulation of transcription involved in S-phase of mitotic cell cycle namespace: biological_process def: "A cell cycle process that regulates transcription such that the target genes are transcribed as part of the S phase of the mitotic cell cycle." [GOC:dph, GOC:mah, GOC:tb] synonym: "regulation of transcription from RNA polymerase II promoter during S-phase of mitotic cell cycle" RELATED [] synonym: "S-phase-specific transcription in mitotic cell cycle" RELATED [] synonym: "S-specific transcription in mitotic cell cycle" EXACT [] xref: Reactome:69241 "S-specific transcription in mitotic cell cycle" is_a: GO:0006357 ! regulation of transcription from RNA polymerase II promoter is_a: GO:0022402 ! cell cycle process relationship: part_of GO:0000084 ! S phase of mitotic cell cycle [Term] id: GO:0000116 name: regulation of transcription involved in G2-phase of mitotic cell cycle namespace: biological_process def: "Any process that regulates transcription such that the target genes are transcribed as part of the G2 phase of the mitotic cell cycle." [GOC:dph, GOC:mah, GOC:tb] synonym: "G2-specific transcription in mitotic cell cycle" RELATED [] synonym: "regulation of transcription from RNA polymerase II during G2-phase of mitotic cell cycle" RELATED [] is_a: GO:0006357 ! regulation of transcription from RNA polymerase II promoter is_a: GO:0022402 ! cell cycle process relationship: part_of GO:0000085 ! G2 phase of mitotic cell cycle [Term] id: GO:0000117 name: regulation of transcription involved in G2/M-phase of mitotic cell cycle namespace: biological_process def: "Any process that regulates transcription such that the target genes are transcribed as part of the G2/M phase of the mitotic cell cycle." [GOC:dph, GOC:mah, GOC:tb] synonym: "G2/M-specific transcription in mitotic cell cycle" RELATED [] synonym: "regulation of transcription from RNA polymerase II promoter during G2/M-phase of mitotic cell cycle" RELATED [] xref: Reactome:69274 "G2/M-specific transcription in mitotic cell cycle" is_a: GO:0006357 ! regulation of transcription from RNA polymerase II promoter is_a: GO:0022402 ! cell cycle process relationship: part_of GO:0000086 ! G2/M transition of mitotic cell cycle [Term] id: GO:0000118 name: histone deacetylase complex namespace: cellular_component def: "A protein complex that possesses histone deacetylase activity." [GOC:mah] comment: Note that this term represents a location, not a function; the activity possessed by this complex is mentioned in the definition for the purpose of describing and distinguishing the complex. The function of this complex is represented by the molecular function term 'histone deacetylase activity ; GO:0004407'. synonym: "HDAC complex" EXACT [] is_a: GO:0016585 ! chromatin remodeling complex is_a: GO:0044451 ! nucleoplasm part [Term] id: GO:0000120 name: RNA polymerase I transcription factor complex namespace: cellular_component def: "A transcription factor complex that acts at promoters of genes transcribed by RNA polymerase I." [GOC:mah] is_a: GO:0005667 ! transcription factor complex is_a: GO:0044452 ! nucleolar part [Term] id: GO:0000121 name: glycerol-1-phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: glycerol 1-phosphate + H2O = glycerol + phosphate." [EC:3.1.3.21] synonym: "alpha-glycerol phosphatase activity" EXACT [EC:3.1.3.21] synonym: "alpha-glycerophosphatase activity" EXACT [EC:3.1.3.21] synonym: "glycerol 3-phosphatase activity" EXACT [EC:3.1.3.21] synonym: "glycerol 3-phosphate phosphohydrolase activity" EXACT [EC:3.1.3.21] synonym: "glycerol-1-phosphate phosphohydrolase activity" EXACT [EC:3.1.3.21] synonym: "glycerol-3-phosphate phosphatase activity" EXACT [EC:3.1.3.21] xref: EC:3.1.3.21 xref: MetaCyc:GLYCEROL-1-PHOSPHATASE-RXN is_a: GO:0016791 ! phosphatase activity [Term] id: GO:0000122 name: negative regulation of transcription from RNA polymerase II promoter namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of transcription from an RNA polymerase II promoter." [GOC:go_curators] synonym: "down regulation of transcription from RNA polymerase II promoter" EXACT [] synonym: "down-regulation of transcription from RNA polymerase II promoter" EXACT [] synonym: "downregulation of transcription from RNA polymerase II promoter" EXACT [] synonym: "inhibition of transcription from RNA polymerase II promoter" NARROW [] synonym: "negative regulation of transcription from Pol II promoter" EXACT [] is_a: GO:0006357 ! regulation of transcription from RNA polymerase II promoter is_a: GO:0045892 ! negative regulation of transcription, DNA-dependent intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006366 ! transcription from RNA polymerase II promoter relationship: negatively_regulates GO:0006366 ! transcription from RNA polymerase II promoter [Term] id: GO:0000123 name: histone acetyltransferase complex namespace: cellular_component def: "A protein complex that possesses histone acetyltransferase activity." [GOC:mah] comment: Note that this term represents a location, not a function; the activity possessed by this complex is mentioned in the definition for the purpose of describing and distinguishing the complex. The function of this complex is represented by the molecular function term 'histone acetyltransferase activity ; GO:0004402'. synonym: "histone acetylase complex" EXACT [] is_a: GO:0043234 ! protein complex is_a: GO:0044451 ! nucleoplasm part [Term] id: GO:0000124 name: SAGA complex namespace: cellular_component def: "A SAGA-type histone acetyltransferase complex that contains Spt8 (in budding yeast) or a homolog thereof; additional polypeptides include Spt group, consisting of Spt7, Spt3, and Spt20/Ada5, which interact with the TATA-binding protein (TBP); the Ada group, consisting of Ada1, Ada2, Ada3, Ada4/Gcn5, and Ada5/Spt20, which is functionally linked to the nucleosomal HAT activity; Tra1, an ATM/PI-3 kinase-related protein that targets DNA-bound activators for recruitment to promoters; the TBP-associated factor (TAF) proteins, consisting of Taf5, Taf6, Taf9, Taf10, and Taf12, which mediate nucleosomal HAT activity and are thought to help recruit the basal transcription machinery." [PMID:10637607, PMID:17337012] synonym: "Spt-Ada-Gcn5-acetyltransferase complex" EXACT [] is_a: GO:0070461 ! SAGA-type complex [Term] id: GO:0000125 name: PCAF complex namespace: cellular_component def: "A large multiprotein complex that possesses histone acetyltransferase activity and is involved in regulation of transcription. The composition is similar to that of the SAGA complex, but includes fewer Spt and Ada proteins, and more TAFs." [PMID:10637607] comment: See also the cellular component term 'SAGA complex ; GO:0000124'. synonym: "PCAF histone acetylase-associated complex" EXACT [] is_a: GO:0070461 ! SAGA-type complex [Term] id: GO:0000126 name: transcription factor TFIIIB complex namespace: cellular_component def: "A transcription factor complex that is involved in regulating transcription from RNA polymerase III (Pol III) promoters. TFIIIB contains the TATA-binding protein (TBP) and two Pol III-specific proteins, B'' and BRF." [GOC:mah, PMID:11433012] is_a: GO:0005667 ! transcription factor complex [Term] id: GO:0000127 name: transcription factor TFIIIC complex namespace: cellular_component def: "A transcription factor complex that is involved in regulating transcription from RNA polymerase III (Pol III) promoters. TFIIIC contains three conserved subunits that associate with the proximal Pol III promoter element, and additional subunits that associate with sequence elements downstream of the promoter and are more diverged among species." [GOC:mah, PMID:11433012] is_a: GO:0005667 ! transcription factor complex [Term] id: GO:0000128 name: flocculation namespace: biological_process def: "The non-sexual aggregation of single-celled organisms." [GOC:jl] subset: goslim_pir subset: gosubset_prok xref: Wikipedia:Flocculation is_a: GO:0051704 ! multi-organism process [Term] id: GO:0000131 name: incipient cellular bud site namespace: cellular_component def: "The portion of the budding yeast plasma membrane where a daughter cell will emerge. The yeast marks this spot with bud-site selection proteins before bud emergence occurs. Actin is polarized to this spot just prior to and during bud emergence." [GOC:clt] is_a: GO:0044424 ! intracellular part [Term] id: GO:0000132 name: establishment of mitotic spindle orientation namespace: biological_process alt_id: GO:0030607 alt_id: GO:0030609 def: "A cell cycle process that sets the alignment of mitotic spindle relative to other cellular structures." [GOC:ems] synonym: "establishment of spindle orientation during mitosis" RELATED [GOC:dph, GOC:tb] synonym: "establishment of spindle orientation involved in mitotic cell cycle" EXACT [GOC:dph, GOC:tb] synonym: "mitotic spindle orientation" EXACT [] synonym: "orienting of mitotic spindle" EXACT [] is_a: GO:0040001 ! establishment of mitotic spindle localization is_a: GO:0051294 ! establishment of spindle orientation [Term] id: GO:0000133 name: polarisome namespace: cellular_component def: "Protein complex that plays a role in determining cell polarity by directing the localized assembly of actin filaments at polarization sites; in Saccharomyces the polarisome includes Bni1p, Spa2p, Pea2p, and Bud6p." [PMID:14734532, PMID:14998522, PMID:9632790] subset: goslim_pir is_a: GO:0043234 ! protein complex is_a: GO:0044448 ! cell cortex part relationship: part_of GO:0030427 ! site of polarized growth [Term] id: GO:0000135 name: septin checkpoint namespace: biological_process def: "A cell cycle checkpoint that detects septin defects and responds by inhibiting the mitotic CDK. In Saccharomyces cerevisiae, correct formation of a functional septin cytoskeleton permits the cell to switch to isotropic bud growth and the onset of mitotic chromosome segregation. In the presence of septin defects, the mitotic CDK is inhibited and both the switch to isotropic bud growth and the onset of mitotic chromosome segregation is delayed." [PMID:9925642] is_a: GO:0031565 ! cytokinesis checkpoint [Term] id: GO:0000136 name: alpha-1,6-mannosyltransferase complex namespace: cellular_component def: "A large, multiprotein complex with alpha-1,6 mannosyltransferase activity, located in the cis Golgi membrane; adds mannan to N-linked glycans on proteins." [GOC:mcc, PMID:10037752, PMID:11095735] is_a: GO:0031501 ! mannosyltransferase complex is_a: GO:0044431 ! Golgi apparatus part relationship: part_of GO:0000137 ! Golgi cis cisterna [Term] id: GO:0000137 name: Golgi cis cisterna namespace: cellular_component def: "The Golgi cisterna closest to the endoplasmic reticulum; the first processing compartment through which proteins pass after export from the ER." [ISBN:0815316194] is_a: GO:0031985 ! Golgi cisterna [Term] id: GO:0000138 name: Golgi trans cisterna namespace: cellular_component def: "The Golgi cisterna farthest from the endoplasmic reticulum; the final processing compartment through which proteins pass before exiting the Golgi apparatus; the compartment in which N-linked protein glycosylation is completed." [ISBN:0815316194] synonym: "late Golgi" RELATED [GOC:mah] is_a: GO:0031985 ! Golgi cisterna [Term] id: GO:0000139 name: Golgi membrane namespace: cellular_component def: "The lipid bilayer surrounding any of the compartments of the Golgi apparatus." [GOC:mah] is_a: GO:0031090 ! organelle membrane is_a: GO:0044431 ! Golgi apparatus part relationship: part_of GO:0012505 ! endomembrane system [Term] id: GO:0000140 name: acylglycerone-phosphate reductase activity namespace: molecular_function def: "Catalysis of the reaction: 1-palmitoylglycerol 3-phosphate + NADP+ = palmitoylglycerone phosphate + NADPH + H+." [EC:1.1.1.101] synonym: "1-acyldihydroxyacetone-phosphate reductase activity" EXACT [] synonym: "1-palmitoylglycerol-3-phosphate:NADP+ oxidoreductase activity" EXACT [EC:1.1.1.101] synonym: "acyldihydroxyacetone phosphate reductase activity" EXACT [EC:1.1.1.101] synonym: "palmitoyl dihydroxyacetone phosphate reductase activity" EXACT [EC:1.1.1.101] synonym: "palmitoyl-dihydroxyacetone-phosphate reductase activity" EXACT [EC:1.1.1.101] synonym: "palmitoyldihydroxyacetone-phosphate reductase activity" EXACT [EC:1.1.1.101] xref: EC:1.1.1.101 xref: MetaCyc:ACYLGLYCERONE-PHOSPHATE-REDUCTASE-RXN xref: Reactome:21659 "acylglycerone-phosphate reductase activity" is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0000142 name: cellular bud neck contractile ring namespace: cellular_component def: "A contractile ring, i.e. a cytoskeletal structure composed of actin filaments and myosin, that forms beneath the plasma membrane at the mother-bud neck in mitotic cells that divide by budding in preparation for completing cytokinesis. An example of this structure is found in Saccharomyces cerevisiae." [GOC:krc, PMID:16009555] synonym: "neck ring" EXACT [] is_a: GO:0005826 ! actomyosin contractile ring intersection_of: GO:0005826 ! actomyosin contractile ring intersection_of: part_of GO:0005935 ! cellular bud neck relationship: part_of GO:0005935 ! cellular bud neck [Term] id: GO:0000144 name: cellular bud neck septin ring namespace: cellular_component def: "A ring-shaped structure that forms at the site of cytokinesis; composed of members of the conserved family of filament forming proteins called septins as well as septin-associated proteins. In S. cerevisiae, this structure forms at the time of bud emergence and the septins show a high rate of exchange." [GOC:krc, PMID:16009555] is_a: GO:0000399 ! cellular bud neck septin structure is_a: GO:0005940 ! septin ring is_a: GO:0032161 ! cleavage apparatus septin structure intersection_of: GO:0005940 ! septin ring intersection_of: part_of GO:0005935 ! cellular bud neck [Term] id: GO:0000145 name: exocyst namespace: cellular_component def: "A protein complex peripherally associated with the plasma membrane that determines where vesicles dock and fuse. At least eight complex components are conserved between yeast and mammals." [PMID:9700152] synonym: "Sec6/8 complex" EXACT [] xref: Wikipedia:Exocyst is_a: GO:0043234 ! protein complex is_a: GO:0044448 ! cell cortex part [Term] id: GO:0000146 name: microfilament motor activity namespace: molecular_function def: "Catalysis of movement along a microfilament, coupled to the hydrolysis of a nucleoside triphosphate (usually ATP)." [GOC:mah, ISBN:0815316194] synonym: "actin filament motor activity" EXACT [GOC:dph] synonym: "actin-filament motor activity" EXACT [] synonym: "muscle motor activity" NARROW [] synonym: "myosin ATPase activity" RELATED [] xref: Reactome:10657 "microfilament motor activity" is_a: GO:0003774 ! motor activity [Term] id: GO:0000147 name: actin cortical patch assembly namespace: biological_process def: "Assembly of an actin cortical patch, a discrete actin-containing structure found at the plasma membrane of fungal cells." [GOC:mah] is_a: GO:0022607 ! cellular component assembly is_a: GO:0030866 ! cortical actin cytoskeleton organization [Term] id: GO:0000148 name: 1,3-beta-glucan synthase complex namespace: cellular_component def: "A protein complex that catalyzes the transfer of a glucose moiety from UDP-glucose to a 1,3-beta-D-glucan chain." [EC:2.4.1.34] is_a: GO:0043234 ! protein complex is_a: GO:0044459 ! plasma membrane part [Term] id: GO:0000149 name: SNARE binding namespace: molecular_function def: "Interacting selectively and non-covalently with a SNARE (soluble N-ethylmaleimide-sensitive factor attached protein receptor) protein." [PMID:12642621] synonym: "SNAP receptor binding" EXACT [] xref: Reactome:15373 "SNARE binding" is_a: GO:0005515 ! protein binding [Term] id: GO:0000150 name: recombinase activity namespace: molecular_function def: "Catalysis of the identification and base-pairing of homologous sequences between single-stranded DNA and double-stranded DNA." [GOC:elh] comment: Note that this term represents activities that do not break or form phosphodiester bonds, and is therefore not a parent of 'site-specific recombinase activity ; GO:0009009'. subset: gosubset_prok synonym: "strand transferase" NARROW [] is_a: GO:0003824 ! catalytic activity [Term] id: GO:0000151 name: ubiquitin ligase complex namespace: cellular_component def: "A protein complex that includes a ubiquitin-protein ligase and other proteins that may confer substrate specificity on the complex." [PMID:9529603] subset: goslim_pir subset: gosubset_prok is_a: GO:0043234 ! protein complex is_a: GO:0044424 ! intracellular part [Term] id: GO:0000152 name: nuclear ubiquitin ligase complex namespace: cellular_component def: "A ubiquitin ligase complex found in the nucleus." [GOC:mah] is_a: GO:0000151 ! ubiquitin ligase complex is_a: GO:0044428 ! nuclear part intersection_of: GO:0000151 ! ubiquitin ligase complex intersection_of: part_of GO:0005634 ! nucleus [Term] id: GO:0000153 name: cytoplasmic ubiquitin ligase complex namespace: cellular_component def: "A ubiquitin ligase complex found in the cytoplasm." [GOC:mah] is_a: GO:0000151 ! ubiquitin ligase complex is_a: GO:0044444 ! cytoplasmic part intersection_of: GO:0000151 ! ubiquitin ligase complex intersection_of: part_of GO:0005737 ! cytoplasm [Term] id: GO:0000154 name: rRNA modification namespace: biological_process alt_id: GO:0016548 def: "The covalent alteration of one or more nucleotides within an rRNA molecule to produce an rRNA molecule with a sequence that differs from that coded genetically." [GOC:curators] comment: The term 'RNA editing' (GO:0016547) was merged into 'RNA modification' (GO:0009451) on the basis of statements in the preface of Modification and Editing of RNA (ISBN:1555811337) that there is no clear distinction between modification and editing. Parallel changes were made for substrate (e.g. tRNA, rRNA, etc.) specific child terms of 'RNA editing'. subset: gosubset_prok synonym: "rRNA editing" NARROW [GOC:hjd] is_a: GO:0006364 ! rRNA processing is_a: GO:0009451 ! RNA modification [Term] id: GO:0000155 name: two-component sensor activity namespace: molecular_function def: "Catalysis of the phosphorylation of a specific transcription regulator in response to the presence of a particular signal substance outside the cell." [GOC:mah] subset: gosubset_prok synonym: "two-component sensor molecule" NARROW [] synonym: "two-component system sensor activity " EXACT [] xref: EC:2.7.3.- is_a: GO:0004673 ! protein histidine kinase activity is_a: GO:0004871 ! signal transducer activity [Term] id: GO:0000156 name: two-component response regulator activity namespace: molecular_function def: "Alters the level of transcription of target genes, usually by binding to a transcription factor, when phosphorylated by a sensor that detects the presence of a particular signal substance outside the cell." [GOC:mah] subset: gosubset_prok is_a: GO:0004871 ! signal transducer activity is_a: GO:0030528 ! transcription regulator activity relationship: part_of GO:0070297 ! regulation of two-component signal transduction system (phosphorelay) [Term] id: GO:0000159 name: protein phosphatase type 2A complex namespace: cellular_component def: "A protein complex that has protein serine/threonine phosphatase activity that is polycation-stimulated (PCS), being directly stimulated by protamine, polylysine, or histone H1; it constitutes a subclass of several enzymes activated by different histones and polylysine, and consists of catalytic, scaffolding, and regulatory subunits. The catalytic and scaffolding subunits form the core enzyme, and the holoenzyme also includes the regulatory subunit." [GOC:mah, ISBN:0198547684, PMID:17245430] is_a: GO:0008287 ! protein serine/threonine phosphatase complex is_a: GO:0044424 ! intracellular part [Term] id: GO:0000160 name: two-component signal transduction system (phosphorelay) namespace: biological_process def: "A conserved series of molecular signals found in prokaryotes and eukaryotes; involves autophosphorylation of a histidine kinase and the transfer of the phosphate group to an aspartate that then acts as a phospho-donor to response regulator proteins." [PMID:9191038] subset: gosubset_prok synonym: "histidyl-aspartyl phosphorelay" EXACT [] is_a: GO:0023060 ! signal transmission [Term] id: GO:0000161 name: MAPKKK cascade involved in osmosensory signaling pathway namespace: biological_process def: "MAPKKK cascade involved in signal transduction in response to change in osmotic conditions." [PMID:9561267] synonym: "MAPKKK cascade during osmolarity sensing" EXACT [] synonym: "osmolarity sensing, MAPKKK cascade" EXACT [] is_a: GO:0000165 ! MAPKKK cascade relationship: part_of GO:0007231 ! osmosensory signaling pathway [Term] id: GO:0000162 name: tryptophan biosynthetic process namespace: biological_process alt_id: GO:0009096 def: "The chemical reactions and pathways resulting in the formation of tryptophan, the chiral amino acid 2-amino-3-(1H-indol-3-yl)propanoic acid; tryptophan is synthesized from chorismate via anthranilate." [GOC:mah, ISBN:0471331309 "Biochemical Pathways", MetaCyc:TRPSYN-PWY] subset: gosubset_prok synonym: "aromatic amino acid family biosynthetic process, anthranilate pathway" EXACT [] synonym: "tryptophan anabolism" EXACT [] synonym: "tryptophan biosynthesis" EXACT [] synonym: "tryptophan formation" EXACT [] synonym: "tryptophan synthesis" EXACT [] xref: MetaCyc:TRPSYN-PWY is_a: GO:0006568 ! tryptophan metabolic process is_a: GO:0009073 ! aromatic amino acid family biosynthetic process is_a: GO:0046219 ! indolalkylamine biosynthetic process [Term] id: GO:0000164 name: protein phosphatase type 1 complex namespace: cellular_component def: "A protein complex that possesses magnesium-dependent protein serine/threonine phosphatase (AMD phosphatase) activity, and consists of a catalytic subunit and one or more regulatory subunits that dictates the phosphatase's substrate specificity, function, and activity." [GOC:mah, GOC:ssd] is_a: GO:0008287 ! protein serine/threonine phosphatase complex is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0000165 name: MAPKKK cascade namespace: biological_process def: "A cascade of at least three protein kinase activities culminating in the phosphorylation and activation of a MAP kinase. MAPKKK cascades lie downstream of numerous signaling pathways." [GOC:mah, PMID:9561267] synonym: "ERK/MAPK cascade" EXACT [] synonym: "MAP kinase cascade" EXACT [] synonym: "MAP kinase kinase kinase cascade" EXACT [] synonym: "MAPK cascade" EXACT [] synonym: "MAPK signaling" RELATED [] synonym: "MAPK signalling" RELATED [] synonym: "MAPKKK cascade during sporulation" NARROW [] xref: Reactome:109869 "MAP kinase cascade" xref: Reactome:562693 "MAP kinase cascade" xref: Reactome:588314 "MAP kinase cascade" xref: Reactome:609058 "MAP kinase cascade" xref: Reactome:633751 "MAP kinase cascade" xref: Reactome:645360 "MAP kinase cascade" xref: Reactome:655728 "MAP kinase cascade" xref: Reactome:661175 "MAP kinase cascade" xref: Reactome:666953 "MAP kinase cascade" xref: Reactome:673088 "MAP kinase cascade" xref: Reactome:678788 "MAP kinase cascade" xref: Reactome:683716 "MAP kinase cascade" xref: Reactome:689933 "MAP kinase cascade" xref: Reactome:701708 "MAP kinase cascade" xref: Reactome:716285 "MAP kinase cascade" xref: Reactome:728228 "MAP kinase cascade" xref: Reactome:731060 "MAP kinase cascade" xref: Wikipedia:MAPK_cascade xref: Wikipedia:Mitogen-activated_protein_kinase is_a: GO:0007243 ! intracellular protein kinase cascade [Term] id: GO:0000166 name: nucleotide binding namespace: molecular_function def: "Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose moiety." [GOC:mah, ISBN:0198547684] subset: goslim_generic subset: goslim_pir subset: goslim_plant subset: gosubset_prok is_a: GO:0005488 ! binding [Term] id: GO:0000167 name: activation of MAPKKK activity involved in osmosensory signaling pathway namespace: biological_process def: "Any process that initiates the activity of the inactive enzyme MAP kinase kinase kinase during osmolarity sensing." [PMID:9561267] synonym: "activation of MAP kinase kinase kinase activity during osmolarity sensing" EXACT [] synonym: "activation of MAPKKK activity during osmolarity sensing" EXACT [] synonym: "osmolarity sensing, activation of MAP kinase kinase kinase activity" EXACT [] synonym: "osmolarity sensing, activation of MAPKKK activity" EXACT [] is_a: GO:0000185 ! activation of MAPKKK activity relationship: part_of GO:0000161 ! MAPKKK cascade involved in osmosensory signaling pathway [Term] id: GO:0000168 name: activation of MAPKK activity involved in osmosensory signaling pathway namespace: biological_process alt_id: GO:0007233 def: "Any process that initiates the activity of the inactive enzyme MAP kinase kinase during osmolarity sensing." [PMID:9561267] synonym: "activation of MAP kinase kinase activity during osmolarity sensing" EXACT [] synonym: "activation of MAPKK activity during osmolarity sensing" EXACT [] synonym: "activation of Pbs2 kinase" NARROW [] synonym: "osmolarity sensing, activation of MAP kinase kinase activity" EXACT [] synonym: "osmolarity sensing, activation of MAPKK activity" EXACT [] is_a: GO:0000186 ! activation of MAPKK activity relationship: part_of GO:0000161 ! MAPKKK cascade involved in osmosensory signaling pathway [Term] id: GO:0000169 name: activation of MAPK activity involved in osmosensory signaling pathway namespace: biological_process def: "Any process that initiates the activity of the inactive enzyme MAP kinase activity during osmolarity sensing." [PMID:9561267] synonym: "activation of MAPK activity during osmolarity sensing" EXACT [] synonym: "osmolarity sensing, activation of MAPK activity" EXACT [] is_a: GO:0000187 ! activation of MAPK activity relationship: part_of GO:0000161 ! MAPKKK cascade involved in osmosensory signaling pathway [Term] id: GO:0000170 name: sphingosine hydroxylase activity namespace: molecular_function def: "Catalysis of the hydroxylation of sphingolipid long chain bases." [PMID:9556590] xref: Reactome:21747 "sphingosine hydroxylase activity" is_a: GO:0016491 ! oxidoreductase activity [Term] id: GO:0000171 name: ribonuclease MRP activity namespace: molecular_function def: "Catalysis of the site-specific cleavage of RNA by a catalytic RNA_mediated mechanism; substrates include the A3 site in the ITS1 of pre-rRNA." [PMID:17881380] synonym: "RNase MRP" EXACT [] xref: Wikipedia:RNase_MRP is_a: GO:0004540 ! ribonuclease activity [Term] id: GO:0000172 name: ribonuclease MRP complex namespace: cellular_component def: "A ribonucleoprotein complex that contains an RNA molecule of the snoRNA family, and cleaves the rRNA precursor as part of rRNA transcript processing. It also has other roles: In S. cerevisiae it is involved in cell cycle-regulated degradation of daughter cell-specific mRNAs, while in mammalian cells it also enters the mitochondria and processes RNAs to create RNA primers for DNA replication." [GOC:sgd_curators, PMID:10690410, PMID:14729943, PMID:7510714] synonym: "ribonuclease mitochondrial RNA processing complex" EXACT [] synonym: "RNase MRP complex" EXACT [] is_a: GO:0005732 ! small nucleolar ribonucleoprotein complex [Term] id: GO:0000173 name: inactivation of MAPK activity involved in osmosensory signaling pathway namespace: biological_process def: "Any process that terminates the activity of the active enzyme MAP kinase during osmolarity sensing." [PMID:9561267] synonym: "inactivation of MAPK activity during osmolarity sensing" EXACT [] synonym: "osmolarity sensing, inactivation of MAPK" EXACT [] synonym: "osmolarity sensing, termination of MAPK activity" EXACT [] synonym: "termination of MAPK activity during osmolarity sensing" EXACT [] is_a: GO:0000188 ! inactivation of MAPK activity relationship: part_of GO:0000161 ! MAPKKK cascade involved in osmosensory signaling pathway [Term] id: GO:0000174 name: inactivation of MAPK (mating sensu Saccharomyces) namespace: biological_process def: "OBSOLETE. Downregulation of MAP kinase activity in the context of transduction of mating pheromone signal, as described for Saccharomyces." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. is_obsolete: true replaced_by: GO:0000750 [Term] id: GO:0000175 name: 3'-5'-exoribonuclease activity namespace: molecular_function def: "Catalysis of the sequential cleavage of mononucleotides from a free 3' terminus of an RNA molecule." [GOC:mah, ISBN:0198547684] subset: gosubset_prok synonym: "3'-5' exoribonuclease activity" EXACT [] xref: EC:3.1.13.- xref: Reactome:21755 "3'-5'-exoribonuclease activity" is_a: GO:0008408 ! 3'-5' exonuclease activity is_a: GO:0016896 ! exoribonuclease activity, producing 5'-phosphomonoesters [Term] id: GO:0000176 name: nuclear exosome (RNase complex) namespace: cellular_component def: "Complex of 3'-5' exoribonucleases found in the nucleus." [PMID:10465791] synonym: "eukaryotic exosome multienzyme ribonuclease complex" EXACT [] synonym: "nuclear exosome (ribonuclease complex)" EXACT [] synonym: "nuclear exosome multienzyme ribonuclease complex" EXACT [] is_a: GO:0000178 ! exosome (RNase complex) is_a: GO:0044428 ! nuclear part intersection_of: GO:0000178 ! exosome (RNase complex) intersection_of: part_of GO:0005634 ! nucleus [Term] id: GO:0000177 name: cytoplasmic exosome (RNase complex) namespace: cellular_component def: "Complex of 3'-5' exoribonucleases found in the cytoplasm." [PMID:10465791] synonym: "cytoplasmic exosome (ribonuclease complex)" EXACT [] synonym: "cytoplasmic exosome multienzyme ribonuclease complex" EXACT [] synonym: "prokaryotic exosome multienzyme ribonuclease complex" EXACT [] is_a: GO:0000178 ! exosome (RNase complex) is_a: GO:0044444 ! cytoplasmic part intersection_of: GO:0000178 ! exosome (RNase complex) intersection_of: part_of GO:0005737 ! cytoplasm [Term] id: GO:0000178 name: exosome (RNase complex) namespace: cellular_component def: "Complex of 3'-5' exoribonucleases." [PMID:10465791] comment: Note that this term should not be confused with 'exosome' used in the context of vesicles released from multivesicular bodies. subset: goslim_pir synonym: "exosome (ribonucleasease complex)" EXACT [] synonym: "exosome multienzyme ribonuclease complex" EXACT [] is_a: GO:0043234 ! protein complex is_a: GO:0044424 ! intracellular part [Term] id: GO:0000179 name: rRNA (adenine-N6,N6-)-dimethyltransferase activity namespace: molecular_function alt_id: GO:0043790 def: "Catalysis of the dimethylation two adjacent A residues in the loop closing the 3'-terminal stem of the 18S rRNA, using S-adenosyl-L-methionine as a methyl donor." [ISBN:1555811337 "Modification and Editing of RNA", PMID:10690410] subset: gosubset_prok synonym: "18S rRNA dimethylase activity" EXACT [] synonym: "dimethyladenosine transferase activity" EXACT [IMG:02532] synonym: "S-adenosylmethionine-6-N', N'-adenosyl(rRNA) dimethyltransferase activity" EXACT [IMG:02532] xref: EC:2.1.1.- is_a: GO:0008170 ! N-methyltransferase activity is_a: GO:0016433 ! rRNA (adenine) methyltransferase activity [Term] id: GO:0000180 name: cytosolic large ribosomal subunit namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because more specific children exist. is_obsolete: true consider: GO:0022625 [Term] id: GO:0000181 name: cytosolic small ribosomal subunit namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because more specific children exist. is_obsolete: true consider: GO:0022627 [Term] id: GO:0000182 name: rDNA binding namespace: molecular_function def: "Interacting selectively and non-covalently with DNA sequences encoding ribosomal RNA." [GOC:mah] synonym: "ribosomal DNA binding" EXACT [] is_a: GO:0043565 ! sequence-specific DNA binding [Term] id: GO:0000183 name: chromatin silencing at rDNA namespace: biological_process def: "Repression of transcription of ribosomal DNA by altering the structure of chromatin." [PMID:10219245] synonym: "chromatin silencing at ribosomal DNA" EXACT [] synonym: "heterochromatic silencing at rDNA" EXACT [] is_a: GO:0006342 ! chromatin silencing [Term] id: GO:0000184 name: nuclear-transcribed mRNA catabolic process, nonsense-mediated decay namespace: biological_process def: "The nonsense-mediated decay pathway for nuclear-transcribed mRNAs degrades mRNAs in which an amino-acid codon has changed to a nonsense codon; this prevents the translation of such mRNAs into truncated, and potentially harmful, proteins." [GOC:krc, GOC:ma, PMID:10025395] synonym: "mRNA breakdown, nonsense-mediated decay" EXACT [] synonym: "mRNA catabolic process, nonsense-mediated" EXACT [] synonym: "mRNA catabolism, nonsense-mediated" EXACT [] synonym: "mRNA degradation, nonsense-mediated decay" EXACT [] synonym: "nonsense-mediated mRNA decay" EXACT [] synonym: "nuclear mRNA catabolic process, nonsense-mediated decay" EXACT [] xref: Wikipedia:Nonsense-mediated_decay xref: Wikipedia:Nonsense-mediated_mRNA_decay is_a: GO:0000956 ! nuclear-transcribed mRNA catabolic process [Term] id: GO:0000185 name: activation of MAPKKK activity namespace: biological_process def: "Any process that initiates the activity of the inactive enzyme MAP kinase kinase kinase." [PMID:9561267] synonym: "activation of MAP kinase kinase kinase" EXACT [] synonym: "activation of MAPKKK activity during sporulation" NARROW [] synonym: "positive regulation of MAP kinase kinase kinase activity" BROAD [] synonym: "positive regulation of MAPKKK activity" BROAD [] is_a: GO:0032147 ! activation of protein kinase activity relationship: part_of GO:0000165 ! MAPKKK cascade [Term] id: GO:0000186 name: activation of MAPKK activity namespace: biological_process alt_id: GO:0007255 def: "The initiation of the activity of the inactive enzyme MAP kinase kinase by phosphorylation by a MAPKKK." [PMID:9561267] synonym: "activation of MAP kinase kinase activity" EXACT [] synonym: "activation of MAP/ERK kinase kinase" EXACT [] synonym: "activation of MAPKK activity during sporulation" NARROW [] synonym: "positive regulation of MAPKK activity" BROAD [] xref: Reactome:110049 "MEK activation" xref: Reactome:169893 "Prolonged ERK activation events" xref: Reactome:562528 "Prolonged ERK activation events" xref: Reactome:562692 "MEK activation" xref: Reactome:588154 "Prolonged ERK activation events" xref: Reactome:588313 "MEK activation" xref: Reactome:608922 "Prolonged ERK activation events" xref: Reactome:609057 "MEK activation" xref: Reactome:633604 "Prolonged ERK activation events" xref: Reactome:633750 "MEK activation" xref: Reactome:645245 "Prolonged ERK activation events" xref: Reactome:645359 "MEK activation" xref: Reactome:655621 "Prolonged ERK activation events" xref: Reactome:655727 "MEK activation" xref: Reactome:661182 "Prolonged ERK activation events" xref: Reactome:666960 "Prolonged ERK activation events" xref: Reactome:673095 "Prolonged ERK activation events" xref: Reactome:678795 "Prolonged ERK activation events" xref: Reactome:683723 "Prolonged ERK activation events" xref: Reactome:689940 "Prolonged ERK activation events" xref: Reactome:701715 "Prolonged ERK activation events" xref: Reactome:716292 "Prolonged ERK activation events" xref: Reactome:728235 "Prolonged ERK activation events" xref: Reactome:731071 "Prolonged ERK activation events" is_a: GO:0006468 ! protein amino acid phosphorylation is_a: GO:0032147 ! activation of protein kinase activity relationship: part_of GO:0000165 ! MAPKKK cascade [Term] id: GO:0000187 name: activation of MAPK activity namespace: biological_process def: "The initiation of the activity of the inactive enzyme MAP kinase by phosphorylation by a MAPKK." [PMID:9561267] synonym: "activation of MAP kinase" EXACT [] synonym: "activation of MAPK activity during sporulation" NARROW [] synonym: "MAPK activation" EXACT [] xref: Reactome:112409 "ERK activation" xref: Reactome:450302 "activated TAK1 mediates p38 MAPK activation" xref: Reactome:562685 "activated TAK1 mediates p38 MAPK activation" xref: Reactome:563117 "ERK activation" xref: Reactome:588310 "activated TAK1 mediates p38 MAPK activation" xref: Reactome:588729 "ERK activation" xref: Reactome:609050 "activated TAK1 mediates p38 MAPK activation" xref: Reactome:609465 "ERK activation" xref: Reactome:633743 "activated TAK1 mediates p38 MAPK activation" xref: Reactome:634166 "ERK activation" xref: Reactome:645356 "activated TAK1 mediates p38 MAPK activation" xref: Reactome:645675 "ERK activation" xref: Reactome:655726 "activated TAK1 mediates p38 MAPK activation" xref: Reactome:656005 "ERK activation" xref: Reactome:661174 "ERK activation" xref: Reactome:666952 "ERK activation" xref: Reactome:673087 "ERK activation" xref: Reactome:678787 "ERK activation" xref: Reactome:683715 "ERK activation" xref: Reactome:689932 "ERK activation" xref: Reactome:701707 "ERK activation" xref: Reactome:716284 "ERK activation" xref: Reactome:728227 "ERK activation" xref: Reactome:731059 "ERK activation" is_a: GO:0006468 ! protein amino acid phosphorylation is_a: GO:0043406 ! positive regulation of MAP kinase activity relationship: part_of GO:0000165 ! MAPKKK cascade [Term] id: GO:0000188 name: inactivation of MAPK activity namespace: biological_process def: "Any process that terminates the activity of the active enzyme MAP kinase." [PMID:9561267] synonym: "inactivation of MAPK during sporulation" NARROW [] synonym: "termination of MAPK activity" EXACT [] is_a: GO:0043407 ! negative regulation of MAP kinase activity relationship: part_of GO:0000165 ! MAPKKK cascade [Term] id: GO:0000189 name: nuclear translocation of MAPK namespace: biological_process def: "The directed movement of a MAP kinase to the nucleus upon activation." [PMID:9561267] xref: Reactome:109867 "Nuclear translocation of phospho-ERK-1 dimer" xref: Reactome:109868 "Nuclear translocation of phospho-ERK-2 dimer" xref: Reactome:112353 "Nuclear translocation of phospho-ERK-2 dimer" xref: Reactome:556252 "Nuclear translocation of phospho-ERK-1 dimer" xref: Reactome:556253 "Nuclear translocation of phospho-ERK-2 dimer" xref: Reactome:604756 "Nuclear translocation of phospho-ERK-1 dimer" xref: Reactome:604757 "Nuclear translocation of phospho-ERK-2 dimer" xref: Reactome:628892 "Nuclear translocation of phospho-ERK-1 dimer" xref: Reactome:628893 "Nuclear translocation of phospho-ERK-2 dimer" xref: Reactome:642893 "Nuclear translocation of phospho-ERK-1 dimer" xref: Reactome:642894 "Nuclear translocation of phospho-ERK-2 dimer" xref: Reactome:653436 "Nuclear translocation of phospho-ERK-1 dimer" xref: Reactome:653437 "Nuclear translocation of phospho-ERK-2 dimer" xref: Reactome:659822 "Nuclear translocation of phospho-ERK-1 dimer" xref: Reactome:659824 "Nuclear translocation of phospho-ERK-2 dimer" xref: Reactome:665541 "Nuclear translocation of phospho-ERK-1 dimer" xref: Reactome:665543 "Nuclear translocation of phospho-ERK-2 dimer" xref: Reactome:671573 "Nuclear translocation of phospho-ERK-1 dimer" xref: Reactome:671575 "Nuclear translocation of phospho-ERK-2 dimer" xref: Reactome:677442 "Nuclear translocation of phospho-ERK-1 dimer" xref: Reactome:677444 "Nuclear translocation of phospho-ERK-2 dimer" xref: Reactome:682504 "Nuclear translocation of phospho-ERK-1 dimer" xref: Reactome:682506 "Nuclear translocation of phospho-ERK-2 dimer" xref: Reactome:688450 "Nuclear translocation of phospho-ERK-1 dimer" xref: Reactome:688452 "Nuclear translocation of phospho-ERK-2 dimer" xref: Reactome:699339 "Nuclear translocation of phospho-ERK-1 dimer" xref: Reactome:699341 "Nuclear translocation of phospho-ERK-2 dimer" xref: Reactome:713488 "Nuclear translocation of phospho-ERK-1 dimer" xref: Reactome:713490 "Nuclear translocation of phospho-ERK-2 dimer" xref: Reactome:726480 "Nuclear translocation of phospho-ERK-1 dimer" xref: Reactome:726482 "Nuclear translocation of phospho-ERK-2 dimer" xref: Reactome:730355 "Nuclear translocation of phospho-ERK-1 dimer" xref: Reactome:730357 "Nuclear translocation of phospho-ERK-2 dimer" is_a: GO:0000060 ! protein import into nucleus, translocation relationship: part_of GO:0000165 ! MAPKKK cascade [Term] id: GO:0000190 name: MAPKKK cascade (pseudohyphal growth) namespace: biological_process def: "OBSOLETE. MAPKKK cascade involved in transduction of signal promoting pseudohyphal or invasive growth." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. is_obsolete: true [Term] id: GO:0000191 name: activation of MAPKKK (pseudohyphal growth) namespace: biological_process def: "OBSOLETE. Upregulation of MAPKKK activity in the context of regulating pseudohyphal or invasive growth." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. is_obsolete: true [Term] id: GO:0000192 name: activation of MAPKK (pseudohyphal growth) namespace: biological_process def: "OBSOLETE. Upregulation of a MAP kinase kinase in the context of regulating pseudohyphal or invasive growth." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. is_obsolete: true [Term] id: GO:0000193 name: activation of MAPK (pseudohyphal growth) namespace: biological_process def: "OBSOLETE. Upregulation of MAP kinase activity in the context of regulating pseudohyphal or invasive growth." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. is_obsolete: true [Term] id: GO:0000194 name: inactivation of MAPK (pseudohyphal growth) namespace: biological_process def: "OBSOLETE. Downregulation of MAP kinase activity in the context of regulating pseudohyphal or invasive growth." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. is_obsolete: true [Term] id: GO:0000195 name: nuclear translocation of MAPK (pseudohyphal growth) namespace: biological_process def: "OBSOLETE. Movement of a MAP kinase to the nucleus in the context of regulating pseudohyphal or invasive growth." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. is_obsolete: true [Term] id: GO:0000196 name: MAPKKK cascade involved in cell wall biogenesis namespace: biological_process def: "A MAPKKK cascade culminating in the phosphorylation and activation of a MAP kinase that occurs in the context of cell wall biogenesis, the assembly and arrangement of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells." [PMID:9561267] synonym: "cell wall biogenesis, MAPKKK cascade" EXACT [] is_a: GO:0000165 ! MAPKKK cascade relationship: part_of GO:0042546 ! cell wall biogenesis [Term] id: GO:0000197 name: activation of MAPKKK activity involved in cell wall biogenesis namespace: biological_process def: "Any process that initiates the activity of the inactive enzyme MAP kinase kinase kinase in the context of cell wall biogenesis, the assembly and arrangement of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells." [PMID:9561267] synonym: "activation of MAP kinase kinase kinase activity during cell wall biogenesis" EXACT [] synonym: "activation of MAPKKK activity involved in cell wall integrity" EXACT [GOC:dgf] synonym: "cell wall biogenesis, activation of MAP kinase kinase kinase activity" EXACT [] synonym: "cell wall biogenesis, activation of MAPKKK activity" EXACT [] is_a: GO:0000185 ! activation of MAPKKK activity relationship: part_of GO:0000196 ! MAPKKK cascade involved in cell wall biogenesis [Term] id: GO:0000198 name: activation of MAPKK activity involved in cell wall biogenesis namespace: biological_process def: "Any process that initiates the activity of the inactive enzyme MAP kinase kinase in the context of cell wall biogenesis, the assembly and arrangement of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells." [PMID:9561267] synonym: "activation of MAP kinase kinase activity during cell wall biogenesis" EXACT [] synonym: "activation of MAPKK activity involved in cell wall integrity" EXACT [GOC:dgf] synonym: "cell wall biogenesis, activation of MAP kinase kinase activity" EXACT [] synonym: "cell wall biogenesis, activation of MAPKK activity" EXACT [] is_a: GO:0000186 ! activation of MAPKK activity relationship: part_of GO:0000196 ! MAPKKK cascade involved in cell wall biogenesis [Term] id: GO:0000199 name: activation of MAPK activity involved in cell wall biogenesis namespace: biological_process def: "Any process that initiates the activity of the inactive enzyme MAP kinase in the context of cell wall biogenesis, the assembly and arrangement of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells." [PMID:9561267] synonym: "activation of MAPK activity involved in cell wall integrity" EXACT [GOC:dgf] synonym: "cell wall biogenesis, activation of MAPK activity" EXACT [] is_a: GO:0000187 ! activation of MAPK activity relationship: part_of GO:0000196 ! MAPKKK cascade involved in cell wall biogenesis [Term] id: GO:0000200 name: inactivation of MAPK activity involved in cell wall biogenesis namespace: biological_process def: "Any process that terminates the activity of the active enzyme MAP kinase in the context of cell wall biogenesis, the assembly and arrangement of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells." [PMID:9561267] synonym: "cell wall biogenesis, inactivation of MAPK activity" EXACT [] synonym: "cell wall biogenesis, termination of MAPK activity" EXACT [] synonym: "inactivation of MAPK activity involved in cell wall integrity" EXACT [GOC:dgf] synonym: "termination of MAPK activity during cell wall biogenesis" EXACT [] is_a: GO:0000188 ! inactivation of MAPK activity relationship: part_of GO:0000196 ! MAPKKK cascade involved in cell wall biogenesis [Term] id: GO:0000201 name: nuclear translocation of MAPK involved in cell wall biogenesis namespace: biological_process def: "The directed movement of a MAP kinase to the nucleus that occurs in the context of cell wall biogenesis, the assembly and arrangement of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells." [PMID:9561267] synonym: "cell wall biogenesis, nuclear translocation of MAPK" EXACT [] synonym: "nuclear translocation of MAPK involved in cell wall integrity" EXACT [GOC:dgf] is_a: GO:0000189 ! nuclear translocation of MAPK relationship: part_of GO:0000196 ! MAPKKK cascade involved in cell wall biogenesis [Term] id: GO:0000202 name: MAPKKK cascade during sporulation (sensu Saccharomyces) namespace: biological_process def: "OBSOLETE. MAPKKK cascade involved in transduction of signal promoting sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. is_obsolete: true [Term] id: GO:0000203 name: activation of MAPKKK during sporulation (sensu Saccharomyces) namespace: biological_process def: "OBSOLETE. Upregulation of MAPKKK activity in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. is_obsolete: true [Term] id: GO:0000204 name: activation of MAPKK during sporulation (sensu Saccharomyces) namespace: biological_process def: "OBSOLETE. Upregulation of a MAP kinase kinase in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. is_obsolete: true [Term] id: GO:0000205 name: activation of MAPK during sporulation (sensu Saccharomyces) namespace: biological_process def: "OBSOLETE. Upregulation of MAP kinase activity in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. is_obsolete: true [Term] id: GO:0000206 name: inactivation of MAPK during sporulation (sensu Saccharomyces) namespace: biological_process def: "OBSOLETE. Downregulation of MAP kinase activity in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. is_obsolete: true [Term] id: GO:0000207 name: nuclear translocation of MAPK during sporulation (sensu Saccharomyces) namespace: biological_process def: "OBSOLETE. Movement of a MAP kinase to the nucleus in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. is_obsolete: true [Term] id: GO:0000208 name: nuclear translocation of MAPK involved in osmosensory signaling pathway namespace: biological_process def: "The directed movement of a MAP kinase to the nucleus during osmolarity sensing." [PMID:9561267] synonym: "nuclear translocation of MAPK during osmolarity sensing" EXACT [] synonym: "osmolarity sensing, nuclear translocation of MAPK" EXACT [] is_a: GO:0000189 ! nuclear translocation of MAPK relationship: part_of GO:0000161 ! MAPKKK cascade involved in osmosensory signaling pathway [Term] id: GO:0000209 name: protein polyubiquitination namespace: biological_process def: "Addition of multiple ubiquitin moieties to a protein, forming a ubiquitin chain." [ISBN:0815316194] synonym: "polyubiquitin" RELATED [] synonym: "protein polyubiquitinylation" EXACT [] synonym: "protein polyubiquitylation" EXACT [] is_a: GO:0016567 ! protein ubiquitination [Term] id: GO:0000210 name: NAD+ diphosphatase activity namespace: molecular_function def: "Catalysis of the reaction: NAD+ + H2O = AMP + NMN." [EC:3.6.1.22] subset: gosubset_prok synonym: "NAD diphosphatase activity" EXACT [] synonym: "NAD pyrophosphatase activity" EXACT [] synonym: "NAD(+) pyrophosphatase activity" EXACT [EC:3.6.1.22] synonym: "NAD+ phosphohydrolase activity" EXACT [EC:3.6.1.22] synonym: "NAD+ pyrophosphatase activity" EXACT [EC:3.6.1.22] synonym: "NADH pyrophosphatase activity" BROAD [EC:3.6.1.22] synonym: "NADP pyrophosphatase activity" BROAD [EC:3.6.1.22] synonym: "nicotinamide adenine dinucleotide pyrophosphatase activity" EXACT [EC:3.6.1.22] xref: EC:3.6.1.22 xref: MetaCyc:NADPYROPHOSPHAT-RXN is_a: GO:0004551 ! nucleotide diphosphatase activity [Term] id: GO:0000211 name: protein degradation tagging activity namespace: molecular_function def: "OBSOLETE. Covalent addition of polyubiquitin to another protein, targeting the tagged protein for destruction." [GOC:cl, ISBN:0815316194] comment: This term was made obsolete because it represents a biological process and a molecular function. is_obsolete: true consider: GO:0005515 consider: GO:0019941 consider: GO:0042787 [Term] id: GO:0000212 name: meiotic spindle organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the microtubule spindle during a meiotic cell cycle." [GOC:mah] synonym: "meiotic spindle organisation" EXACT [GOC:curators] synonym: "meiotic spindle organization and biogenesis" RELATED [GOC:mah] synonym: "spindle organization during meiosis" EXACT [GOC:mah] is_a: GO:0007051 ! spindle organization is_a: GO:0022402 ! cell cycle process relationship: part_of GO:0051321 ! meiotic cell cycle [Term] id: GO:0000213 name: tRNA-intron endonuclease activity namespace: molecular_function def: "Catalysis of the endonucleolytic cleavage of pre-tRNA, producing 5'-hydroxyl and 2',3'-cyclic phosphate termini, and specifically removing the intron." [EC:3.1.27.9] synonym: "splicing endonuclease activity" EXACT [EC:3.1.27.9] synonym: "transfer ribonucleate intron endoribonuclease activity" EXACT [EC:3.1.27.9] synonym: "transfer splicing endonuclease activity" EXACT [EC:3.1.27.9] synonym: "tRNA splicing endonuclease activity" EXACT [EC:3.1.27.9] synonym: "tRNA-intron endoribonuclease activity" EXACT [] synonym: "tRNA-splicing endonuclease activity" EXACT [EC:3.1.27.9] synonym: "tRNATRPintron endonuclease activity" EXACT [EC:3.1.27.9] xref: EC:3.1.27.9 xref: MetaCyc:3.1.27.9-RXN is_a: GO:0004549 ! tRNA-specific ribonuclease activity is_a: GO:0016892 ! endoribonuclease activity, producing 3'-phosphomonoesters [Term] id: GO:0000214 name: tRNA-intron endonuclease complex namespace: cellular_component def: "A protein complex that catalyzes the endonucleolytic cleavage of pre-tRNA, producing 5'-hydroxyl and 2',3'-cyclic phosphate termini, and specifically removing the intron." [EC:3.1.27.9] is_a: GO:0043234 ! protein complex is_a: GO:0044428 ! nuclear part [Term] id: GO:0000215 name: tRNA 2'-phosphotransferase activity namespace: molecular_function def: "Catalysis of the reaction: 2'-phospho-[ligated tRNA] + NAD+ = mature tRNA + ADP ribose 1'',2''-phosphate + nicotinamide + H2O; transfers the splice junction 2-phosphate from ligated tRNA to NAD+ to produce ADP-ribose 1'-2' cyclic phosphate." [EC:2.7.1.160, PMID:9148937] synonym: "2'-phospho-[ligated tRNA]:NAD+ phosphotransferase activity" EXACT [EC:2.7.1.160] synonym: "2'-phospho-tRNA:NAD+ phosphotransferase activity" EXACT [EC:2.7.1.160] synonym: "Tpt1" RELATED [EC:2.7.1.160] synonym: "Tpt1p" RELATED [EC:2.7.1.160] synonym: "yeast 2'-phosphotransferase activity" NARROW [EC:2.7.1.160] xref: EC:2.7.1.160 xref: MetaCyc:2.7.1.160-RXN is_a: GO:0008665 ! 2'-phosphotransferase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor [Term] id: GO:0000216 name: M/G1 transition of mitotic cell cycle namespace: biological_process def: "Progression from M phase to G1 phase of the mitotic cell cycle." [GOC:mah] xref: Reactome:562918 "M/G1 Transition" xref: Reactome:588539 "M/G1 Transition" xref: Reactome:609281 "M/G1 Transition" xref: Reactome:633974 "M/G1 Transition" xref: Reactome:645537 "M/G1 Transition" xref: Reactome:655929 "M/G1 Transition" xref: Reactome:661284 "M/G1 Transition" xref: Reactome:666908 "M/G1 Transition" xref: Reactome:673030 "M/G1 Transition" xref: Reactome:678750 "M/G1 Transition" xref: Reactome:683833 "M/G1 Transition" xref: Reactome:68874 "M/G1 Transition" xref: Reactome:701578 "M/G1 Transition" xref: Reactome:716162 "M/G1 Transition" xref: Reactome:728111 "M/G1 Transition" xref: Reactome:733075 "M/G1 Transition" is_a: GO:0022402 ! cell cycle process relationship: part_of GO:0051329 ! interphase of mitotic cell cycle [Term] id: GO:0000217 name: DNA secondary structure binding namespace: molecular_function def: "Interacting selectively and non-covalently with DNA containing secondary structure elements such as four-way junctions, bubbles, loops, Y-form DNA, or double-strand/single-strand junctions." [GOC:krc] is_a: GO:0043566 ! structure-specific DNA binding [Term] id: GO:0000219 name: vacuolar hydrogen-transporting ATPase namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because more specific terms were created. synonym: "V-ATPase" EXACT [] is_obsolete: true consider: GO:0016469 [Term] id: GO:0000220 name: vacuolar proton-transporting V-type ATPase, V0 domain namespace: cellular_component def: "The V0 domain of a proton-transporting V-type ATPase found in the vacuolar membrane." [GOC:mah, PMID:16449553] comment: Note that this domain often consists of five subunits, although in some mammalian tissues it may have an additional subunit. synonym: "vacuolar hydrogen ion-transporting ATPase V0 domain" EXACT [] is_a: GO:0033179 ! proton-transporting V-type ATPase, V0 domain is_a: GO:0044437 ! vacuolar part intersection_of: GO:0033179 ! proton-transporting V-type ATPase, V0 domain intersection_of: part_of GO:0005773 ! vacuole relationship: part_of GO:0016471 ! vacuolar proton-transporting V-type ATPase complex [Term] id: GO:0000221 name: vacuolar proton-transporting V-type ATPase, V1 domain namespace: cellular_component def: "The V1 domain of a proton-transporting V-type ATPase found in the vacuolar membrane." [GOC:mah, PMID:16449553] comment: Note that this domain generally consists of eight subunits. synonym: "vacuolar hydrogen ion-transporting ATPase V1 domain" EXACT [] is_a: GO:0033180 ! proton-transporting V-type ATPase, V1 domain is_a: GO:0044437 ! vacuolar part intersection_of: GO:0033180 ! proton-transporting V-type ATPase, V1 domain intersection_of: part_of GO:0005773 ! vacuole relationship: part_of GO:0016471 ! vacuolar proton-transporting V-type ATPase complex [Term] id: GO:0000222 name: plasma membrane proton-transporting V-type ATPase, V0 domain namespace: cellular_component def: "The V0 domain of a proton-transporting V-type ATPase found in the plasma membrane." [GOC:mah] synonym: "plasma membrane hydrogen ion-transporting ATPase V0 domain" EXACT [] is_a: GO:0033179 ! proton-transporting V-type ATPase, V0 domain is_a: GO:0044459 ! plasma membrane part intersection_of: GO:0033179 ! proton-transporting V-type ATPase, V0 domain intersection_of: part_of GO:0005886 ! plasma membrane relationship: part_of GO:0005887 ! integral to plasma membrane relationship: part_of GO:0033181 ! plasma membrane proton-transporting V-type ATPase complex [Term] id: GO:0000223 name: plasma membrane proton-transporting V-type ATPase, V1 domain namespace: cellular_component def: "The V1 domain of a proton-transporting V-type ATPase found in the plasma membrane." [GOC:mah] synonym: "plasma membrane hydrogen ion-transporting ATPase V1 domain" EXACT [] is_a: GO:0033180 ! proton-transporting V-type ATPase, V1 domain is_a: GO:0044459 ! plasma membrane part intersection_of: GO:0033180 ! proton-transporting V-type ATPase, V1 domain intersection_of: part_of GO:0005886 ! plasma membrane relationship: part_of GO:0005887 ! integral to plasma membrane relationship: part_of GO:0033181 ! plasma membrane proton-transporting V-type ATPase complex [Term] id: GO:0000224 name: peptide-N4-(N-acetyl-beta-glucosaminyl)asparagine amidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of an N4-(acetyl-beta-D-glucosaminyl)asparagine residue in which the N-acetyl-D-glucosamine residue may be further glycosylated, to yield a (substituted) N-acetyl-beta-D-glucosaminylamine and the peptide containing an aspartic residue." [EC:3.5.1.52] subset: gosubset_prok synonym: "glycopeptidase activity" BROAD [EC:3.5.1.52] synonym: "glycopeptide N-glycosidase activity" BROAD [EC:3.5.1.52] synonym: "jack-bean glycopeptidase" NARROW [EC:3.5.1.52] synonym: "N-glycanase activity" RELATED [EC:3.5.1.52] synonym: "N-linked-glycopeptide-(N-acetyl-beta-D-glucosaminyl)-L-asparagine amidohydrolase activity" EXACT [EC:3.5.1.52] synonym: "N-oligosaccharide glycopeptidase activity" RELATED [EC:3.5.1.52] synonym: "peptide:N-glycanase" RELATED [] synonym: "PNGase" EXACT [] synonym: "PNGase A" RELATED [EC:3.5.1.52] synonym: "PNGase F" RELATED [EC:3.5.1.52] xref: EC:3.5.1.52 xref: MetaCyc:3.5.1.52-RXN is_a: GO:0016811 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides [Term] id: GO:0000225 name: N-acetylglucosaminylphosphatidylinositol deacetylase activity namespace: molecular_function def: "Catalysis of the reaction: N-acetyl-D-glucosaminylphosphatidylinositol + H2O = D-glucosaminylphosphatidylinositol + acetate. The second step enzyme catalyzing the biosynthesis of glycosylphosphatidylinositol (GPI), used to anchor various eukaryotic proteins to the cell-surface membrane. Catalyzes the N-deacetylation of GlcNAc-PI to GlcN-PI." [EC:3.5.1.89] comment: Note that this function was formerly EC:3.1.1.69. synonym: "6-(N-acetyl-alpha-D-glucosaminyl)-1-phosphatidyl-1D-myo-inositol acetylhydrolase activity" EXACT [EC:3.5.1.89] synonym: "acetylglucosaminylphosphatidylinositol deacetylase activity" EXACT [EC:3.5.1.89] synonym: "GlcNAc-PI de-N-acetylase activity" EXACT [EC:3.5.1.89] synonym: "GlcNAc-PI deacetylase activity" EXACT [EC:3.5.1.89] synonym: "N-acetyl-D-glucosaminylphosphatidylinositol acetylhydrolase activity" EXACT [EC:3.5.1.89] synonym: "N-acetylglucosaminylphosphatidylinositol de-N-acetylase activity" EXACT [EC:3.5.1.89] xref: EC:3.5.1.89 xref: MetaCyc:3.1.1.69-RXN xref: Reactome:22619 "N-acetylglucosaminylphosphatidylinositol deacetylase activity" is_a: GO:0016811 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides is_a: GO:0019213 ! deacetylase activity [Term] id: GO:0000226 name: microtubule cytoskeleton organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising microtubules and their associated proteins." [GOC:mah] synonym: "microtubule cytoskeleton organization and biogenesis" RELATED [GOC:mah] synonym: "microtubule dynamics" EXACT [GOC:dph, GOC:tb] is_a: GO:0007010 ! cytoskeleton organization is_a: GO:0007017 ! microtubule-based process [Term] id: GO:0000227 name: oxaloacetate secondary active transmembrane transporter activity namespace: molecular_function def: "Catalysis of the transfer of oxaloacetate from one side of a membrane to the other, up its concentration gradient. The transporter binds the solute and undergoes a series of conformational changes. Transport works equally well in either direction and is driven by a chemiosmotic source of energy. Chemiosmotic sources of energy include uniport, symport or antiport." [GOC:mtg_transport] synonym: "oxaloacetate carrier activity" RELATED [] is_a: GO:0015131 ! oxaloacetate transmembrane transporter activity is_a: GO:0015291 ! secondary active transmembrane transporter activity [Term] id: GO:0000228 name: nuclear chromosome namespace: cellular_component def: "A chromosome found in the nucleus of a eukaryotic cell." [GOC:mah] subset: goslim_generic synonym: "nuclear interphase chromosome" NARROW [] is_a: GO:0005694 ! chromosome is_a: GO:0044428 ! nuclear part intersection_of: GO:0005694 ! chromosome intersection_of: part_of GO:0005634 ! nucleus [Term] id: GO:0000229 name: cytoplasmic chromosome namespace: cellular_component def: "A chromosome found in the cytoplasm." [GOC:mah] subset: goslim_generic subset: gosubset_prok synonym: "cytoplasmic interphase chromosome" NARROW [] is_a: GO:0005694 ! chromosome is_a: GO:0044444 ! cytoplasmic part intersection_of: GO:0005694 ! chromosome intersection_of: part_of GO:0005737 ! cytoplasm [Term] id: GO:0000230 name: nuclear mitotic chromosome namespace: cellular_component def: "OBSOLETE. A chromosome found in the nucleus during mitosis." [GOC:mah] comment: This term was made obsolete because it is based on a temporal division of the cell cycle. is_obsolete: true consider: GO:0000794 [Term] id: GO:0000231 name: cytoplasmic mitotic chromosome namespace: cellular_component def: "OBSOLETE. A chromosome found in the cytoplasm during mitosis." [GOC:mah] comment: This term was made obsolete because it is based on a temporal division of the cell cycle. is_obsolete: true consider: GO:0000793 [Term] id: GO:0000232 name: nuclear interphase chromosome namespace: cellular_component def: "OBSOLETE. A chromosome found in the nucleus during interphase." [GOC:mah] comment: This term was made obsolete because it is based on a temporal division of the cell cycle. is_obsolete: true consider: GO:0000228 [Term] id: GO:0000233 name: cytoplasmic interphase chromosome namespace: cellular_component def: "OBSOLETE. A chromosome found in the cytoplasm during interphase." [GOC:mah] comment: This term was made obsolete because it is based on a temporal division of the cell cycle. is_obsolete: true consider: GO:0000229 [Term] id: GO:0000234 name: phosphoethanolamine N-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + ethanolamine phosphate = S-adenosyl-L-homocysteine + N-methylethanolamine phosphate." [EC:2.1.1.103] synonym: "phosphoethanolamine methyltransferase activity" EXACT [EC:2.1.1.103] synonym: "S-adenosyl-L-methionine:ethanolamine-phosphate N-methyltransferase activity" EXACT [EC:2.1.1.103] xref: EC:2.1.1.103 xref: MetaCyc:2.1.1.103-RXN is_a: GO:0008170 ! N-methyltransferase activity is_a: GO:0008757 ! S-adenosylmethionine-dependent methyltransferase activity [Term] id: GO:0000235 name: astral microtubule namespace: cellular_component def: "Any of the spindle microtubules that radiate in all directions from the spindle poles and are thought to contribute to the forces that separate the poles and position them in relation to the rest of the cell." [ISBN:0815316194] is_a: GO:0005876 ! spindle microtubule is_a: GO:0005881 ! cytoplasmic microtubule intersection_of: GO:0005876 ! spindle microtubule intersection_of: part_of GO:0005818 ! aster relationship: part_of GO:0005818 ! aster [Term] id: GO:0000236 name: mitotic prometaphase namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through prometaphase, the stage following prophase in mitosis (in higher eukaryotes) during which the nuclear envelope is disrupted and breaks into membrane vesicles, and the spindle microtubules enter the nuclear region. Kinetochores mature on each centromere and attach to some of the spindle microtubules. Kinetochore microtubules begin the process of aligning chromosomes in one plane halfway between the poles." [GOC:dph, GOC:mah, ISBN:0198547684] xref: Reactome:563263 "Mitotic Prometaphase" xref: Reactome:588872 "Mitotic Prometaphase" xref: Reactome:609587 "Mitotic Prometaphase" xref: Reactome:634296 "Mitotic Prometaphase" xref: Reactome:645841 "Mitotic Prometaphase" xref: Reactome:656161 "Mitotic Prometaphase" xref: Reactome:661303 "Mitotic Prometaphase" xref: Reactome:667081 "Mitotic Prometaphase" xref: Reactome:673230 "Mitotic Prometaphase" xref: Reactome:678914 "Mitotic Prometaphase" xref: Reactome:683843 "Mitotic Prometaphase" xref: Reactome:68877 "Mitotic Prometaphase" xref: Reactome:690096 "Mitotic Prometaphase" xref: Reactome:720918 "Mitotic Prometaphase" xref: Reactome:728368 "Mitotic Prometaphase" is_a: GO:0022403 ! cell cycle phase relationship: part_of GO:0007067 ! mitosis [Term] id: GO:0000237 name: leptotene namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through the first stage of prophase I in meiosis, in which chromosomes first become visible." [GOC:dph, GOC:mah, ISBN:0198547684] xref: Wikipedia:Leptotene xref: Wikipedia:Meiosis#Leptotene is_a: GO:0022403 ! cell cycle phase relationship: part_of GO:0007128 ! meiotic prophase I [Term] id: GO:0000238 name: zygotene namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through the second stage of prophase I in meiosis, in which each chromosome pairs with its homolog; the two become aligned and crossing over may occur." [GOC:dph, GOC:mah, ISBN:0198547684] xref: Wikipedia:Meiosis#Zygotene xref: Wikipedia:Zygotene is_a: GO:0022403 ! cell cycle phase relationship: part_of GO:0007128 ! meiotic prophase I [Term] id: GO:0000239 name: pachytene namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through the third stage of prophase I in meiosis, in which crossing over occurs between a chromatid in one partner and another chromatid in the homologous chromosome." [GOC:dph, GOC:mah, ISBN:0198547684] xref: Wikipedia:Meiosis#Pachytene xref: Wikipedia:Pachytene is_a: GO:0022403 ! cell cycle phase relationship: part_of GO:0007128 ! meiotic prophase I [Term] id: GO:0000240 name: diplotene namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through the fourth stage of prophase I in meiosis, in which the homologous chromosomes begin to separate and the synaptonemal complex dissolves." [GOC:dph, GOC:mah, ISBN:0198547684] xref: Wikipedia:Diplotene xref: Wikipedia:Meiosis#Diplotene is_a: GO:0022403 ! cell cycle phase relationship: part_of GO:0007128 ! meiotic prophase I [Term] id: GO:0000241 name: diakinesis namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through the final stage of prophase I in meiosis; the transition to meiotic metaphase I." [GOC:dph, GOC:mah, ISBN:0198547684] xref: Wikipedia:Diakinesis xref: Wikipedia:Meiosis#Diakinesis is_a: GO:0022403 ! cell cycle phase relationship: part_of GO:0007128 ! meiotic prophase I [Term] id: GO:0000242 name: pericentriolar material namespace: cellular_component def: "A network of small fibers that surrounds the centrioles in cells; contains the microtubule nucleating activity of the centrosome." [GOC:clt, ISBN:0815316194] is_a: GO:0044450 ! microtubule organizing center part relationship: part_of GO:0005813 ! centrosome [Term] id: GO:0000243 name: commitment complex namespace: cellular_component def: "A spliceosomal complex that is formed by association of the U1 snRNP with the 5' splice site of an unspliced intron in an RNA transcript." [GOC:krc, ISBN:0879695897, PMID:9150140] synonym: "mammalian spliceosomal complex E" NARROW [GOC:krc, GOC:mah, ISBN:0879695897, ISBN:0879697393] synonym: "mammalian spliceosomal E complex" NARROW [GOC:mah] synonym: "yeast spliceosomal complex CC" NARROW [GOC:krc, GOC:mah, ISBN:0879695897, ISBN:0879697393] is_a: GO:0005684 ! U2-type spliceosomal complex relationship: has_part GO:0005685 ! U1 snRNP [Term] id: GO:0000244 name: assembly of spliceosomal tri-snRNP namespace: biological_process alt_id: GO:0000351 alt_id: GO:0000355 def: "The formation of a tri-snRNP complex containing U4 and U6 (or U4atac and U6atac) snRNAs and U5 snRNAs and associated proteins. This includes reannealing of U4 and U6 (or U4atac and U6atac) snRNAs released from previous rounds of splicing to reform the U4/U6 snRNP (or U4atac/U6atac snRNP) as well as the subsequent association of the U5 snRNP with the U4/U6 snRNP (or U4atac/U6atac snRNP) to form a tri-snRNP that is ready to reassemble into another spliceosome complex." [ISBN:0879695897, PMID:9452384] synonym: "assembly of spliceosomal tri-snRNP U4/U6.U5" NARROW [] synonym: "assembly of spliceosomal tri-snRNP U4atac/U6atac.U5" NARROW [] synonym: "snRNP recycling" BROAD [] synonym: "spliceosomal tri-snRNP assembly" EXACT [] synonym: "spliceosomal tri-snRNP U4/U6.U5 assembly" NARROW [] synonym: "spliceosomal tri-snRNP U4atac/U6atac.U5 assembly" NARROW [] is_a: GO:0022618 ! ribonucleoprotein complex assembly relationship: part_of GO:0000387 ! spliceosomal snRNP assembly [Term] id: GO:0000245 name: spliceosome assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of the spliceosome, a ribonucleoprotein apparatus that catalyzes nuclear mRNA splicing via transesterification reactions." [PMID:9476892] is_a: GO:0022618 ! ribonucleoprotein complex assembly relationship: part_of GO:0000398 ! nuclear mRNA splicing, via spliceosome [Term] id: GO:0000246 name: delta24(24-1) sterol reductase activity namespace: molecular_function def: "Catalysis of the reaction: ergosterol + NADP+ = ergosta-5,7,22,24(241)-tetraen-3-beta-ol + NADPH + H+." [EC:1.3.1.71, PMID:10722850] subset: gosubset_prok synonym: "C-24(28) sterol reductase activity" EXACT [EC:1.3.1.71] synonym: "D24(24-1)-sterol reductase activity" EXACT [] synonym: "delta24(241)-sterol reductase activity" EXACT [EC:1.3.1.71] synonym: "ergosterol:NADP+ delta24(241)-oxidoreductase activity" EXACT [EC:1.3.1.71] synonym: "sterol Delta(24(28))-methylene reductase activity" EXACT [EC:1.3.1.71] synonym: "sterol Delta(24(28))-reductase activity" EXACT [EC:1.3.1.71] synonym: "sterol delta-24(28) methylene reductase activity" EXACT [] synonym: "sterol delta-24(28) reductase activity" EXACT [] synonym: "sterol delta24(28)-methylene reductase activity" EXACT [EC:1.3.1.71] synonym: "sterol delta24(28)-reductase activity" EXACT [EC:1.3.1.71] xref: EC:1.3.1.71 xref: MetaCyc:1.3.1.71-RXN is_a: GO:0016628 ! oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor [Term] id: GO:0000247 name: C-8 sterol isomerase activity namespace: molecular_function def: "Catalysis of the reaction which results in unsaturation at C-7 in the B ring of sterols." [MetaCyc:RXN3O-203, PMID:8988026] synonym: "delta-8-delta-7 sterol isomerase activity" EXACT [] xref: EC:5.3.3.- is_a: GO:0016863 ! intramolecular oxidoreductase activity, transposing C=C bonds [Term] id: GO:0000248 name: C-5 sterol desaturase activity namespace: molecular_function def: "Catalysis of the reaction: 5,7,24(28)-ergostatrienol + O2 + NADPH = 5,7,22,24(28)-ergostatetraenol + 2 H2O + NADP+." [MetaCyc:RXN3O-227] synonym: "sterol-C5-desaturase activity" EXACT [] xref: Reactome:22657 "C-5 sterol desaturase activity" is_a: GO:0016717 ! oxidoreductase activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water is_a: GO:0070704 ! sterol desaturase activity [Term] id: GO:0000249 name: C-22 sterol desaturase activity namespace: molecular_function def: "Catalysis of the formation of the C-22(23) double bond in the sterol side chain. An example reaction is 5,7,24(28)-ergostatrienol + O2 + NADPH = 5,7,22,24(28)-ergostatetraenol + 2 H2O + NADP+." [MetaCyc:RXN3O-227] is_a: GO:0016717 ! oxidoreductase activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water is_a: GO:0070704 ! sterol desaturase activity [Term] id: GO:0000250 name: lanosterol synthase activity namespace: molecular_function def: "Catalysis of the reaction: (S)-2,3-epoxysqualene = lanosterol. This is a cyclization reaction that forms the sterol nucleus." [EC:5.4.99.7] subset: gosubset_prok synonym: "(S)-2,3-epoxysqualene mutase (cyclizing, lanosterol-forming)" EXACT [EC:5.4.99.7] synonym: "2,3-epoxysqualene lanosterol cyclase activity" EXACT [EC:5.4.99.7] synonym: "2,3-epoxysqualene--lanosterol cyclase activity" EXACT [EC:5.4.99.7] synonym: "2,3-epoxysqualene-lanosterol cyclase activity" EXACT [] synonym: "2,3-oxidosqualene sterol cyclase activity" BROAD [EC:5.4.99.7] synonym: "2,3-oxidosqualene-lanosterol cyclase activity" EXACT [EC:5.4.99.7] synonym: "lanosterol 2,3-oxidosqualene cyclase activity" EXACT [EC:5.4.99.7] synonym: "OSC" EXACT [] synonym: "oxidosqualene--lanosterol cyclase activity" EXACT [EC:5.4.99.7] synonym: "oxidosqualene-lanosterol cyclase activity" EXACT [] synonym: "oxidosqualene:lanosterol cyclase activity" EXACT [PMID:18033581] synonym: "squalene 2,3-epoxide:lanosterol cyclase activity" EXACT [EC:5.4.99.7] synonym: "squalene epoxidase-cyclase activity" BROAD [EC:5.4.99.7] synonym: "squalene-2,3-oxide-lanosterol cyclase activity" EXACT [EC:5.4.99.7] xref: EC:5.4.99.7 xref: MetaCyc:LANOSTEROL-SYNTHASE-RXN xref: Reactome:22668 "lanosterol synthase activity" is_a: GO:0031559 ! oxidosqualene cyclase activity [Term] id: GO:0000252 name: C-3 sterol dehydrogenase (C-4 sterol decarboxylase) activity namespace: molecular_function def: "Catalysis of the reaction: 3-beta-hydroxy-4-beta-methyl-5-alpha-cholesta-8,24-dien-4-alpha-carboxylate + NAD(P)+ = 4-alpha-methyl-5-alpha-cholesta-8,24-dien-3-one + CO2 + NAD(P)H." [EC:1.1.1.170, PMID:9811880] comment: Note that zymosterol is cholesta-8,24-dien-3-ol. synonym: "3beta-hydroxy-4alpha-methylcholestenecarboxylate 3-dehydrogenase (decarboxylating)" RELATED [EC:1.1.1.170] synonym: "3beta-hydroxy-4beta-methyl-5alpha-cholest-7-ene-4alpha-carboxylate:NAD(P)+ 3-oxidoreductase (decarboxylating)" EXACT [] synonym: "3beta-hydroxy-4beta-methylcholestenecarboxylate 3-dehydrogenase (decarboxylating)" RELATED [] synonym: "3beta-hydroxy-4beta-methylcholestenoate dehydrogenase activity" RELATED [] synonym: "C-3 sterol dehydrogenase (C-4 decarboxylase) activity" RELATED [] synonym: "C-3 sterol dehydrogenase activity" RELATED [] synonym: "sterol 4alpha-carboxylic decarboxylase activity" RELATED [] synonym: "sterol-4-carboxylate 3-dehydrogenase (decarboxylating) activity" RELATED [] synonym: "sterol-4alpha-carboxylate 3-dehydrogenase (decarboxylating)" RELATED [] xref: EC:1.1.1.- xref: Reactome:22670 "C-3 sterol dehydrogenase (C-4 sterol decarboxylase) activity" is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0000253 name: 3-keto sterol reductase activity namespace: molecular_function alt_id: GO:0050576 def: "Catalysis of the reaction: a 3-beta-hydroxyl sterol + NADP+ = a 3-keto sterol + NADPH + H+." [EC:1.1.1.270, GOC:mah, MetaCyc:1.1.1.270-RXN, MetaCyc:RXN3O-4110, MetaCyc:RXN66-19, MetaCyc:RXN66-24, MetaCyc:RXN66-314, MetaCyc:RXN66-319, PMID:9811880] comment: Note that zymosterol is cholesta-8,24-dien-3-ol. synonym: "3-keto-steroid reductase activity" EXACT [] synonym: "3-KSR activity" EXACT [EC:1.1.1.270] synonym: "3beta-hydroxy-steroid:NADP+ 3-oxidoreductase" RELATED [EC:1.1.1.270] xref: EC:1.1.1.270 xref: MetaCyc:1.1.1.270-RXN xref: MetaCyc:RXN3O-4110 xref: MetaCyc:RXN66-19 xref: MetaCyc:RXN66-24 xref: MetaCyc:RXN66-314 xref: MetaCyc:RXN66-319 xref: Reactome:22671 "3-keto sterol reductase activity" is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0000254 name: C-4 methylsterol oxidase activity namespace: molecular_function def: "Catalysis of the reaction: 4,4-dimethyl-5-alpha-cholesta-8,24-dien-3-beta-ol + NAD(P)H + H+ + O2 = 4-beta-hydroxymethyl-4-alpha-methyl-5-alpha-cholesta-8,24-dien-3-beta-ol + NAD(P)+ + H2O." [EC:1.14.13.72, PMID:9811880] comment: Note that zymosterol is cholesta-8,24-dien-3-ol. synonym: "4,4-dimethyl-5alpha-cholest-7-en-3beta-ol,hydrogen-donor:oxygen oxidoreductase (hydroxylating)" EXACT [EC:1.14.13.72] synonym: "4,4-dimethyl-5alpha-cholest-7-en-3beta-ol,NAD(P)H:oxygen oxidoreductase (hydroxylating)" EXACT [EC:1.14.13.72] synonym: "4-methylsterol oxidase activity" EXACT [] synonym: "methylsterol hydroxylase activity" RELATED [] synonym: "methylsterol monooxygenase activity" RELATED [] xref: EC:1.14.13.72 xref: MetaCyc:1.14.13.72-RXN xref: Reactome:22672 "C-4 methylsterol oxidase activity" is_a: GO:0016709 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen [Term] id: GO:0000255 name: allantoin metabolic process namespace: biological_process def: "The chemical reactions and pathways involving allantoin, (2,5-dioxo-4-imidazolidinyl)urea, an intermediate or end product of purine catabolism." [GOC:mah, ISBN:0198547684] subset: gosubset_prok synonym: "allantoin metabolism" EXACT [] is_a: GO:0009308 ! amine metabolic process is_a: GO:0043603 ! cellular amide metabolic process is_a: GO:0046483 ! heterocycle metabolic process [Term] id: GO:0000256 name: allantoin catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of allantoin, (2,5-dioxo-4-imidazolidinyl)urea." [GOC:mah, ISBN:0198547684] subset: gosubset_prok synonym: "allantoin breakdown" EXACT [] synonym: "allantoin catabolism" EXACT [] synonym: "allantoin degradation" EXACT [] is_a: GO:0000255 ! allantoin metabolic process is_a: GO:0043605 ! cellular amide catabolic process is_a: GO:0046700 ! heterocycle catabolic process [Term] id: GO:0000257 name: nitrilase activity namespace: molecular_function def: "Catalysis of the reaction: a nitrile + H2O = a carboxylate + NH3. Acts on a wide range of aromatic nitriles including (indole-3-yl)-acetonitrile and some aliphatic nitriles, and on the corresponding acid amides." [EC:3.5.5.1, GOC:kd] subset: gosubset_prok synonym: "acetonitrilase activity" EXACT [EC:3.5.5.1] synonym: "benzonitrilase activity" EXACT [EC:3.5.5.1] synonym: "nitrile aminohydrolase activity" EXACT [EC:3.5.5.1] xref: EC:3.5.5.1 xref: MetaCyc:3.5.5.1-RXN xref: UM-BBD_enzymeID:e0283 is_a: GO:0016815 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in nitriles [Term] id: GO:0000258 name: isoleucine/valine:sodium symporter activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: (isoleucine or valine)(out) + Na+(out) = (isoleucine or valine)(in) + Na+(in)." [TC:2.A.26.1.1] comment: This term was made obsolete because it represents a multifunctional gene product. is_obsolete: true consider: GO:0005283 consider: GO:0005304 consider: GO:0015188 [Term] id: GO:0000259 name: intracellular nucleoside transmembrane transporter activity namespace: molecular_function def: "OBSOLETE. Enables the directed movement of a nucleoside, a nucleobase linked to either beta-D-ribofuranose (ribonucleoside) or 2-deoxy-beta-D-ribofuranose (a deoxyribonucleotide) within a cell." [GOC:ai] comment: This term was made obsolete because it contains component and function information. is_obsolete: true replaced_by: GO:0005337 replaced_by: GO:0005622 [Term] id: GO:0000260 name: hydrogen-translocating V-type ATPase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: ATP + H2O + H+(in) = ADP + phosphate + H+(out). Found in vacuoles of eukaryotes and in bacteria." [TC:3.A.2.2.1, TC:3.A.2.2.3] comment: This term was made obsolete because it represents a gene product. is_obsolete: true replaced_by: GO:0046961 [Term] id: GO:0000261 name: sodium-translocating V-type ATPase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: ATP + H2O + Na+(in) = ADP + phosphate + Na+(out). Found in vacuoles of eukaryotes and in bacteria." [TC:3.A.2.2.2] comment: This term was made obsolete because it represents a gene product. is_obsolete: true replaced_by: GO:0046962 [Term] id: GO:0000262 name: mitochondrial chromosome namespace: cellular_component def: "A chromosome found in the mitochondrion of a eukaryotic cell." [GOC:mah] synonym: "mitochondrial DNA" NARROW [] synonym: "mitochondrial genome" RELATED [] synonym: "mtDNA" NARROW [] xref: NIF_Subcellular:sao1186327184 is_a: GO:0000229 ! cytoplasmic chromosome is_a: GO:0044429 ! mitochondrial part intersection_of: GO:0005694 ! chromosome intersection_of: part_of GO:0005739 ! mitochondrion relationship: part_of GO:0042645 ! mitochondrial nucleoid [Term] id: GO:0000263 name: heterotrimeric G-protein GTPase, alpha-subunit namespace: molecular_function def: "OBSOLETE. Subunit of a heterotrimeric G-protein GTPase that contains the guanine nucleotide binding site and possesses GTPase activity." [GOC:mah, ISBN:0198547684] comment: This term was made obsolete because it does not represent a molecular function. is_obsolete: true consider: GO:0003924 consider: GO:0005834 [Term] id: GO:0000264 name: heterotrimeric G-protein GTPase, beta-subunit namespace: molecular_function def: "OBSOLETE. Subunit of a heterotrimeric G-protein GTPase; associates tightly with the gamma subunit." [GOC:mah, ISBN:0198547684] comment: This term was made obsolete because it does not represent a molecular function. is_obsolete: true consider: GO:0003924 consider: GO:0005834 [Term] id: GO:0000265 name: heterotrimeric G-protein GTPase, gamma-subunit namespace: molecular_function def: "OBSOLETE. Smallest subunit of a heterotrimeric G-protein GTPase; associates tightly with the beta subunit." [GOC:mah, ISBN:0198547684] comment: This term was made obsolete because it does not represent a molecular function. is_obsolete: true consider: GO:0003924 consider: GO:0005834 [Term] id: GO:0000266 name: mitochondrial fission namespace: biological_process def: "The division of a mitochondrion within a cell to form two or more separate mitochondrial compartments." [PMID:11038192] synonym: "mitochondrial division" EXACT [] synonym: "mitochondrial proliferation" RELATED [] is_a: GO:0048285 ! organelle fission is_a: GO:0070584 ! mitochondrion morphogenesis [Term] id: GO:0000267 name: cell fraction namespace: cellular_component def: "A generic term for parts of cells prepared by disruptive biochemical techniques." [GOC:ma] comment: Note that this term refers to disrupted cells, and does not necessarily correspond to any specific structure(s) in an intact cell. subset: goslim_pir subset: gosubset_prok is_a: GO:0044464 ! cell part [Term] id: GO:0000268 name: peroxisome targeting sequence binding namespace: molecular_function alt_id: GO:0005051 def: "Interacting selectively and non-covalently with a peroxisomal targeting sequence, any of several sequences of amino acids within a protein that can act as a signal for the localization of the protein into the peroxisome." [GOC:mah, ISBN:0879693568] synonym: "peroxisome targeting signal receptor" NARROW [] synonym: "PTS binding" EXACT [] synonym: "PTS receptor" NARROW [] is_a: GO:0005048 ! signal sequence binding [Term] id: GO:0000269 name: toxin export channel activity namespace: molecular_function def: "Enables the energy independent passage of toxins, sized less than 1000 Da, across a membrane towards the outside of the cell. The transmembrane portions of porins consist exclusively of beta-strands which form a beta-barrel. They are found in the outer membranes of Gram-negative bacteria, mitochondria, plastids and possibly acid-fast Gram-positive bacteria." [GOC:mtg_transport] is_a: GO:0015288 ! porin activity is_a: GO:0019534 ! toxin transporter activity [Term] id: GO:0000270 name: peptidoglycan metabolic process namespace: biological_process alt_id: GO:0009284 def: "The chemical reactions and pathways involving peptidoglycans, any of a class of glycoconjugates found only in bacterial cell walls and consisting of strands of glycosaminoglycan cross-linked by oligopeptides to form a huge and rigid network." [http://www.dsmz.de/species/murein.htm, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] subset: gosubset_prok synonym: "murein metabolic process" EXACT [] synonym: "murein metabolism" EXACT [] synonym: "peptidoglycan metabolism" EXACT [] is_a: GO:0030203 ! glycosaminoglycan metabolic process [Term] id: GO:0000271 name: polysaccharide biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of polysaccharides, polymers of more than 10 monosaccharide residues joined by glycosidic linkages." [GOC:go_curators] subset: gosubset_prok synonym: "glycan biosynthesis" EXACT [] synonym: "glycan biosynthetic process" EXACT [] synonym: "polysaccharide anabolism" EXACT [] synonym: "polysaccharide biosynthesis" EXACT [] synonym: "polysaccharide formation" EXACT [] synonym: "polysaccharide synthesis" EXACT [] is_a: GO:0005976 ! polysaccharide metabolic process is_a: GO:0009059 ! macromolecule biosynthetic process is_a: GO:0016051 ! carbohydrate biosynthetic process [Term] id: GO:0000272 name: polysaccharide catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of polysaccharides, polymers of more than 10 monosaccharide residues joined by glycosidic linkages." [GOC:go_curators] subset: gosubset_prok synonym: "polysaccharide breakdown" EXACT [] synonym: "polysaccharide catabolism" EXACT [] synonym: "polysaccharide degradation" EXACT [] is_a: GO:0005976 ! polysaccharide metabolic process is_a: GO:0009057 ! macromolecule catabolic process is_a: GO:0016052 ! carbohydrate catabolic process [Term] id: GO:0000273 name: lipoic acid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving lipoic acid, 1,2-dithiolane-3-pentanoic acid, a coenzyme involved in oxidative decarboxylation of keto acids." [GOC:ai, http://cancerweb.ncl.ac.uk/] subset: gosubset_prok synonym: "lipoic acid metabolism" EXACT [] is_a: GO:0006732 ! coenzyme metabolic process is_a: GO:0006790 ! sulfur metabolic process is_a: GO:0019752 ! carboxylic acid metabolic process is_a: GO:0046483 ! heterocycle metabolic process [Term] id: GO:0000274 name: mitochondrial proton-transporting ATP synthase, stator stalk namespace: cellular_component def: "One of two stalks that connect the catalytic core of the hydrogen-transporting ATP synthase to the mitochondrial membrane-associated F0 proteins; is thought to prevent futile rotation of the catalytic core." [GOC:mtg_sensu, PMID:10838056] is_a: GO:0044455 ! mitochondrial membrane part is_a: GO:0045265 ! proton-transporting ATP synthase, stator stalk intersection_of: GO:0045265 ! proton-transporting ATP synthase, stator stalk intersection_of: part_of GO:0005739 ! mitochondrion relationship: part_of GO:0000276 ! mitochondrial proton-transporting ATP synthase complex, coupling factor F(o) [Term] id: GO:0000275 name: mitochondrial proton-transporting ATP synthase complex, catalytic core F(1) namespace: cellular_component def: "The catalytic sector of the mitochondrial hydrogen-transporting ATP synthase; it comprises the catalytic core and central stalk, and is peripherally associated with the mitochondrial inner membrane when the entire ATP synthase is assembled." [GOC:mtg_sensu, PMID:10838056] comment: See also the cellular component term 'mitochondrial inner membrane ; GO:0005743'. synonym: "hydrogen-transporting ATP synthase, F1 sector" BROAD [] synonym: "proton-transporting ATP synthase complex, catalytic core F(1)" BROAD [] is_a: GO:0044455 ! mitochondrial membrane part is_a: GO:0045261 ! proton-transporting ATP synthase complex, catalytic core F(1) intersection_of: GO:0045261 ! proton-transporting ATP synthase complex, catalytic core F(1) intersection_of: part_of GO:0005739 ! mitochondrion relationship: part_of GO:0005753 ! mitochondrial proton-transporting ATP synthase complex [Term] id: GO:0000276 name: mitochondrial proton-transporting ATP synthase complex, coupling factor F(o) namespace: cellular_component def: "All non-F1 subunits of the mitochondrial hydrogen-transporting ATP synthase, including integral and peripheral mitochondrial inner membrane proteins." [GOC:mtg_sensu, PMID:10838056] is_a: GO:0044455 ! mitochondrial membrane part is_a: GO:0045263 ! proton-transporting ATP synthase complex, coupling factor F(o) intersection_of: GO:0045263 ! proton-transporting ATP synthase complex, coupling factor F(o) intersection_of: part_of GO:0005739 ! mitochondrion relationship: part_of GO:0005753 ! mitochondrial proton-transporting ATP synthase complex [Term] id: GO:0000277 name: [cytochrome c]-lysine N-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + cytochrome c L-lysine = S-adenosyl-L-homocysteine + cytochrome c N6-methyl-L-lysine. This is the addition of a methyl group to the N6 atom of a lysine residue in cytochrome c." [EC:2.1.1.59] synonym: "cytochrome c (lysine) methyltransferase activity" EXACT [EC:2.1.1.59] synonym: "cytochrome c methyltransferase activity" EXACT [EC:2.1.1.59] synonym: "cytochrome c-lysine N-methyltransferase activity" EXACT [EC:2.1.1.59] synonym: "cytochrome c-specific protein methylase III activity" EXACT [EC:2.1.1.59] synonym: "cytochrome c-specific protein-lysine methyltransferase activity" EXACT [EC:2.1.1.59] synonym: "S-adenosyl-L-methionine:cytochrome c-L-lysine 6-N-methyltransferase activity" EXACT [EC:2.1.1.59] synonym: "S-adenosyl-L-methionine:cytochrome c-L-lysine N6-methyltransferase activity" EXACT [EC:2.1.1.59] xref: EC:2.1.1.59 xref: MetaCyc:2.1.1.59-RXN is_a: GO:0016279 ! protein-lysine N-methyltransferase activity [Term] id: GO:0000278 name: mitotic cell cycle namespace: biological_process def: "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." [GOC:mah, ISBN:0815316194, Reactome:69278] xref: Reactome:562725 "Cell Cycle, Mitotic" xref: Reactome:588345 "Cell Cycle, Mitotic" xref: Reactome:609088 "Cell Cycle, Mitotic" xref: Reactome:633783 "Cell Cycle, Mitotic" xref: Reactome:645386 "Cell Cycle, Mitotic" xref: Reactome:655754 "Cell Cycle, Mitotic" xref: Reactome:660987 "Cell Cycle, Mitotic" xref: Reactome:666766 "Cell Cycle, Mitotic" xref: Reactome:672874 "Cell Cycle, Mitotic" xref: Reactome:678588 "Cell Cycle, Mitotic" xref: Reactome:683546 "Cell Cycle, Mitotic" xref: Reactome:689752 "Cell Cycle, Mitotic" xref: Reactome:69278 "Cell Cycle, Mitotic" xref: Reactome:701483 "Cell Cycle, Mitotic" xref: Reactome:716054 "Cell Cycle, Mitotic" xref: Reactome:720693 "Cell Cycle, Mitotic" xref: Reactome:728005 "Cell Cycle, Mitotic" xref: Reactome:730935 "Cell Cycle, Mitotic" xref: Reactome:733035 "Cell Cycle, Mitotic" xref: Reactome:733877 "Cell Cycle, Mitotic" xref: Reactome:735598 "Cell Cycle, Mitotic" xref: Reactome:736605 "Cell Cycle, Mitotic" xref: Reactome:738509 "Cell Cycle, Mitotic" is_a: GO:0007049 ! cell cycle [Term] id: GO:0000279 name: M phase namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through M phase, the part of the cell cycle comprising nuclear division." [GOC:dph, GOC:mah, ISBN:0815316194] synonym: "M-phase" EXACT [] xref: Wikipedia:M_phase is_a: GO:0022403 ! cell cycle phase [Term] id: GO:0000280 name: nuclear division namespace: biological_process def: "A process by which a cell nucleus is divided into two nuclei, with DNA and other nuclear contents distributed between the daughter nuclei." [GOC:mah] subset: goslim_pir synonym: "karyokinesis" RELATED [] is_a: GO:0048285 ! organelle fission [Term] id: GO:0000281 name: cytokinesis after mitosis namespace: biological_process def: "A cell cycle process that results in the division of the cytoplasm of a cell after mitosis, resulting in the separation of the original cell into two daughter cells." [GOC:ai] is_a: GO:0033205 ! cell cycle cytokinesis [Term] id: GO:0000282 name: cellular bud site selection namespace: biological_process def: "The specification of the site where a daughter cell will form, in organisms that reproduce by budding. An example of this process is found in Saccharomyces cerevisiae." [GOC:mah] comment: Note that this term was split from 'bud site selection/establishment of cell polarity (sensu Saccharomyces) ; GO:0007115' (a sibling term, 'establishment of cell polarity (sensu Saccharomyces) ; GO:0000283', was created but has since been merged with 'establishment of cell polarity' ; GO:0030010). synonym: "bud site selection/establishment of cell polarity" BROAD [] is_a: GO:0007105 ! cytokinesis, site selection is_a: GO:0030010 ! establishment of cell polarity relationship: part_of GO:0033205 ! cell cycle cytokinesis [Term] id: GO:0000284 name: shmoo orientation namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:elh] comment: This term was made obsolete because it is an organism specific term. The entire branch of the ontology was reorganized to be more generally applicable. is_obsolete: true replaced_by: GO:0000753 [Term] id: GO:0000285 name: 1-phosphatidylinositol-3-phosphate 5-kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 1-phosphatidyl-1D-myo-inositol 3-phosphate = ADP + 1-phosphatidyl-1D-myo-inositol 3,5-bisphosphate." [EC:2.7.1.150] synonym: "ATP:1-phosphatidyl-1D-myo-inositol-3-phosphate 5-phosphotransferase activity" EXACT [EC:2.7.1.150] synonym: "phosphatidylinositol 3-phosphate 5-kinase activity" EXACT [EC:2.7.1.150] synonym: "phosphatidylinositol-3-phosphate 5-kinase activity" EXACT [] synonym: "type III PIP kinase activity" RELATED [EC:2.7.1.150] xref: EC:2.7.1.150 xref: MetaCyc:2.7.1.150-RXN is_a: GO:0016307 ! phosphatidylinositol phosphate kinase activity [Term] id: GO:0000286 name: alanine dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: L-alanine + H2O + NAD+ = pyruvate + NH3 + NADH + H+." [EC:1.4.1.1] subset: gosubset_prok synonym: "AlaDH" RELATED [EC:1.4.1.1] synonym: "alanine oxidoreductase activity" EXACT [EC:1.4.1.1] synonym: "alpha-alanine dehydrogenase activity" EXACT [EC:1.4.1.1] synonym: "L-alanine dehydrogenase activity" EXACT [EC:1.4.1.1] synonym: "L-alanine:NAD+ oxidoreductase (deaminating)" EXACT [EC:1.4.1.1] synonym: "NAD-dependent alanine dehydrogenase activity" EXACT [EC:1.4.1.1] synonym: "NAD-linked alanine dehydrogenase activity" EXACT [EC:1.4.1.1] synonym: "NADH-dependent alanine dehydrogenase activity" EXACT [EC:1.4.1.1] xref: EC:1.4.1.1 xref: MetaCyc:ALANINE-DEHYDROGENASE-RXN is_a: GO:0016638 ! oxidoreductase activity, acting on the CH-NH2 group of donors [Term] id: GO:0000287 name: magnesium ion binding namespace: molecular_function def: "Interacting selectively and non-covalently with magnesium (Mg) ions." [GOC:ai] subset: gosubset_prok synonym: "magnesium binding" EXACT [] is_a: GO:0046872 ! metal ion binding [Term] id: GO:0000288 name: nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay namespace: biological_process def: "A major pathway of degradation of nuclear-transcribed mRNAs that proceeds through a series of ordered steps that includes poly(A) tail shortening and that can regulate mRNA stability." [GOC:jp, GOC:krc] synonym: "deadenylation-dependent mRNA decay" EXACT [] synonym: "mRNA breakdown, deadenylation-dependent decay" EXACT [] synonym: "mRNA catabolic process, deadenylation-dependent" EXACT [] synonym: "mRNA catabolic process, deadenylylation-dependent" EXACT [] synonym: "mRNA catabolism, deadenylation-dependent" EXACT [] synonym: "mRNA catabolism, deadenylylation-dependent" EXACT [] synonym: "mRNA degradation, deadenylation-dependent decay" EXACT [] synonym: "nuclear mRNA catabolic process, deadenylation-dependent decay" EXACT [] xref: Reactome:429914 "Deadenylation-dependent mRNA decay" xref: Reactome:562609 "Deadenylation-dependent mRNA decay" xref: Reactome:588235 "Deadenylation-dependent mRNA decay" xref: Reactome:609660 "Deadenylation-dependent mRNA decay" xref: Reactome:633681 "Deadenylation-dependent mRNA decay" xref: Reactome:645291 "Deadenylation-dependent mRNA decay" xref: Reactome:655667 "Deadenylation-dependent mRNA decay" xref: Reactome:660949 "Deadenylation-dependent mRNA decay" xref: Reactome:666733 "Deadenylation-dependent mRNA decay" xref: Reactome:672821 "Deadenylation-dependent mRNA decay" xref: Reactome:678544 "Deadenylation-dependent mRNA decay" xref: Reactome:683506 "Deadenylation-dependent mRNA decay" xref: Reactome:689705 "Deadenylation-dependent mRNA decay" xref: Reactome:701438 "Deadenylation-dependent mRNA decay" xref: Reactome:716009 "Deadenylation-dependent mRNA decay" xref: Reactome:720764 "Deadenylation-dependent mRNA decay" xref: Reactome:727959 "Deadenylation-dependent mRNA decay" xref: Reactome:731014 "Deadenylation-dependent mRNA decay" is_a: GO:0000956 ! nuclear-transcribed mRNA catabolic process [Term] id: GO:0000289 name: nuclear-transcribed mRNA poly(A) tail shortening namespace: biological_process def: "Shortening of the poly(A) tail of a nuclear-transcribed mRNA from full length to an oligo(A) length." [GOC:krc] synonym: "3' to 5' mRNA deadenylation" RELATED [] synonym: "mRNA deadenylation" RELATED [] synonym: "nuclear mRNA poly(A) tail shortening" RELATED [] xref: Reactome:429947 "Deadenylation of mRNA" xref: Reactome:563093 "Deadenylation of mRNA" xref: Reactome:588704 "Deadenylation of mRNA" xref: Reactome:609659 "Deadenylation of mRNA" xref: Reactome:634143 "Deadenylation of mRNA" xref: Reactome:645653 "Deadenylation of mRNA" xref: Reactome:661289 "Deadenylation of mRNA" xref: Reactome:667066 "Deadenylation of mRNA" xref: Reactome:673215 "Deadenylation of mRNA" xref: Reactome:678899 "Deadenylation of mRNA" is_a: GO:0000956 ! nuclear-transcribed mRNA catabolic process is_a: GO:0031124 ! mRNA 3'-end processing relationship: part_of GO:0000288 ! nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay [Term] id: GO:0000290 name: deadenylation-dependent decapping of nuclear-transcribed mRNA namespace: biological_process def: "Cleavage of the 5'-cap of a nuclear mRNA triggered by shortening of the poly(A) tail to below a minimum functional length." [GOC:krc] synonym: "deadenylation-dependent decapping of nuclear mRNA" EXACT [] synonym: "deadenylylation-dependent decapping" EXACT [] is_a: GO:0000956 ! nuclear-transcribed mRNA catabolic process relationship: part_of GO:0000288 ! nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay [Term] id: GO:0000291 name: nuclear-transcribed mRNA catabolic process, exonucleolytic namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of the transcript body of a nuclear-transcribed mRNA that occurs when the ends are not protected by the 5'-cap or the 3'-poly(A) tail." [GOC:krc] synonym: "exonucleolytic degradation of mRNA" EXACT [] synonym: "mRNA breakdown, exonucleolytic" EXACT [] synonym: "mRNA degradation, exonucleolytic" EXACT [] synonym: "nuclear mRNA catabolic process, exonucleolytic" EXACT [] is_a: GO:0000956 ! nuclear-transcribed mRNA catabolic process [Term] id: GO:0000292 name: RNA fragment catabolic process namespace: biological_process alt_id: GO:0030452 def: "The chemical reactions and pathways resulting in the breakdown of a fragment of RNA, such as excised introns or sequences removed from ribosomal RNA during processing." [GOC:mah] subset: gosubset_prok synonym: "group I intron catabolic process" NARROW [] synonym: "RNA fragment breakdown" EXACT [] synonym: "RNA fragment catabolism" EXACT [GOC:mah] synonym: "RNA fragment degradation" EXACT [] is_a: GO:0006401 ! RNA catabolic process [Term] id: GO:0000293 name: ferric-chelate reductase activity namespace: molecular_function def: "Catalysis of the reaction: 2 Fe2+ + NAD+ = 2 Fe3+ + NADH + H+." [EC:1.16.1.7] comment: Note that this function was formerly EC:1.6.99.13. synonym: "Fe(II):NAD+ oxidoreductase activity" EXACT [EC:1.16.1.7] synonym: "ferric chelate reductase activity" EXACT [EC:1.16.1.7] synonym: "iron chelate reductase activity" RELATED [EC:1.16.1.7] synonym: "NADH2:Fe3+ oxidoreductase activity" EXACT [EC:1.16.1.7] synonym: "NADH:Fe(3+) oxidoreductase activity" EXACT [EC:1.16.1.7] synonym: "NADH:Fe(3+)-EDTA reductase activity" EXACT [EC:1.16.1.7] synonym: "NADH:Fe3+ oxidoreductase activity" EXACT [EC:1.16.1.7] synonym: "NADH:Fe3+-EDTA reductase activity" EXACT [EC:1.16.1.7] xref: EC:1.16.1.7 xref: MetaCyc:FERRIC-CHELATE-REDUCTASE-RXN is_a: GO:0016723 ! oxidoreductase activity, oxidizing metal ions, NAD or NADP as acceptor [Term] id: GO:0000294 name: nuclear-transcribed mRNA catabolic process, endonucleolytic cleavage-dependent decay namespace: biological_process def: "A minor degradation pathway nuclear-transcribed mRNAs that begins with an endonucleolytic cleavage to generate unprotected ends." [GOC:krc] synonym: "endonucleolytic mRNA decay" EXACT [] synonym: "mRNA breakdown, endonucleolytic cleavage-dependent decay" EXACT [] synonym: "mRNA catabolic process, endonucleolytic" EXACT [] synonym: "mRNA catabolism, endonucleolytic" EXACT [] synonym: "mRNA degradation, endonucleolytic cleavage-dependent decay" EXACT [] synonym: "nuclear mRNA catabolic process, endonucleolytic cleavage-dependent decay" EXACT [] is_a: GO:0000956 ! nuclear-transcribed mRNA catabolic process [Term] id: GO:0000295 name: adenine nucleotide transmembrane transporter activity namespace: molecular_function def: "Catalysis of the transfer of adenine nucleotides (AMP, ADP, and ATP) from one side of the membrane to the other." [PMID:11566870] xref: Reactome:22791 "adenine nucleotide transmembrane transporter activity" is_a: GO:0015216 ! purine nucleotide transmembrane transporter activity relationship: part_of GO:0051503 ! adenine nucleotide transport [Term] id: GO:0000296 name: spermine transport namespace: biological_process def: "The directed movement of spermine, N,N-bis(3-aminopropyl)-1,4-diaminobutane, a polyamine formed by the transfer of a propylamine group from decarboxylated S-adenosylmethionine to spermidine, into, out of, within or between cells by means of some external agent such as a transporter or pore." [GOC:krc, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] is_a: GO:0015846 ! polyamine transport [Term] id: GO:0000297 name: spermine transmembrane transporter activity namespace: molecular_function def: "Catalysis of the transfer of spermine from one side of the membrane to the other. Spermine is a polybasic amine found in human sperm, in ribosomes and in some viruses, which is involved in nucleic acid packaging. Synthesis is regulated by ornithine decarboxylase which plays a key role in control of DNA replication." [GOC:ai] is_a: GO:0015203 ! polyamine transmembrane transporter activity relationship: part_of GO:0000296 ! spermine transport [Term] id: GO:0000298 name: endopolyphosphatase activity namespace: molecular_function def: "Catalysis of the reaction: polyphosphate + n H2O = (n+1) oligophosphate. The product contains 4 or 5 phosphate residues." [EC:3.6.1.10] synonym: "metaphosphatase activity" BROAD [EC:3.6.1.10] synonym: "polymetaphosphatase activity" EXACT [EC:3.6.1.10] synonym: "polyphosphatase activity" BROAD [EC:3.6.1.10] synonym: "polyphosphate depolymerase activity" BROAD [EC:3.6.1.10] synonym: "polyphosphate polyphosphohydrolase activity" EXACT [EC:3.6.1.10] xref: EC:3.6.1.10 xref: MetaCyc:ENDOPOLYPHOSPHATASE-RXN is_a: GO:0016462 ! pyrophosphatase activity [Term] id: GO:0000299 name: integral to membrane of membrane fraction namespace: cellular_component def: "Integral to that fraction of cells, prepared by disruptive biochemical methods, that includes the plasma and other membranes; require detergents, such as Triton X-100, to be released from membranes." [PMID:10512869] comment: Note that this term refers to disrupted cells, and does not necessarily correspond to any specific structure(s) in an intact cell. is_a: GO:0005624 ! membrane fraction [Term] id: GO:0000300 name: peripheral to membrane of membrane fraction namespace: cellular_component def: "Peripheral to that fraction of cells, prepared by disruptive biochemical methods, that includes the plasma and other membranes; can be extracted from membrane fraction with high concentrations of salt or high pH." [PMID:10512869] comment: Note that this term refers to disrupted cells, and does not necessarily correspond to any specific structure(s) in an intact cell. is_a: GO:0005624 ! membrane fraction [Term] id: GO:0000301 name: retrograde transport, vesicle recycling within Golgi namespace: biological_process def: "The retrograde movement of substances within the Golgi, mediated by COP I vesicles. Cis-Golgi vesicles are constantly moving forward through the Golgi stack by cisternal progression, eventually becoming trans-Golgi vesicles. They then selectively transport membrane and luminal proteins from the trans- to the medial-Golgi while leaving others behind in the trans-Golgi cisternae; similarly, they selectively move proteins from the medial- to the cis-Golgi." [ISBN:0716731363] synonym: "retrograde (vesicle recycling within Golgi) transport" EXACT [] is_a: GO:0006891 ! intra-Golgi vesicle-mediated transport [Term] id: GO:0000302 name: response to reactive oxygen species namespace: biological_process def: "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 reactive oxygen species stimulus. Reactive oxygen species include singlet oxygen, superoxide, and oxygen free radicals." [GOC:krc] subset: gosubset_prok synonym: "response to active oxygen species" EXACT [] synonym: "response to AOS" EXACT [] synonym: "response to reactive oxidative species" EXACT [] synonym: "response to reactive oxygen intermediate" EXACT [] synonym: "response to ROI" EXACT [] synonym: "response to ROS" EXACT [] is_a: GO:0006979 ! response to oxidative stress is_a: GO:0010035 ! response to inorganic substance [Term] id: GO:0000303 name: response to superoxide namespace: biological_process def: "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 superoxide stimulus. Superoxide is the anion, oxygen-, formed by addition of one electron to dioxygen (O2) or any compound containing the superoxide anion." [GOC:krc, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] subset: gosubset_prok is_a: GO:0000305 ! response to oxygen radical [Term] id: GO:0000304 name: response to singlet oxygen namespace: biological_process def: "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 singlet oxygen stimulus. Singlet oxygen is a dioxygen (O2) molecule in which two 2p electrons have similar spin. Singlet oxygen is more highly reactive than the form in which these electrons are of opposite spin, and it is produced in mutant chloroplasts lacking carotenoids and by leukocytes during metabolic burst." [GOC:krc, ISBN:0124325653, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] subset: gosubset_prok is_a: GO:0000302 ! response to reactive oxygen species [Term] id: GO:0000305 name: response to oxygen radical namespace: biological_process def: "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 an oxygen radical stimulus. An oxygen radical is any oxygen species that carries a free electron; examples include hydroxyl radicals and the superoxide anion." [GOC:krc, ISBN:0124325653] subset: gosubset_prok is_a: GO:0000302 ! response to reactive oxygen species [Term] id: GO:0000306 name: extrinsic to vacuolar membrane namespace: cellular_component def: "Loosely bound to one or the other surface of the vacuolar membrane, but not integrated into the hydrophobic region." [GOC:jl, GOC:mah, http://cancerweb.ncl.ac.uk/] is_a: GO:0031312 ! extrinsic to organelle membrane is_a: GO:0044437 ! vacuolar part relationship: part_of GO:0005774 ! vacuolar membrane [Term] id: GO:0000307 name: cyclin-dependent protein kinase holoenzyme complex namespace: cellular_component def: "Cyclin-dependent protein kinases (CDKs) are heterodimeric enzymes that contain a kinase catalytic subunit associated with a regulatory cyclin partner." [GOC:krc, PMID:11602261] subset: goslim_pir synonym: "CDK holoenzyme" EXACT [] is_a: GO:0043234 ! protein complex is_a: GO:0044424 ! intracellular part [Term] id: GO:0000308 name: cytoplasmic cyclin-dependent protein kinase holoenzyme complex namespace: cellular_component def: "Cyclin-dependent protein kinase (CDK) complex found in the cytoplasm." [GOC:krc] synonym: "CDK holoenzyme" BROAD [] is_a: GO:0000307 ! cyclin-dependent protein kinase holoenzyme complex is_a: GO:0044444 ! cytoplasmic part intersection_of: GO:0000307 ! cyclin-dependent protein kinase holoenzyme complex intersection_of: part_of GO:0005737 ! cytoplasm [Term] id: GO:0000309 name: nicotinamide-nucleotide adenylyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + nicotinamide nucleotide = diphosphate + NAD+." [EC:2.7.7.1] subset: gosubset_prok synonym: "adenosine triphosphate-nicotinamide mononucleotide transadenylase activity" EXACT [EC:2.7.7.1] synonym: "ATP:nicotinamide-nucleotide adenylyltransferase activity" EXACT [] synonym: "ATP:NMN adenylyltransferase activity" EXACT [EC:2.7.7.1] synonym: "diphosphopyridine nucleotide pyrophosphorylase activity" RELATED [EC:2.7.7.1] synonym: "NAD(+) diphosphorylase activity" NARROW [EC:2.7.7.1] synonym: "NAD(+) pyrophosphorylase activity" NARROW [EC:2.7.7.1] synonym: "NAD+ diphosphorylase activity" EXACT [EC:2.7.7.1] synonym: "NAD+ pyrophosphorylase activity" EXACT [EC:2.7.7.1] synonym: "nicotinamide adenine dinucleotide pyrophosphorylase activity" NARROW [EC:2.7.7.1] synonym: "nicotinamide mononucleotide adenylyltransferase activity" NARROW [EC:2.7.7.1] synonym: "NMN adenylyltransferase activity" NARROW [EC:2.7.7.1] synonym: "NMNAT activity" NARROW [EC:2.7.7.1] xref: EC:2.7.7.1 xref: MetaCyc:2.7.7.1-RXN xref: Reactome:23250 "nicotinamide-nucleotide adenylyltransferase activity" is_a: GO:0070566 ! adenylyltransferase activity [Term] id: GO:0000310 name: xanthine phosphoribosyltransferase activity namespace: molecular_function alt_id: GO:0009043 def: "Catalysis of the reaction: 5-phospho-alpha-D-ribose 1-diphosphate + xanthine = (9-D-ribosylxanthine)-5'-phosphate + diphosphate; substrate specificity for xanthine." [EC:2.4.2.22, GOC:clt] subset: gosubset_prok synonym: "5-phospho-alpha-D-ribose-1-diphosphate:xanthine phospho-D-ribosyltransferase activity" EXACT [EC:2.4.2.22] synonym: "Xan phosphoribosyltransferase activity" EXACT [EC:2.4.2.22] synonym: "xanthine-guanine phosphoribosyltransferase activity" EXACT [] synonym: "xanthosine 5'-phosphate pyrophosphorylase activity" EXACT [EC:2.4.2.22] synonym: "xanthylate pyrophosphorylase activity" EXACT [EC:2.4.2.22] synonym: "xanthylic pyrophosphorylase activity" EXACT [EC:2.4.2.22] synonym: "XMP pyrophosphorylase activity" EXACT [EC:2.4.2.22] synonym: "XMP:diphosphate 5-phospho-alpha-D-ribosyltransferase activity" EXACT [EC:2.4.2.22] xref: EC:2.4.2.22 xref: MetaCyc:XANPRIBOSYLTRAN-RXN is_a: GO:0016763 ! transferase activity, transferring pentosyl groups [Term] id: GO:0000311 name: plastid large ribosomal subunit namespace: cellular_component def: "The larger of the two subunits of a plastid ribosome. Two sites on the ribosomal large subunit are involved in translation: the aminoacyl site (A site) and peptidyl site (P site)." [GOC:mcc] is_a: GO:0000315 ! organellar large ribosomal subunit is_a: GO:0044435 ! plastid part intersection_of: GO:0015934 ! large ribosomal subunit intersection_of: part_of GO:0009547 ! plastid ribosome relationship: part_of GO:0009547 ! plastid ribosome [Term] id: GO:0000312 name: plastid small ribosomal subunit namespace: cellular_component def: "The smaller of the two subunits of a plastid ribosome." [GOC:mcc] is_a: GO:0000314 ! organellar small ribosomal subunit is_a: GO:0044435 ! plastid part intersection_of: GO:0015935 ! small ribosomal subunit intersection_of: part_of GO:0009547 ! plastid ribosome relationship: part_of GO:0009547 ! plastid ribosome [Term] id: GO:0000313 name: organellar ribosome namespace: cellular_component def: "A ribosome contained within a subcellular membrane-bounded organelle." [GOC:mah, GOC:mcc] is_a: GO:0005840 ! ribosome is_a: GO:0044422 ! organelle part intersection_of: GO:0005840 ! ribosome intersection_of: part_of GO:0043226 ! organelle [Term] id: GO:0000314 name: organellar small ribosomal subunit namespace: cellular_component def: "The smaller of the two subunits of an organellar ribosome." [GOC:mcc] is_a: GO:0015935 ! small ribosomal subunit intersection_of: GO:0015935 ! small ribosomal subunit intersection_of: part_of GO:0000313 ! organellar ribosome relationship: part_of GO:0000313 ! organellar ribosome [Term] id: GO:0000315 name: organellar large ribosomal subunit namespace: cellular_component def: "The larger of the two subunits of an organellar ribosome. Two sites on the ribosomal large subunit are involved in translation: the aminoacyl site (A site) and peptidyl site (P site)." [GOC:mcc] is_a: GO:0015934 ! large ribosomal subunit intersection_of: GO:0015934 ! large ribosomal subunit intersection_of: part_of GO:0000313 ! organellar ribosome relationship: part_of GO:0000313 ! organellar ribosome [Term] id: GO:0000316 name: sulfite transport namespace: biological_process def: "The directed movement of sulfite into, out of, within or between cells by means of some external agent such as a transporter or pore." [GOC:krc] synonym: "sulphite transport" EXACT [] is_a: GO:0015698 ! inorganic anion transport [Term] id: GO:0000317 name: methionine-S-oxide reductase activity namespace: molecular_function def: "Catalysis of the reaction: L-methionine S-oxide + thioredoxin = L-methionine + thioredoxin disulfide. Thioredoxin disulfide is the oxidized form of thioredoxin. No reaction on oxidized methionine in peptide linkage." [PMID:11169920] subset: gosubset_prok synonym: "methionine sulfoxide reductase activity" EXACT [] is_a: GO:0016671 ! oxidoreductase activity, acting on sulfur group of donors, disulfide as acceptor [Term] id: GO:0000318 name: protein-methionine-R-oxide reductase activity namespace: molecular_function def: "Catalysis of the reaction: L-methionine R-oxide + thioredoxin = L-methionine + thioredoxin disulfide; can act on oxidized methionine in peptide linkage with specificity for the R enantiomer. Thioredoxin disulfide is the oxidized form of thioredoxin." [EC:1.8.4.-, PMID:11929995] subset: gosubset_prok xref: EC:1.8.4.- is_a: GO:0016671 ! oxidoreductase activity, acting on sulfur group of donors, disulfide as acceptor [Term] id: GO:0000319 name: sulfite transmembrane transporter activity namespace: molecular_function def: "Catalysis of the transfer of sulfite ions from one side of a membrane to the other." [GOC:as] synonym: "sulphite transporter activity" EXACT [] is_a: GO:0015103 ! inorganic anion transmembrane transporter activity relationship: part_of GO:0000316 ! sulfite transport [Term] id: GO:0000320 name: re-entry into mitotic cell cycle namespace: biological_process def: "The resumption of the mitotic cell division cycle by cells that were in a quiescent or other non-dividing state." [GOC:krc] is_a: GO:0022402 ! cell cycle process [Term] id: GO:0000321 name: re-entry into mitotic cell cycle after pheromone arrest namespace: biological_process def: "The resumption of the mitotic cell division cycle by pheromone-arrested cells that have not mated. An example of this process is found in Saccharomyces cerevisiae." [GOC:krc, PMID:9927449] is_a: GO:0000320 ! re-entry into mitotic cell cycle is_a: GO:0000754 ! adaptation of signaling pathway by response to pheromone involved in conjugation with cellular fusion is_a: GO:0048610 ! reproductive cellular process [Term] id: GO:0000322 name: storage vacuole namespace: cellular_component def: "A vacuole that functions primarily in the storage of materials, including nutrients, pigments, waste products, and small molecules." [GOC:krc] is_a: GO:0005773 ! vacuole [Term] id: GO:0000323 name: lytic vacuole namespace: cellular_component def: "A vacuole that is maintained at an acidic pH and which contains degradative enzymes, including a wide variety of acid hydrolases." [GOC:krc] is_a: GO:0005773 ! vacuole [Term] id: GO:0000324 name: fungal-type vacuole namespace: cellular_component def: "A vacuole that has both lytic and storage functions. The fungal vacuole is a large, membrane-bounded organelle that functions as a reservoir for the storage of small molecules (including polyphosphate, amino acids, several divalent cations (e.g. calcium), other ions, and other small molecules) as well as being the primary compartment for degradation. It is an acidic compartment, containing an ensemble of acid hydrolases. At least in S. cerevisiae, there are indications that the morphology of the vacuole is variable and correlated with the cell cycle, with logarithmically growing cells having a multilobed, reticulated vacuole, while stationary phase cells contain a single large structure." [GOC:mah, GOC:mtg_sensu, ISBN:0879693649] synonym: "vacuole, cell cycle-correlated morphology" EXACT [] is_a: GO:0000322 ! storage vacuole is_a: GO:0000323 ! lytic vacuole [Term] id: GO:0000325 name: plant-type vacuole namespace: cellular_component def: "A closed structure that is completely surrounded by a unit membrane, contains liquid, and retains the same shape regardless of cell cycle phase. An example of this structure is found in Arabidopsis thaliana." [GOC:mtg_sensu, ISBN:0815316208] synonym: "vacuole, cell cycle-independent morphology" EXACT [] is_a: GO:0005773 ! vacuole [Term] id: GO:0000326 name: protein storage vacuole namespace: cellular_component def: "A storage vacuole that contains a lytic vacuole; identified in plants." [PMID:11739409] is_a: GO:0000322 ! storage vacuole is_a: GO:0000325 ! plant-type vacuole [Term] id: GO:0000327 name: lytic vacuole within protein storage vacuole namespace: cellular_component def: "A membrane-bounded compartment containing crystals of phytic acid and proteins characteristic of a lytic vacuole, found within a storage vacuole." [PMID:11739490] is_a: GO:0000323 ! lytic vacuole is_a: GO:0044437 ! vacuolar part intersection_of: GO:0000323 ! lytic vacuole intersection_of: part_of GO:0000326 ! protein storage vacuole relationship: part_of GO:0000326 ! protein storage vacuole [Term] id: GO:0000328 name: fungal-type vacuole lumen namespace: cellular_component def: "The volume enclosed within the vacuolar membrane of a vacuole, the shape of which correlates with cell cycle phase. An example of this structure is found in Saccharomyces cerevisiae." [GOC:krc, GOC:mtg_sensu] synonym: "lumen of vacuole with cell cycle-correlated morphology" EXACT [] is_a: GO:0005775 ! vacuolar lumen relationship: part_of GO:0000324 ! fungal-type vacuole [Term] id: GO:0000329 name: fungal-type vacuole membrane namespace: cellular_component def: "The lipid bilayer surrounding a vacuole, the shape of which correlates with cell cycle phase. The membrane separates its contents from the cytoplasm of the cell. An example of this structure is found in Saccharomyces cerevisiae." [GOC:krc, GOC:mtg_sensu] synonym: "fungal-type vacuolar membrane" RELATED [] synonym: "membrane of vacuole with cell cycle-correlated morphology" EXACT [] is_a: GO:0005774 ! vacuolar membrane relationship: part_of GO:0000324 ! fungal-type vacuole [Term] id: GO:0000330 name: plant-type vacuole lumen namespace: cellular_component def: "The volume enclosed within the vacuolar membrane of a vacuole that retains the same shape regardless of cell cycle phase. An example of this is found in Arabidopsis thaliana." [GOC:krc, GOC:mtg_sensu] synonym: "lumen of vacuole with cell cycle-independent morphology" EXACT [] is_a: GO:0005775 ! vacuolar lumen relationship: part_of GO:0000325 ! plant-type vacuole [Term] id: GO:0000331 name: contractile vacuole namespace: cellular_component def: "A specialized vacuole of eukaryotic cells, especially Protozoa, that fills with water from the cytoplasm and then discharges this externally by the opening of contractile vacuole pores. Its function is probably osmoregulatory." [GOC:jl, http://cancerweb.ncl.ac.uk/, PMID:10503189] xref: Wikipedia:Contractile_vacuole is_a: GO:0005773 ! vacuole is_a: GO:0016023 ! cytoplasmic membrane-bounded vesicle is_a: GO:0031988 ! membrane-bounded vesicle [Term] id: GO:0000332 name: template for synthesis of G-rich strand of telomere DNA activity namespace: molecular_function def: "Provision of the template used by reverse transcriptase to synthesize the G-rich strand of telomeric DNA." [PMID:11812242] comment: Note that this term describes the activity of an RNA gene product that interacts with other nucleic acid molecules via base pairing; it should not be used to annotate proteins. synonym: "telomerase RNA" EXACT [] synonym: "telomerase, template" EXACT [] is_a: GO:0000497 ! base pairing with DNA relationship: part_of GO:0003720 ! telomerase activity [Term] id: GO:0000333 name: telomerase catalytic core complex namespace: cellular_component def: "The minimal catalytic core of telomerase is a ribonucleoprotein complex composed of a catalytic reverse transcriptase subunit and an RNA subunit that provides the template for telomeric DNA addition." [PMID:11884619] is_a: GO:0005697 ! telomerase holoenzyme complex [Term] id: GO:0000334 name: 3-hydroxyanthranilate 3,4-dioxygenase activity namespace: molecular_function def: "Catalysis of the reaction: 3-hydroxyanthranilate + O2 = 2-amino-3-carboxymuconate semialdehyde." [EC:1.13.11.6] subset: gosubset_prok synonym: "3-hydroxyanthranilate oxygenase activity" EXACT [EC:1.13.11.6] synonym: "3-hydroxyanthranilate:oxygen 3,4-oxidoreductase (decyclizing)" EXACT [EC:1.13.11.6] synonym: "3-hydroxyanthranilic acid dioxygenase activity" EXACT [EC:1.13.11.6] synonym: "3-hydroxyanthranilic acid oxygenase activity" EXACT [EC:1.13.11.6] synonym: "3-hydroxyanthranilic oxygenase activity" EXACT [EC:1.13.11.6] synonym: "3HAO" RELATED [EC:1.13.11.6] xref: EC:1.13.11.6 xref: MetaCyc:1.13.11.6-RXN xref: Reactome:23302 "3-hydroxyanthranilate 3,4-dioxygenase activity" xref: UM-BBD_enzymeID:e0633 is_a: GO:0016702 ! oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen [Term] id: GO:0000335 name: negative regulation of transposition, DNA-mediated namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of DNA transposition." [GOC:dph, GOC:krc, GOC:tb] subset: gosubset_prok synonym: "down regulation of DNA transposition" EXACT [] synonym: "down-regulation of DNA transposition" EXACT [] synonym: "downregulation of DNA transposition" EXACT [] synonym: "inhibition of DNA transposition" NARROW [] synonym: "negative regulation of DNA transposition" EXACT [GOC:dph] is_a: GO:0000337 ! regulation of transposition, DNA-mediated is_a: GO:0010529 ! negative regulation of transposition is_a: GO:0045910 ! negative regulation of DNA recombination intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006313 ! transposition, DNA-mediated relationship: negatively_regulates GO:0006313 ! transposition, DNA-mediated [Term] id: GO:0000336 name: positive regulation of transposition, DNA-mediated namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of DNA transposition." [GOC:dph, GOC:krc] subset: gosubset_prok synonym: "activation of DNA transposition" NARROW [] synonym: "positive regulation of DNA transposition" EXACT [GOC:dph] synonym: "stimulation of DNA transposition" NARROW [] synonym: "up regulation of DNA transposition" EXACT [] synonym: "up-regulation of DNA transposition" EXACT [] synonym: "upregulation of DNA transposition" EXACT [] is_a: GO:0000337 ! regulation of transposition, DNA-mediated is_a: GO:0010530 ! positive regulation of transposition is_a: GO:0045911 ! positive regulation of DNA recombination intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006313 ! transposition, DNA-mediated relationship: positively_regulates GO:0006313 ! transposition, DNA-mediated [Term] id: GO:0000337 name: regulation of transposition, DNA-mediated namespace: biological_process def: "Any process that modulates the frequency, rate or extent of DNA transposition, the process of transposing (moving to a different location) a segment of a chromosome or a piece of a DNA molecule." [GOC:dph, GOC:krc] subset: gosubset_prok synonym: "regulation of DNA transposition" EXACT [GOC:dph] is_a: GO:0000018 ! regulation of DNA recombination is_a: GO:0010528 ! regulation of transposition intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006313 ! transposition, DNA-mediated relationship: regulates GO:0006313 ! transposition, DNA-mediated [Term] id: GO:0000338 name: protein deneddylation namespace: biological_process def: "The removal of a ubiquitin-like protein of the NEDD8 type from a protein." [GOC:krc] is_a: GO:0043687 ! post-translational protein modification is_a: GO:0070646 ! protein modification by small protein removal [Term] id: GO:0000339 name: RNA cap binding namespace: molecular_function def: "Interacting selectively and non-covalently with a 7-methylguanosine (m7G) moiety or derivative located at the 5' end of an RNA molecule." [GOC:krc] synonym: "binding to mRNA cap" NARROW [] synonym: "mRNA cap binding" NARROW [] synonym: "snRNA cap binding" NARROW [] is_a: GO:0003723 ! RNA binding [Term] id: GO:0000340 name: RNA 7-methylguanosine cap binding namespace: molecular_function def: "Interacting selectively and non-covalently with the 7-methylguanosine moiety added cotranscriptionally to the 5' end of RNA molecules transcribed by polymerase II." [GOC:krc] synonym: "RNA m7G cap binding" EXACT [] is_a: GO:0000339 ! RNA cap binding [Term] id: GO:0000341 name: RNA trimethylguanosine cap binding namespace: molecular_function def: "Interacting selectively and non-covalently with the trimethylguanosine (m(3)(2,2,7)-GTP) moiety located at the 5' end of some RNA molecules. Such trimethylated cap structures, generally produced by posttranscriptional modification of a 7-methylguanosine cap, are often found on snRNAs and snoRNAs transcribed by RNA polymerase II, but have also be found on snRNAs transcribed by RNA polymerase III. They have also been found on a subset of the mRNA population in some species, e.g. C. elegans." [GOC:krc] synonym: "RNA m2,2,7G cap binding" EXACT [] is_a: GO:0000339 ! RNA cap binding [Term] id: GO:0000342 name: RNA cap 4 binding namespace: molecular_function def: "Interacting selectively and non-covalently with a hypermethylated cap structure consisting of 7-methylguanosine (m(7)G) followed by four methylated nucleotides (cap 4): 7-methylguanosine-ppp-N6, N6, 2'-O-trimethyladenosine-p-2'-O-methyladenosine-p-2'-O-methylcytosine-p-N3, 2'-O-dimethyluridine Such caps are known to be found at the 5' ends of SL RNAs of trypanosomatid protozoa." [GOC:krc, PMID:10880518, PMID:12121975] is_a: GO:0000339 ! RNA cap binding [Term] id: GO:0000343 name: plastid-encoded plastid RNA polymerase complex A namespace: cellular_component def: "A plastid-encoded DNA-directed RNA polymerase complex that resembles eubacterial multisubunit RNA polymerases, with a core composed of alpha, beta, and beta-prime subunits. An additional subunit, a sigma factor, is required for promoter recognition. PEP-A is generated from the PEP-B form during chloroplast maturation to generate a complex composed of at least thirteen polypeptides that is not sensitive to the antibiotic rifampicin, like its precursor form the PEP-B complex." [PMID:10946105] synonym: "PEP-A" EXACT [] is_a: GO:0000427 ! plastid-encoded plastid RNA polymerase complex [Term] id: GO:0000344 name: plastid-encoded plastid RNA polymerase complex B namespace: cellular_component def: "A plastid-encoded DNA-directed RNA polymerase complex that resembles eubacterial multisubunit RNA polymerases with a core composed of alpha, beta, and beta-prime subunits. An additional subunit, a sigma factor, is required for promoter recognition. PEP-B is distinguished from PEP-A by its sensitivity to the antibiotic rifampicin. PEP-B is found in both etioplasts and chloroplasts, but is the predominate form in etioplasts. It forms the core of the PEP-A form; the conversion from PEP-B to PEP-A occurs during chloroplast maturation." [PMID:10946105] synonym: "PEP-B" EXACT [] is_a: GO:0000427 ! plastid-encoded plastid RNA polymerase complex [Term] id: GO:0000345 name: cytosolic DNA-directed RNA polymerase complex namespace: cellular_component def: "The eubacterial DNA-directed RNA polymerase is a multisubunit complex with a core composed of the essential subunits beta-prime, beta, and two copies of alpha and a fifth nonessential subunit called omega. An additional subunit, a sigma factor, is required for promoter recognition and specificity." [PMID:11158566] subset: gosubset_prok is_a: GO:0000428 ! DNA-directed RNA polymerase complex is_a: GO:0044445 ! cytosolic part [Term] id: GO:0000346 name: transcription export complex namespace: cellular_component def: "The transcription export (TREX) complex couples transcription elongation by RNA polymerase II to mRNA export. The complex associates with the polymerase and travels with it along the length of the transcribed gene. TREX is composed of the THO transcription elongation complex as well as other proteins that couple THO to mRNA export proteins. The TREX complex is known to be found in a wide range of eukaryotes, including S. cerevisiae and metazoans." [GOC:krc, PMID:11979277] subset: goslim_pir synonym: "TREX complex" EXACT [] is_a: GO:0043234 ! protein complex is_a: GO:0044428 ! nuclear part [Term] id: GO:0000347 name: THO complex namespace: cellular_component def: "The THO complex is a nuclear complex that is required for transcription elongation through genes containing tandemly repeated DNA sequences. The THO complex is also part of the TREX (TRanscription EXport) complex that is involved in coupling transcription to export of mRNAs to the cytoplasm. In S. cerevisiae, it is composed of four subunits: Hpr1p, Tho2p, Thp1p, and Mft1p, while the human complex is composed of 7 subunits." [GOC:krc, PMID:11060033, PMID:11979277, PMID:16983072] subset: goslim_pir is_a: GO:0043234 ! protein complex is_a: GO:0044428 ! nuclear part [Term] id: GO:0000348 name: nuclear mRNA branch site recognition namespace: biological_process alt_id: GO:0000370 alt_id: GO:0000371 def: "Recognition of the pre-mRNA branch site sequence by components of the assembling spliceosome." [GOC:krc, ISBN:0879695897] comment: Note that this step represents the formation of the B complex (yeast) or the A complex (mammalian). synonym: "spliceosomal A complex biosynthesis" NARROW [] synonym: "spliceosomal A complex formation" NARROW [] synonym: "spliceosomal B complex biosynthesis" NARROW [] synonym: "spliceosomal B complex formation" NARROW [] synonym: "U12-type nuclear mRNA branch site recognition" NARROW [] synonym: "U2-type nuclear mRNA branch site recognition" NARROW [] is_a: GO:0022618 ! ribonucleoprotein complex assembly relationship: part_of GO:0000245 ! spliceosome assembly [Term] id: GO:0000349 name: generation of catalytic spliceosome for first transesterification step namespace: biological_process alt_id: GO:0000356 alt_id: GO:0000357 def: "Formation of a catalytic spliceosome complex ready to perform the first splicing reaction. This occurs by an ATP-dependent conformational change of the pre-catalytic spliceosome." [GOC:krc, ISBN:0879695897] comment: Note that this step represents the formation of the A2-2 complex (yeast) or the C1 complex (mammalian). synonym: "catalytic spliceosome assembly for first transesterification step" RELATED [] synonym: "formation of catalytic spliceosome for first transesterification step" EXACT [] synonym: "spliceosomal A2-2 complex biosynthesis" NARROW [] synonym: "spliceosomal A2-2 complex formation" NARROW [] synonym: "spliceosomal C1 complex biosynthesis" NARROW [] synonym: "spliceosomal C1 complex formation" NARROW [] synonym: "U12-type catalytic spliceosome formation for first transesterification step" NARROW [] synonym: "U2-type catalytic spliceosome formation for first transesterification step" NARROW [] is_a: GO:0022618 ! ribonucleoprotein complex assembly relationship: part_of GO:0000393 ! spliceosomal conformational changes to generate catalytic conformation [Term] id: GO:0000350 name: generation of catalytic spliceosome for second transesterification step namespace: biological_process alt_id: GO:0000358 alt_id: GO:0000359 def: "Conformational rearrangement of the spliceosomal complex containing the RNA products from the 1st step of splicing to form the catalytic site for the second step of splicing." [GOC:krc, ISBN:0879695897] comment: Note that this step represents formation of the A2-3 complex (yeast) or the C2 complex (mammalian). synonym: "catalytic spliceosome assembly for second transesterification step" RELATED [] synonym: "formation of catalytic spliceosome for second transesterification step" EXACT [] synonym: "formation of catalytic U12-type spliceosome for second transesterification step" NARROW [] synonym: "formation of catalytic U2-type spliceosome for second transesterification step" NARROW [] synonym: "formation of spliceosomal A2-2 complex" NARROW [] synonym: "formation of spliceosomal C1 complex" NARROW [] synonym: "lariat formation, 5'-splice site cleavage" RELATED [] synonym: "spliceosomal A2-3 complex biosynthesis" NARROW [] synonym: "spliceosomal A2-3 complex formation" NARROW [] synonym: "spliceosomal C2 complex biosynthesis" NARROW [] synonym: "spliceosomal C2 complex formation" NARROW [] is_a: GO:0022618 ! ribonucleoprotein complex assembly relationship: part_of GO:0000393 ! spliceosomal conformational changes to generate catalytic conformation [Term] id: GO:0000352 name: trans assembly of SL-containing precatalytic spliceosome namespace: biological_process def: "Assembly of a spliceosomal complex containing the SL RNA and the pre-mRNA to be joined, as well as all the spliceosomal snRNPs involved in trans leader splicing. Formation of the trans leader spliceosome brings together the quadruple SL/U4/U5/U6 snRNP and the complex of the U2 snRNP with the splice site of the pre-mRNA." [GOC:krc, GOC:mtg_mpo, ISBN:0879695897] synonym: "trans assembly of spliced leader-containing precatalytic spliceosome" EXACT [] is_a: GO:0022618 ! ribonucleoprotein complex assembly relationship: part_of GO:0000245 ! spliceosome assembly relationship: part_of GO:0045291 ! nuclear mRNA trans splicing, SL addition [Term] id: GO:0000353 name: formation of quadruple SL/U4/U5/U6 snRNP namespace: biological_process def: "Formation of a quadruple snRNP complex composed of the spliced leader (SL) RNA along with the U4/U6-U5 tri-snRNP complex. Interactions that may facilitate this include a duplex between the SL and U6 RNAs and interactions between the U5 RNA and the exon sequence at the 5' splice site within the SL RNA." [GOC:krc, ISBN:0879695897] comment: Note that this step is analogous to 5' splice site selection in cis-splicing. is_a: GO:0022618 ! ribonucleoprotein complex assembly relationship: part_of GO:0045291 ! nuclear mRNA trans splicing, SL addition [Term] id: GO:0000354 name: cis assembly of pre-catalytic spliceosome namespace: biological_process alt_id: GO:0000360 alt_id: GO:0000361 def: "Assembly of a spliceosomal complex containing the intact pre-mRNA and all of the spliceosomal snRNPs. This occurs when the tri-snRNP associates with the pre-mRNA and associated snRNPs in an ATP-dependent manner." [GOC:krc, GOC:mtg_mpo, ISBN:0879695897] comment: Note that this step represents formation of the A2-1 complex (yeast) or the B1 complex (mammals). synonym: "cis assembly of U12-type pre-catalytic spliceosome" NARROW [] synonym: "cis assembly of U2-type pre-catalytic spliceosome" NARROW [] synonym: "formation of spliceosomal A2-1 complex" NARROW [] synonym: "formation of spliceosomal B1 complex" NARROW [] synonym: "spliceosomal A2-1 complex biosynthesis" NARROW [] synonym: "spliceosomal A2-1 complex formation" NARROW [] synonym: "spliceosomal B1 complex biosynthesis" NARROW [] synonym: "spliceosomal B1 complex formation" NARROW [] is_a: GO:0022618 ! ribonucleoprotein complex assembly relationship: part_of GO:0000245 ! spliceosome assembly relationship: part_of GO:0045292 ! nuclear mRNA cis splicing, via spliceosome [Term] id: GO:0000362 name: first U2-type spliceosomal transesterification activity namespace: molecular_function def: "OBSOLETE. Catalysis of the first transesterification reaction of U2-type spliceosomal mRNA splicing. The intron branch site adenosine is the nucleophile attacking the 5' splice site, resulting in cleavage at this position. In cis splicing, this is the step that forms a lariat structure of the intron RNA, which is still joined to the 3' exon. The catalytic site is thought to be formed by U6 and/or U2 snRNA, and/or associated proteins." [GOC:krc, ISBN:0879695897] comment: This term was made obsolete because the activities used in the U2- and U12-type complexes are the same. The cellular component ontology should (and does) represent the two different complexes, but the molecular function ontology should not. synonym: "lariat formation, 5'-splice site cleavage" BROAD [] is_obsolete: true replaced_by: GO:0000384 [Term] id: GO:0000363 name: first U12-type spliceosomal transesterification activity namespace: molecular_function def: "OBSOLETE. Catalysis of the first transesterification reaction of U12-type spliceosomal mRNA splicing. The intron branch site adenosine is the nucleophile attacking the 5' splice site, resulting in cleavage at this position. In cis splicing, this is the step that forms a lariat structure of the intron RNA, which is still joined to the 3' exon. The catalytic site is thought to be formed by U6atac snRNA and/or U2atac snRNA, and/or associated proteins." [GOC:krc, ISBN:0879695897] comment: This term was made obsolete because the activities used in the U2- and U12-type complexes are the same. The cellular component ontology should (and does) represent the two different complexes, but the molecular function ontology should not. synonym: "lariat formation, 5'-splice site cleavage" BROAD [] is_obsolete: true replaced_by: GO:0000384 [Term] id: GO:0000364 name: second U2-type spliceosomal transesterification activity namespace: molecular_function def: "OBSOLETE. Catalysis of the second transesterification reaction of U2-type spliceosomal mRNA splicing. Ligation of the two exons occurs via a transesterification reaction where the free 3'-hydroxyl group of the 5' exon is the nucleophile attacking the 3' splice site. Non-expressed sequences are now detached from the exons. In cis splicing, the intron is in a lariat structure. The catalytic site is thought to be formed by U6 and/or U2 snRNAs and/or associated proteins." [GOC:krc, ISBN:0879695897] comment: This term was made obsolete because the activities used in the U2- and U12-type complexes are the same. The cellular component ontology should (and does) represent the two different complexes, but the molecular function ontology should not. synonym: "3'-splice site cleavage, exon ligation" BROAD [] is_obsolete: true replaced_by: GO:0000386 [Term] id: GO:0000365 name: nuclear mRNA trans splicing, via spliceosome namespace: biological_process def: "The joining together of exons from two different primary transcripts of messenger RNA (mRNA) via a spliceosomal mechanism, so that mRNA consisting only of the joined exons is produced." [GOC:krc, ISBN:0879695897] synonym: "nuclear mRNA trans splicing, via U2-type spliceosome" NARROW [] is_a: GO:0000398 ! nuclear mRNA splicing, via spliceosome [Term] id: GO:0000366 name: intergenic nuclear mRNA trans splicing namespace: biological_process def: "The joining together of two independently transcribed RNAs from two different genes, each of which also produces mRNA(s) via cis-splicing." [GOC:krc, PMID:11726664, PMID:12110900] is_a: GO:0000365 ! nuclear mRNA trans splicing, via spliceosome is_a: GO:0000380 ! alternative nuclear mRNA splicing, via spliceosome [Term] id: GO:0000367 name: second U12-type spliceosomal transesterification activity namespace: molecular_function def: "OBSOLETE. Catalysis of the second transesterification reaction of U12-type spliceosomal mRNA splicing. Ligation of the two exons occurs via a transesterification reaction where the free 3'-hydroxyl group of the 5' exon is the nucleophile attacking the 3' splice site. Non-expressed sequences are now detached from the exons. In cis splicing, the intron is in a lariat structure. The catalytic site is thought to be formed by U6 and/or U2 snRNAs and/or associated proteins." [GOC:krc, ISBN:0879695897] comment: This term was made obsolete because the activities used in the U2- and U12-type complexes are the same. The cellular component ontology should (and does) represent the two different complexes, but the molecular function ontology should not. synonym: "3'-splice site cleavage, exon ligation" BROAD [] is_obsolete: true replaced_by: GO:0000386 [Term] id: GO:0000372 name: Group I intron splicing namespace: biological_process def: "The splicing of Group I introns. This occurs by a ribozymic mechanism where the intron sequence forms a distinct 3D structure, characteristic of Group I introns and involved in determining the locations of the splice sites (there do not appear to be consensus splice site sequences) as well as having a role in catalyzing the splicing reactions, though protein factors are also required in vivo. Splicing occurs by a series of two transesterification reactions, generally with exogenous guanosine as the initiating nucleophile. The intron is excised as a linear piece (though it may subsequently circularize)." [GOC:krc, PMID:11377794] comment: Note that Group I introns are known to be found in a number of places: rRNA, mRNA, and tRNA in organelles of fungi, plants, and protists; tRNA and mRNA of bacteria and bacteriophage; rRNA of protists and fungi; and occasionally in mRNA of animal mitochondria (e.g. sea anemone). subset: gosubset_prok synonym: "mRNA splicing" NARROW [] is_a: GO:0000376 ! RNA splicing, via transesterification reactions with guanosine as nucleophile [Term] id: GO:0000373 name: Group II intron splicing namespace: biological_process def: "The splicing of Group II introns. This occurs by a ribozymic mechanism where the intron sequence forms a distinct 3D structure, characteristic of Group II introns and containing splice site consensus sequences, that is involved in catalyzing the splicing reactions, though protein factors are also required in vivo. Splicing occurs by a series of two transesterification reactions (mechanistically similar to those for splicing of nuclear mRNAs) initiated by a bulged adenosine residue within the intron sequence as the initiating nucleophile. The intron is excised as a lariat." [GOC:krc, PMID:11377794] comment: Note that Group II introns are known to be found in a number of places: rRNA, mRNA, and tRNA in organelles of fungi, plants, and protists; and mRNA of bacteria. subset: gosubset_prok synonym: "mRNA splicing" NARROW [] is_a: GO:0000377 ! RNA splicing, via transesterification reactions with bulged adenosine as nucleophile [Term] id: GO:0000374 name: Group III intron splicing namespace: biological_process def: "The splicing of Group III introns. This occurs by a ribozymic mechanism where the intron sequence forms a distinct 3D structure, characteristic of Group III introns, that is involved in catalyzing the splicing reactions, though protein factors are also required in vivo. Splicing occurs by a series of two transesterification reactions begun by a bulged adenosine residue within the intron sequence as the initiating nucleophile. The intron is excised as a lariat. Though very similar in structure and mechanism to Group II introns, Group III introns are smaller and more streamlined and the splice site consensus sequences are not as well conserved." [GOC:krc, PMID:11377794] comment: Note that Group III introns are known to be found in mRNA of plastids of euglenoid protists. subset: gosubset_prok synonym: "mRNA splicing" NARROW [] is_a: GO:0000377 ! RNA splicing, via transesterification reactions with bulged adenosine as nucleophile [Term] id: GO:0000375 name: RNA splicing, via transesterification reactions namespace: biological_process alt_id: GO:0000385 alt_id: GO:0031202 def: "Splicing of RNA via a series of two transesterification reactions." [GOC:krc] comment: Note that nuclear mRNA, Group I, Group II, and Group III introns are all spliced by a series of two transesterification reactions that occur within the RNA itself, or between two RNAs in trans splicing. Some of these require one or more proteins to stabilize the catalytic conformation, while others are autocatalytic. Note that tRNA introns are spliced by a different catalytic mechanism. subset: gosubset_prok synonym: "pre-mRNA splicing factor activity" RELATED [GOC:krc, GOC:mah] synonym: "RNA splicing factor activity, transesterification mechanism" RELATED [GOC:krc, GOC:mah] synonym: "spliceosomal catalysis" RELATED [] is_a: GO:0008380 ! RNA splicing [Term] id: GO:0000376 name: RNA splicing, via transesterification reactions with guanosine as nucleophile namespace: biological_process def: "Splicing of RNA via a series of two transesterification reactions with exogenous guanosine as the initiating nucleophile." [GOC:krc, PMID:11377794] subset: gosubset_prok is_a: GO:0000375 ! RNA splicing, via transesterification reactions [Term] id: GO:0000377 name: RNA splicing, via transesterification reactions with bulged adenosine as nucleophile namespace: biological_process def: "Splicing of RNA via a series of two transesterification reactions with a bulged adenosine residue from the intron branch point as the initiating nucleophile. When the initial RNA for the splicing reaction is a single molecule (cis splicing), the excised intron is released in a lariat structure." [GOC:krc, PMID:11377794] subset: gosubset_prok synonym: "lariat RNA biosynthesis" RELATED [] synonym: "lariat RNA formation" RELATED [] is_a: GO:0000375 ! RNA splicing, via transesterification reactions [Term] id: GO:0000378 name: RNA exon ligation namespace: biological_process def: "The process of joining two exons, each of which has free ends that were generated by endonucleolytic cleavages, by a ligation reaction." [GOC:krc, ISBN:0879695897] comment: Note that this is not a part of spliceosomal RNA splicing. subset: gosubset_prok is_a: GO:0016070 ! RNA metabolic process relationship: part_of GO:0000394 ! RNA splicing, via endonucleolytic cleavage and ligation [Term] id: GO:0000379 name: tRNA-type intron splice site recognition and cleavage namespace: biological_process def: "The process by which the tertiary structure of a tRNA type intron is recognized, and the endonucleolytic cleavage of the RNA at both the 5' and 3' splice sites occurs." [GOC:krc, GOC:mah, ISBN:0879695897] subset: gosubset_prok is_a: GO:0006396 ! RNA processing relationship: part_of GO:0006388 ! tRNA splicing, via endonucleolytic cleavage and ligation [Term] id: GO:0000380 name: alternative nuclear mRNA splicing, via spliceosome namespace: biological_process def: "The process of generating multiple mRNA molecules from a given set of exons by differential use of exons from the primary transcript(s) to form multiple mature mRNAs that vary in their exon composition." [GOC:krc, PMID:12110900] comment: Note that this process most commonly occurs in cis, selecting or skipping exons from the same primary transcript, but it has also been observed to occur in trans at low frequency, at least in some mammals. synonym: "splice site selection" BROAD [] is_a: GO:0000398 ! nuclear mRNA splicing, via spliceosome [Term] id: GO:0000381 name: regulation of alternative nuclear mRNA splicing, via spliceosome namespace: biological_process def: "Any process that modulates the frequency, rate or extent of alternative splicing of nuclear mRNAs." [GOC:krc] synonym: "splice site selection" BROAD [] is_a: GO:0048024 ! regulation of nuclear mRNA splicing, via spliceosome intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0000380 ! alternative nuclear mRNA splicing, via spliceosome relationship: regulates GO:0000380 ! alternative nuclear mRNA splicing, via spliceosome [Term] id: GO:0000384 name: first spliceosomal transesterification activity namespace: molecular_function def: "Catalysis of the first transesterification reaction of spliceosomal mRNA splicing. The intron branch site adenosine is the nucleophile attacking the 5' splice site, resulting in cleavage at this position. In cis splicing, this is the step that forms a lariat structure of the intron RNA, while it is still joined to the 3' exon." [GOC:krc, ISBN:0879695897] synonym: "lariat formation, 5'-splice site cleavage" NARROW [] is_a: GO:0003824 ! catalytic activity relationship: part_of GO:0000375 ! RNA splicing, via transesterification reactions [Term] id: GO:0000386 name: second spliceosomal transesterification activity namespace: molecular_function def: "Catalysis of the second transesterification reaction of spliceosomal mRNA splicing. Ligation of the two exons occurs via a transesterification reaction where the free 3'-hydroxyl group of the 5' exon is the nucleophile attacking the 3' splice site. Non-expressed sequences are now detached from the exons. In cis splicing, the intron is in a lariat structure." [GOC:krc, ISBN:0879695897] synonym: "3'-splice site cleavage, exon ligation" BROAD [] synonym: "lariat formation, 5'-splice site cleavage" NARROW [] is_a: GO:0003824 ! catalytic activity relationship: part_of GO:0000375 ! RNA splicing, via transesterification reactions [Term] id: GO:0000387 name: spliceosomal snRNP assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of one or more snRNA and multiple protein components to form a ribonucleoprotein complex that is involved in formation of the spliceosome." [GOC:krc, GOC:mah, ISBN:0879695897] synonym: "spliceosomal snRNP biogenesis" RELATED [GOC:mah] xref: Reactome:191763 "snRNP:Snurportin complex formation" xref: Reactome:191784 "snRNA Cap hypermethylation" xref: Reactome:191786 "snRNP complex assembly" xref: Reactome:191790 "Loading and methylation of Sm proteins onto SMN Complexes" xref: Reactome:191859 "snRNP Assembly" xref: Reactome:560676 "snRNA Cap hypermethylation" xref: Reactome:560677 "snRNP complex assembly" xref: Reactome:560697 "snRNP:Snurportin complex formation" xref: Reactome:563310 "snRNP Assembly" xref: Reactome:580473 "Loading and methylation of Sm proteins onto SMN Complexes" xref: Reactome:586415 "snRNA Cap hypermethylation" xref: Reactome:586416 "snRNP complex assembly" xref: Reactome:586433 "snRNP:Snurportin complex formation" xref: Reactome:588881 "snRNP Assembly" xref: Reactome:607444 "snRNA Cap hypermethylation" xref: Reactome:607445 "snRNP complex assembly" xref: Reactome:607457 "snRNP:Snurportin complex formation" xref: Reactome:609643 "snRNP Assembly" xref: Reactome:631935 "snRNA Cap hypermethylation" xref: Reactome:631936 "snRNP complex assembly" xref: Reactome:631940 "snRNP:Snurportin complex formation" xref: Reactome:634417 "snRNP Assembly" xref: Reactome:644515 "snRNA Cap hypermethylation" xref: Reactome:644516 "snRNP complex assembly" xref: Reactome:644520 "snRNP:Snurportin complex formation" xref: Reactome:645813 "snRNP Assembly" is_a: GO:0022618 ! ribonucleoprotein complex assembly relationship: part_of GO:0000398 ! nuclear mRNA splicing, via spliceosome [Term] id: GO:0000388 name: spliceosome conformational change to release U4 (or U4atac) and U1 (or U11) namespace: biological_process alt_id: GO:0000396 alt_id: GO:0000397 def: "Rearrangement of the pre-catalytic spliceosome containing U4 (or U4atac) and U1 (or U11) snRNPs to unpair U4 (or U4atac) from U6 (or U6atac) and release it from the spliceosomal complex along with U1 (or U11)." [GOC:krc, ISBN:0879695897] comment: Note that this step represents formation of the A1 complex (yeast) or the B2 complex (mammalian). synonym: "3'-splice site cleavage, exon ligation" BROAD [] synonym: "spliceosomal A1 complex biosynthesis" NARROW [] synonym: "spliceosomal A1 complex formation" NARROW [] synonym: "spliceosomal B2 complex biosynthesis" NARROW [] synonym: "spliceosomal B2 complex formation" NARROW [] synonym: "U12-type spliceosome conformational change to release U4atac and U11" NARROW [] synonym: "U2-type spliceosome conformational change to release U4 and U1" NARROW [] is_a: GO:0022618 ! ribonucleoprotein complex assembly relationship: part_of GO:0000393 ! spliceosomal conformational changes to generate catalytic conformation [Term] id: GO:0000389 name: nuclear mRNA 3'-splice site recognition namespace: biological_process alt_id: GO:0000382 alt_id: GO:0000383 def: "Recognition of the intron 3'-splice site by components of the assembling U2- or U12-type spliceosome." [GOC:krc, ISBN:0879695897] synonym: "U12-type nuclear mRNA 3'-splice site recognition" NARROW [] synonym: "U2-type nuclear mRNA 3'-splice site recognition" NARROW [] is_a: GO:0006376 ! mRNA splice site selection [Term] id: GO:0000390 name: spliceosome disassembly namespace: biological_process alt_id: GO:0000391 alt_id: GO:0000392 def: "Disassembly of the spliceosome with the ATP-dependent release of the product RNAs, one of which is composed of the joined exons. In cis splicing, the other product is the excised sequence, often a single intron, in a lariat structure." [GOC:krc, ISBN:0879695897] synonym: "spliceosome complex disassembly" EXACT [] synonym: "U12-type spliceosome disassembly" NARROW [] synonym: "U2-type spliceosome disassembly" NARROW [] is_a: GO:0032988 ! ribonucleoprotein complex disassembly relationship: part_of GO:0000398 ! nuclear mRNA splicing, via spliceosome [Term] id: GO:0000393 name: spliceosomal conformational changes to generate catalytic conformation namespace: biological_process def: "Structural rearrangements of the spliceosome complex, containing RNA to be spliced, to generate a catalytic conformation." [GOC:krc] synonym: "3'-splice site cleavage, exon ligation" BROAD [] is_a: GO:0022618 ! ribonucleoprotein complex assembly relationship: part_of GO:0000398 ! nuclear mRNA splicing, via spliceosome [Term] id: GO:0000394 name: RNA splicing, via endonucleolytic cleavage and ligation namespace: biological_process def: "Splicing of RNA via recognition of the folded RNA structure that brings the 5' and 3' splice sites into proximity and cleavage of the RNA at both the 3' and 5' splice sites by an endonucleolytic mechanism, followed by ligation of the exons." [GOC:krc, ISBN:0879695897] comment: Note that while typically associated with tRNA splicing, this mechanism of splicing is known to be used for some non-tRNA substrates, e.g. HAC1 (YFL031W) in S. cerevisiae and an intron in the 23S rRNA of the Archaeal species Desulfurococcus mobilis. subset: gosubset_prok synonym: "mRNA splicing" BROAD [] is_a: GO:0008380 ! RNA splicing [Term] id: GO:0000395 name: nuclear mRNA 5'-splice site recognition namespace: biological_process alt_id: GO:0000368 alt_id: GO:0000369 def: "Recognition of the intron 5'-splice site by components of the assembling spliceosome." [GOC:krc, ISBN:0879695897] comment: Note that this step represents formation of the Commitment Complex (CC, in yeast) or the E complex (mammalian). synonym: "nuclear mRNA 5' splice site recognition" EXACT [] synonym: "spliceosomal CC complex biosynthesis" NARROW [] synonym: "spliceosomal CC complex formation" NARROW [] synonym: "spliceosomal commitment complex biosynthesis" NARROW [] synonym: "spliceosomal commitment complex formation" NARROW [] synonym: "spliceosomal E complex biosynthesis" NARROW [] synonym: "spliceosomal E complex formation" NARROW [] synonym: "U12-type nuclear mRNA 5' splice site recognition" NARROW [] synonym: "U12-type nuclear mRNA 5'-splice site recognition" NARROW [] synonym: "U2-type nuclear mRNA 5' splice site recognition" NARROW [] synonym: "U2-type nuclear mRNA 5'-splice site recognition" NARROW [] is_a: GO:0006376 ! mRNA splice site selection relationship: part_of GO:0045292 ! nuclear mRNA cis splicing, via spliceosome [Term] id: GO:0000398 name: nuclear mRNA splicing, via spliceosome namespace: biological_process alt_id: GO:0006374 alt_id: GO:0006375 def: "The joining together of exons from one or more primary transcripts of nuclear messenger RNA (mRNA) and the excision of intron sequences, via a spliceosomal mechanism, so that mRNA consisting only of the joined exons is produced." [GOC:krc, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology", ISBN:0879695897] comment: Note that although the many U12-type introns have the sequence AT-AC at the intron termini, some introns with these terminal sequences are spliced by the U2-type spliceosome. The distinguishing characteristics are sequences near the 5' splice site and the branch point sequences of the intron. Note that although the majority of U2-type introns have the sequence GU-AG at the intron termini, some introns with these terminal sequences are spliced by the U12-type spliceosome. The distinguishing characteristics are sequences near the 5' splice site and the branch point sequences of the intron. synonym: "mRNA splicing" BROAD [] synonym: "nuclear mRNA splicing via U12-type spliceosome" NARROW [] synonym: "nuclear mRNA splicing via U2-type spliceosome" NARROW [] synonym: "pre-mRNA splicing" BROAD [] synonym: "splicing AT-AC intron" RELATED [] synonym: "splicing GT-AG intron" RELATED [] xref: Reactome:562935 "mRNA Splicing - Minor Pathway" xref: Reactome:563043 "mRNA Splicing - Major Pathway" xref: Reactome:588556 "mRNA Splicing - Minor Pathway" xref: Reactome:588662 "mRNA Splicing - Major Pathway" xref: Reactome:609297 "mRNA Splicing - Minor Pathway" xref: Reactome:609525 "mRNA Splicing - Major Pathway" xref: Reactome:633987 "mRNA Splicing - Minor Pathway" xref: Reactome:634096 "mRNA Splicing - Major Pathway" xref: Reactome:645547 "mRNA Splicing - Minor Pathway" xref: Reactome:645712 "mRNA Splicing - Major Pathway" xref: Reactome:655887 "mRNA Splicing - Minor Pathway" xref: Reactome:656042 "mRNA Splicing - Major Pathway" xref: Reactome:666851 "mRNA Splicing - Minor Pathway" xref: Reactome:672966 "mRNA Splicing - Minor Pathway" xref: Reactome:678685 "mRNA Splicing - Minor Pathway" xref: Reactome:689852 "mRNA Splicing - Minor Pathway" xref: Reactome:701588 "mRNA Splicing - Minor Pathway" xref: Reactome:701765 "mRNA Splicing - Major Pathway" xref: Reactome:716172 "mRNA Splicing - Minor Pathway" xref: Reactome:716341 "mRNA Splicing - Major Pathway" xref: Reactome:720746 "mRNA Splicing - Minor Pathway" xref: Reactome:72163 "mRNA Splicing - Major Pathway" xref: Reactome:72165 "mRNA Splicing - Minor Pathway" xref: Reactome:728122 "mRNA Splicing - Minor Pathway" xref: Reactome:731007 "mRNA Splicing - Minor Pathway" is_a: GO:0000377 ! RNA splicing, via transesterification reactions with bulged adenosine as nucleophile is_a: GO:0006397 ! mRNA processing [Term] id: GO:0000399 name: cellular bud neck septin structure namespace: cellular_component def: "Any of a series of septin structures that are localized in the bud neck of a budding fungal cell during the cell cycle." [GOC:krc] is_a: GO:0032155 ! cell division site part relationship: part_of GO:0005935 ! cellular bud neck [Term] id: GO:0000400 name: four-way junction DNA binding namespace: molecular_function def: "Interacting selectively and non-covalently with DNA containing four-way junctions, also known as Holliday junctions, a structure where two DNA double strands are held together by reciprocal exchange of two of the four strands, one strand each from the two original helices." [GOC:krc, ISBN:0815332181, PMID:15563464] synonym: "forked DNA binding" BROAD [] synonym: "Holliday junction binding" EXACT [] is_a: GO:0000217 ! DNA secondary structure binding [Term] id: GO:0000401 name: open form four-way junction DNA binding namespace: molecular_function def: "Interacting selectively and non-covalently with DNA containing the open form of a four-way junction, also known as a Holliday junction, a structure where two DNA double strands are held together by reciprocal exchange of two of the four strands, one strand each from the two original helices. The open form of a four-way junction can be diagrammed without any of the strands crossing over." [GOC:krc, ISBN:0815332181, PMID:15563464] synonym: "open form Holliday junction binding" EXACT [] is_a: GO:0000400 ! four-way junction DNA binding [Term] id: GO:0000402 name: crossed form four-way junction DNA binding namespace: molecular_function def: "Interacting selectively and non-covalently with DNA containing the crossed form of a four-way junction, also known as a Holliday junction, a structure where two DNA double strands are held together by reciprocal exchange of two of the four strands, one strand each from the two original helices. The crossed form of a four-way junction cannot be diagrammed without any of the strands crossing over, and instead contains a single crossover between two of the strands." [GOC:krc, ISBN:0815332181, PMID:15563464] synonym: "crossed form Holliday junction binding" EXACT [] is_a: GO:0000400 ! four-way junction DNA binding [Term] id: GO:0000403 name: Y-form DNA binding namespace: molecular_function def: "Interacting selectively and non-covalently with segment of DNA shaped like a Y. This shape occurs when DNA contains a region of paired double-stranded DNA on one end and a region of unpaired DNA strands on the opposite end." [GOC:elh, PMID:16781730] synonym: "forked DNA binding" BROAD [] synonym: "splayed Y-form DNA binding" EXACT [] is_a: GO:0000217 ! DNA secondary structure binding [Term] id: GO:0000404 name: loop DNA binding namespace: molecular_function def: "Interacting selectively and non-covalently with DNA containing a loop. A loop occurs when DNA contains a large insertion or deletion that causes a region of unpaired single-stranded DNA to loop out, while the rest of the DNA is in a paired double-stranded configuration." [GOC:elh, PMID:16781730] is_a: GO:0000217 ! DNA secondary structure binding is_a: GO:0032135 ! DNA insertion or deletion binding [Term] id: GO:0000405 name: bubble DNA binding namespace: molecular_function def: "Interacting selective with DNA that contains a bubble. A bubble occurs when DNA contains a region of unpaired, single-stranded DNA flanked on both sides by regions of paired, double-stranded DNA." [GOC:elh, PMID:16781730] is_a: GO:0000217 ! DNA secondary structure binding [Term] id: GO:0000406 name: double-strand/single-strand DNA junction binding namespace: molecular_function def: "Interacting selectively and non-covalently with a region of DNA that contains double-stranded DNA flanked by a region of single-stranded DNA." [GOC:elh, PMID:16781730] is_a: GO:0000217 ! DNA secondary structure binding [Term] id: GO:0000407 name: pre-autophagosomal structure namespace: cellular_component def: "A punctate structure localized in the vicinity of the vacuole that is required for the formation of autophagosomes." [GOC:elh, PMID:11689437, PMID:12048214, PMID:12554655] synonym: "isolation membrane" RELATED [] synonym: "PAS" EXACT [] synonym: "perivacuolar space" NARROW [] synonym: "phagophore assembly site" RELATED [] is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0000408 name: EKC/KEOPS protein complex namespace: cellular_component def: "A protein complex proposed to be involved in transcription as well as promoting telomere uncapping and telomere elongation. For example, in Saccharomyces cerevisiae the complex contains Bud32p, Kae1p, Gon7p, Cgi121p, and Pcc1p." [GOC:elh, PMID:16564010, PMID:16874308] synonym: "Endopeptidase-like Kinase Chromatin-associated protein complex" EXACT [] synonym: "Kinase, putative Endopeptidase and Other Proteins of Small size protein complex" EXACT [] is_a: GO:0043234 ! protein complex is_a: GO:0044424 ! intracellular part [Term] id: GO:0000409 name: regulation of transcription by galactose namespace: biological_process def: "Any process involving galactose that modulates the frequency, rate or extent or transcription." [GOC:go_curators] subset: gosubset_prok is_a: GO:0045990 ! regulation of transcription by carbon catabolites [Term] id: GO:0000410 name: negative regulation of transcription by galactose namespace: biological_process def: "Any process involving galactose that stops, prevents or reduces the rate of transcription." [GOC:mah] synonym: "down regulation of transcription by galactose" EXACT [] synonym: "down-regulation of transcription by galactose" EXACT [] synonym: "downregulation of transcription by galactose" EXACT [] synonym: "inhibition of transcription by galactose" NARROW [] is_a: GO:0000409 ! regulation of transcription by galactose is_a: GO:0045013 ! negative regulation of transcription by carbon catabolites [Term] id: GO:0000411 name: positive regulation of transcription by galactose namespace: biological_process def: "Any process involving galactose that activates or increases the rate of transcription." [GOC:go_curators] synonym: "activation of transcription by galactose" NARROW [] synonym: "stimulation of transcription by galactose" NARROW [] synonym: "up regulation of transcription by galactose" EXACT [] synonym: "up-regulation of transcription by galactose" EXACT [] synonym: "upregulation of transcription by galactose" EXACT [] is_a: GO:0000409 ! regulation of transcription by galactose is_a: GO:0045991 ! positive regulation of transcription by carbon catabolites [Term] id: GO:0000412 name: histone peptidyl-prolyl isomerization namespace: biological_process def: "The modification of a histone by cis-trans isomerization of a proline residue." [GOC:krc] synonym: "histone proline isomerization" EXACT [] is_a: GO:0000413 ! protein peptidyl-prolyl isomerization is_a: GO:0016570 ! histone modification [Term] id: GO:0000413 name: protein peptidyl-prolyl isomerization namespace: biological_process def: "The modification of a protein by cis-trans isomerization of a proline residue." [GOC:krc, PMID:16959570] synonym: "protein proline isomerization" EXACT [] is_a: GO:0043687 ! post-translational protein modification [Term] id: GO:0000414 name: regulation of histone H3-K36 methylation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the covalent addition of a methyl group to the lysine at position 36 of histone H3." [GOC:krc] is_a: GO:0031060 ! regulation of histone methylation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0010452 ! histone H3-K36 methylation relationship: regulates GO:0010452 ! histone H3-K36 methylation [Term] id: GO:0000415 name: negative regulation of histone H3-K36 methylation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of the covalent addition of a methyl group to the lysine at position 36 of histone H3." [GOC:krc] synonym: "down regulation of histone H3-K36 methylation" EXACT [] synonym: "down-regulation of histone H3-K36 methylation" EXACT [] synonym: "downregulation of histone H3-K36 methylation" EXACT [] synonym: "inhibition of histone H3-K36 methylation" NARROW [] is_a: GO:0000414 ! regulation of histone H3-K36 methylation is_a: GO:0031061 ! negative regulation of histone methylation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0010452 ! histone H3-K36 methylation relationship: negatively_regulates GO:0010452 ! histone H3-K36 methylation [Term] id: GO:0000416 name: positive regulation of histone H3-K36 methylation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the covalent addition of a methyl group to the lysine at position 36 of histone H3." [GOC:krc] synonym: "activation of histone H3-K36 methylation" NARROW [] synonym: "stimulation of histone H3-K36 methylation" NARROW [] synonym: "up regulation of histone H3-K36 methylation" EXACT [] synonym: "up-regulation of histone H3-K36 methylation" EXACT [] synonym: "upregulation of histone H3-K36 methylation" EXACT [] is_a: GO:0000414 ! regulation of histone H3-K36 methylation is_a: GO:0031062 ! positive regulation of histone methylation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0010452 ! histone H3-K36 methylation relationship: positively_regulates GO:0010452 ! histone H3-K36 methylation [Term] id: GO:0000417 name: HIR complex namespace: cellular_component def: "A protein complex proposed to be involved in replication-independent nucleosome assembly, by promoting histone deposition onto DNA. For example, in Saccharomyces, the complex contains Hir1p, Hir2p, Hir3p, and Hpc2p." [GOC:elh, GOC:mah, PMID:16303565, PMID:17180700] is_a: GO:0005678 ! chromatin assembly complex [Term] id: GO:0000418 name: DNA-directed RNA polymerase IV complex namespace: cellular_component def: "RNA polymerase IV is a multisubunit RNA polymerase complex found in the nucleus of plants. In addition to RNA polymerases I, II, and III, the essential RNA polymerases present in all eukaryotes, plants have two additional nuclear RNA polymerases, Pol IV and Pol V, that play nonredundant roles in siRNA-directed DNA methylation and gene silencing. Pol IV is required for siRNA production and Pol V is required for generating noncoding transcripts at target loci. Pol IV is composed of subunits that are paralogous or identical to the 12 subunits of Pol II. The largest and second-largest subunits of Pol IV are the catalytic subunits and share similarity with the corresponding subunits of other eukaryotic and bacterial multisubunit RNA polymerases." [GOC:krc, GOC:mtg_sensu, PMID:15692015, PMID:15766525, PMID:16140984, PMID:19110459] is_a: GO:0044451 ! nucleoplasm part is_a: GO:0055029 ! nuclear DNA-directed RNA polymerase complex [Term] id: GO:0000419 name: DNA-directed RNA polymerase IVb complex namespace: cellular_component def: "RNA polymerase IVb is a multisubunit RNA polymerase complex found in the nucleus of plants and involved in accumulation of siRNAs and in DNA methylation-dependent silencing of endogenous repeated sequences. Two large subunits comprise the most conserved portion including the catalytic site and share similarity with other eukaryotic and bacterial multisubunit RNA polymerases. The second largest subunit is also found in RNA polymerase IVa, while the largest subunit is found only in the IVa complex and contains an extended C-terminal domain (CTD) that includes multiple repeats of a 16 amino-acid consensus sequence as well as other sequences. The remainder of the complex is composed of smaller subunits." [GOC:krc, GOC:mtg_sensu, PMID:16140984] is_a: GO:0000418 ! DNA-directed RNA polymerase IV complex [Term] id: GO:0000420 name: DNA-directed RNA polymerase IVa complex namespace: cellular_component def: "RNA polymerase IVa is a multisubunit RNA polymerase complex found in the nucleus of plants and involved in accumulation of siRNAs and in DNA methylation-dependent silencing of endogenous repeated sequences. Two large subunits comprise the most conserved portion including the catalytic site and share similarity with other eukaryotic and bacterial multisubunit RNA polymerases. The second largest subunit is also found in RNA polymerase IVb, while the largest subunit is found only in the IVa complex. The remainder of the complex is composed of smaller subunits." [GOC:krc, GOC:mtg_sensu, PMID:15692015, PMID:15766525, PMID:16140984] is_a: GO:0000418 ! DNA-directed RNA polymerase IV complex [Term] id: GO:0000421 name: autophagic vacuole membrane namespace: cellular_component def: "The lipid bilayer surrounding an autophagic vacuole, a double-membrane-bounded vesicle in which endogenous cellular material is sequestered." [GOC:isa_complete] synonym: "autophagosome membrane" EXACT [] is_a: GO:0005774 ! vacuolar membrane relationship: part_of GO:0005776 ! autophagic vacuole [Term] id: GO:0000422 name: mitochondrion degradation namespace: biological_process def: "The process by which mitochondria are delivered to the vacuole and degraded in response to changing cellular conditions, autophagy of mitochondria." [PMID:15798367] synonym: "mitophagy" EXACT [] xref: Wikipedia:Autophagy_(cellular)#Selective_autophagy xref: Wikipedia:Mitophagy is_a: GO:0006914 ! autophagy [Term] id: GO:0000423 name: macromitophagy namespace: biological_process def: "Degradation of a mitochondrion by macroautophagy." [PMID:15798367] is_a: GO:0000422 ! mitochondrion degradation is_a: GO:0016236 ! macroautophagy [Term] id: GO:0000424 name: micromitophagy namespace: biological_process def: "Degradation of a mitochondrion by microautophagy." [PMID:15798367] is_a: GO:0000422 ! mitochondrion degradation is_a: GO:0016237 ! microautophagy [Term] id: GO:0000425 name: macropexophagy namespace: biological_process def: "Degradation of a peroxisome by macropexophagy." [PMID:12914914, PMID:16973210] is_a: GO:0016236 ! macroautophagy is_a: GO:0030242 ! peroxisome degradation [Term] id: GO:0000426 name: micropexophagy namespace: biological_process def: "Degradation of a peroxisome by micropexophagy." [PMID:12914914, PMID:16973210] is_a: GO:0016237 ! microautophagy is_a: GO:0030242 ! peroxisome degradation [Term] id: GO:0000427 name: plastid-encoded plastid RNA polymerase complex namespace: cellular_component def: "An RNA polymerase complex containing polypeptides encoded by the plastid genome. Plastid-encoded DNA-directed RNA polymerases resemble eubacterial multisubunit RNA polymerases, with a core composed of alpha, beta, and beta-prime subunits. Some forms contain multiple additional subunits. An additional sigma factor subunit is required for promoter recognition." [GOC:krc, GOC:mah, GOC:pj] is_a: GO:0000428 ! DNA-directed RNA polymerase complex is_a: GO:0044435 ! plastid part intersection_of: GO:0000428 ! DNA-directed RNA polymerase complex intersection_of: part_of GO:0009536 ! plastid [Term] id: GO:0000428 name: DNA-directed RNA polymerase complex namespace: cellular_component def: "A protein complex that possesses DNA-directed RNA polymerase activity." [GOC:krc] is_a: GO:0030880 ! RNA polymerase complex [Term] id: GO:0000429 name: regulation of transcription from RNA polymerase II promoter by carbon catabolites namespace: biological_process def: "Any process involving carbon catabolites that modulates the frequency, rate or extent of transcription from an RNA polymerase II promoter." [GOC:krc] is_a: GO:0006357 ! regulation of transcription from RNA polymerase II promoter is_a: GO:0045990 ! regulation of transcription by carbon catabolites [Term] id: GO:0000430 name: regulation of transcription from RNA polymerase II promoter by glucose namespace: biological_process def: "Any process involving glucose that modulates the frequency, rate or extent of transcription from an RNA polymerase II promoter." [GOC:krc] is_a: GO:0000429 ! regulation of transcription from RNA polymerase II promoter by carbon catabolites is_a: GO:0046015 ! regulation of transcription by glucose [Term] id: GO:0000431 name: regulation of transcription from RNA polymerase II promoter by galactose namespace: biological_process def: "Any process involving galactose that modulates the frequency, rate or extent of transcription from an RNA polymerase II promoter." [GOC:krc] is_a: GO:0000409 ! regulation of transcription by galactose is_a: GO:0000429 ! regulation of transcription from RNA polymerase II promoter by carbon catabolites [Term] id: GO:0000432 name: positive regulation of transcription from RNA polymerase II promoter by glucose namespace: biological_process def: "Any process involving glucose that activates or increases the rate of transcription from an RNA polymerase II promoter." [GOC:krc] synonym: "activation of transcription from RNA polymerase II promoter by glucose" NARROW [] synonym: "stimulation of transcription from RNA polymerase II promoter by glucose" NARROW [] synonym: "up regulation of transcription from RNA polymerase II promoter by glucose" EXACT [] synonym: "up-regulation of transcription from RNA polymerase II promoter by glucose" EXACT [] synonym: "upregulation of transcription from RNA polymerase II promoter by glucose" EXACT [] is_a: GO:0000430 ! regulation of transcription from RNA polymerase II promoter by glucose is_a: GO:0000436 ! positive regulation of transcription from RNA polymerase II promoter by carbon catabolites is_a: GO:0046016 ! positive regulation of transcription by glucose [Term] id: GO:0000433 name: negative regulation of transcription from RNA polymerase II promoter by glucose namespace: biological_process def: "Any process involving glucose that stops, prevents or reduces the rate of transcription from an RNA polymerase II promoter." [GOC:krc] synonym: "down regulation of transcription from RNA polymerase II promoter by glucose" EXACT [] synonym: "down-regulation of transcription from RNA polymerase II promoter by glucose" EXACT [] synonym: "downregulation of transcription from RNA polymerase II promoter by glucose" EXACT [] synonym: "inhibition of transcription from RNA polymerase II promoter by glucose" NARROW [] is_a: GO:0000430 ! regulation of transcription from RNA polymerase II promoter by glucose is_a: GO:0000437 ! negative regulation of transcription from RNA polymerase II promoter by carbon catabolites is_a: GO:0045014 ! negative regulation of transcription by glucose [Term] id: GO:0000434 name: negative regulation of transcription from RNA polymerase II promoter by galactose namespace: biological_process def: "Any process involving galactose that stops, prevents or reduces the rate of transcription from an RNA polymerase II promoter." [GOC:krc] synonym: "down regulation of transcription from RNA polymerase II promoter by galactose" EXACT [] synonym: "down-regulation of transcription from RNA polymerase II promoter by galactose" EXACT [] synonym: "downregulation of transcription from RNA polymerase II promoter by galactose" EXACT [] synonym: "inhibition of transcription from RNA polymerase II promoter by galactose" NARROW [] is_a: GO:0000410 ! negative regulation of transcription by galactose is_a: GO:0000431 ! regulation of transcription from RNA polymerase II promoter by galactose is_a: GO:0000437 ! negative regulation of transcription from RNA polymerase II promoter by carbon catabolites [Term] id: GO:0000435 name: positive regulation of transcription from RNA polymerase II promoter by galactose namespace: biological_process def: "Any process involving galactose that activates or increases the rate of transcription from an RNA polymerase II promoter." [GOC:krc] synonym: "activation of transcription from RNA polymerase II promoter by galactose" NARROW [] synonym: "stimulation of transcription from RNA polymerase II promoter by galactose" NARROW [] synonym: "up regulation of transcription from RNA polymerase II promoter by galactose" EXACT [] synonym: "up-regulation of transcription from RNA polymerase II promoter by galactose" EXACT [] synonym: "upregulation of transcription from RNA polymerase II promoter by galactose" EXACT [] is_a: GO:0000411 ! positive regulation of transcription by galactose is_a: GO:0000431 ! regulation of transcription from RNA polymerase II promoter by galactose is_a: GO:0000436 ! positive regulation of transcription from RNA polymerase II promoter by carbon catabolites [Term] id: GO:0000436 name: positive regulation of transcription from RNA polymerase II promoter by carbon catabolites namespace: biological_process def: "Any process involving carbon catabolites that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter." [GOC:krc] synonym: "activation of transcription from RNA polymerase II promoter by carbon catabolites" NARROW [] synonym: "stimulation of transcription from RNA polymerase II promoter by carbon catabolites" NARROW [] synonym: "up regulation of transcription from RNA polymerase II promoter by carbon catabolites" EXACT [] synonym: "up-regulation of transcription from RNA polymerase II promoter by carbon catabolites" EXACT [] synonym: "upregulation of transcription from RNA polymerase II promoter by carbon catabolites" EXACT [] is_a: GO:0000429 ! regulation of transcription from RNA polymerase II promoter by carbon catabolites is_a: GO:0045944 ! positive regulation of transcription from RNA polymerase II promoter [Term] id: GO:0000437 name: negative regulation of transcription from RNA polymerase II promoter by carbon catabolites namespace: biological_process def: "Any process involving carbon catabolites that stops, prevents or reduces the frequency, rate or extent of transcription from an RNA polymerase II promoter." [GOC:krc] synonym: "down regulation of transcription from RNA polymerase II promoter by carbon catabolites" EXACT [] synonym: "down-regulation of transcription from RNA polymerase II promoter by carbon catabolites" EXACT [] synonym: "downregulation of transcription from RNA polymerase II promoter by carbon catabolites" EXACT [] synonym: "inhibition of transcription from RNA polymerase II promoter by carbon catabolites" NARROW [] is_a: GO:0000122 ! negative regulation of transcription from RNA polymerase II promoter is_a: GO:0000429 ! regulation of transcription from RNA polymerase II promoter by carbon catabolites [Term] id: GO:0000438 name: core TFIIH complex portion of holo TFIIH complex namespace: cellular_component def: "The core TFIIH complex when it is part of the general transcription factor TFIIH. In S. cerevisiae, it is composed of Rad3p, Tfb1p, Tfb2p, Ssl1p and Tfb4p. In humans, it is composed of ERCC2, p62, p55, p44, p34." [GOC:krc, PMID:14500720, PMID:7813015] is_a: GO:0000439 ! core TFIIH complex is_a: GO:0044451 ! nucleoplasm part intersection_of: GO:0000439 ! core TFIIH complex intersection_of: part_of GO:0005675 ! holo TFIIH complex relationship: part_of GO:0000443 ! SSL2-core TFIIH complex portion of holo TFIIH complex [Term] id: GO:0000439 name: core TFIIH complex namespace: cellular_component def: "The 5 subunit core of TFIIH that has tightly associated subunits and is found in both the general transcription factor holo-TFIIH and in the nucleotide-excision repair factor 3 complex. In S. cerevisiae, it is composed of Rad3, Tfb1, Tfb2, Ssl1, Tfb4. In humans, it is composed of XPD, p62, p55, p44, p34." [GOC:krc, PMID:14500720, PMID:7813015] is_a: GO:0032806 ! carboxy-terminal domain protein kinase complex relationship: part_of GO:0000441 ! SSL2-core TFIIH complex [Term] id: GO:0000440 name: core TFIIH complex portion of NEF3 complex namespace: cellular_component def: "The core TFIIH complex when it is part of the nucleotide-excision repair factor 3 (NEF3). In S. cerevisiae, it is composed of Rad3p, Tfb1p, Tfb2p, Ssl1p, and Tfb4p. In humans, it is composed of ERCC2, p62, p55, p44, p34." [GOC:krc, PMID:14500720, PMID:7813015] is_a: GO:0000439 ! core TFIIH complex intersection_of: GO:0000439 ! core TFIIH complex intersection_of: part_of GO:0000112 ! nucleotide-excision repair factor 3 complex relationship: part_of GO:0000442 ! SSL2-core TFIIH complex portion of NEF3 complex [Term] id: GO:0000441 name: SSL2-core TFIIH complex namespace: cellular_component def: "A complex which is part of both the general transcription factor TFIIH and the nucleotide-excision repair factor 3 complex. It is composed of the tightly associated 5 subunit core TFIIH subcomplex plus one additional, more loosely associated subunit. The subunits are well conserved from yeast to humans. In S. cerevisiae, the 5-subunit core is composed of Rad3, Tfb1, Tfb2, Ssl1, Tfb4 and the loosely associated subunit is Ssl2p (also called Rad25). In humans, the 5 subunit core is composed of ERCC2, p62, p55, p44, p34 and the loosely associated subunit is XPB." [GOC:krc, PMID:14500720, PMID:7813015] subset: goslim_pir is_a: GO:0043234 ! protein complex [Term] id: GO:0000442 name: SSL2-core TFIIH complex portion of NEF3 complex namespace: cellular_component def: "The SSL2-core TFIIH complex when it is part of the nucleotide-excision repair factor 3 (NEF3). It is composed of the tightly associated 5 subunit core TFIIH subcomplex plus one additional, less tighly associated subunit. The subunits are well conserved from yeast to humans. In S. cerevisiae, the 5-subunit core is composed of Rad3, Tfb1, Tfb2, Ssl1, Tfb4 and the loosely associated subunit is Ssl2p (also called Rad25). In humans, the 5 subunit core is composed of ERCC2, p62, p55, p44, p34 and the loosely associated subunit is XPB." [GOC:krc, PMID:14500720, PMID:7813015] is_a: GO:0000441 ! SSL2-core TFIIH complex is_a: GO:0044428 ! nuclear part intersection_of: GO:0000441 ! SSL2-core TFIIH complex intersection_of: part_of GO:0000112 ! nucleotide-excision repair factor 3 complex relationship: part_of GO:0000112 ! nucleotide-excision repair factor 3 complex [Term] id: GO:0000443 name: SSL2-core TFIIH complex portion of holo TFIIH complex namespace: cellular_component def: "The SSL2-core TFIIH complex when it is part of the general transcription factor TFIIH. It is composed of the tightly associated five subunit core TFIIH subcomplex plus one additional, less tighly associated subunit. The subunits are well conserved from yeast to humans. In S. cerevisiae, the 5-subunit core is composed of Rad3, Tfb1, Tfb2, Ssl1, Tfb4 and the loosely associated subunit is Ssl2p (also called Rad25). In humans, the 5 subunit core is composed of ERCC2, p62, p55, p44, p34 and the loosely associated subunit is XPB." [GOC:krc, PMID:14500720, PMID:7813015] is_a: GO:0000441 ! SSL2-core TFIIH complex is_a: GO:0044451 ! nucleoplasm part relationship: part_of GO:0005675 ! holo TFIIH complex [Term] id: GO:0000444 name: MIS12/MIND type complex namespace: cellular_component def: "A multiprotein kinetochore subcomplex that binds to centromeric chromatin and forms part of the inner kinetochore. It helps to recruit outer kinetochore subunits that will bind to microtubules. In humans, it consists of MIS12, DSN1, NSL1 and PMF1." [GOC:krc, PMID:14633972, PMID:16585270] synonym: "Mis12 complex" NARROW [] is_a: GO:0043234 ! protein complex is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0000777 ! condensed chromosome kinetochore [Term] id: GO:0000445 name: THO complex part of transcription export complex namespace: cellular_component def: "The THO complex when it is part of the TREX (TRanscription EXport) complex that is involved in coupling transcription to export of mRNAs to the cytoplasm. In S. cerevisiae, it is composed of four subunits: Hpr1, Tho2, Thp1, and Mft1, while the human complex is composed of 7 subunits." [GOC:krc, PMID:11060033, PMID:11979277, PMID:16983072] synonym: "THO complex part of TREX complex" EXACT [] is_a: GO:0000347 ! THO complex intersection_of: GO:0000347 ! THO complex intersection_of: part_of GO:0000346 ! transcription export complex relationship: part_of GO:0000346 ! transcription export complex [Term] id: GO:0000446 name: nucleoplasmic THO complex namespace: cellular_component def: "The THO complex when it is acting as a nuclear complex that is required for transcription elongation through genes containing tandemly repeated DNA sequences. In S. cerevisiae, it is composed of four subunits: Hpr1, Tho2, Thp1, and Mft1, while the human complex is composed of 7 subunits." [GOC:krc, PMID:11060033, PMID:11979277, PMID:16983072] is_a: GO:0000347 ! THO complex is_a: GO:0008023 ! transcription elongation factor complex [Term] id: GO:0000447 name: endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) namespace: biological_process def: "Endonucleolytic cleavage between the SSU-rRNA and the 5.8S rRNA of an rRNA molecule originally produced as a tricistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript." [GOC:curators, PMID:10690410] synonym: "endonucleolytic cleavage at A2" NARROW [] is_a: GO:0000479 ! endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) relationship: part_of GO:0000462 ! maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) relationship: part_of GO:0000466 ! maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) [Term] id: GO:0000448 name: cleavage in ITS2 between 5.8S rRNA and LSU-rRNA of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) namespace: biological_process alt_id: GO:0000490 def: "Endonucleolytic cleavage within ITS2 between the 5.8S rRNA and the LSU-rRNA of an rRNA molecule originally produced as a tricistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript." [GOC:curators, PMID:10690410] synonym: "cleavage at C2" RELATED [] synonym: "cleavage in ITS2 of tricistronic rRNA transcript to separate 5.8S and LSU rRNAs (SSU-rRNA, 5.8S rRNA, LSU-rRNA)" EXACT [] is_a: GO:0000479 ! endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) relationship: part_of GO:0000463 ! maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) relationship: part_of GO:0000466 ! maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) [Term] id: GO:0000449 name: endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 5S) namespace: biological_process def: "Endonucleolytic cleavage of a pre-rRNA molecule originally produced as a tricistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, the Large Subunit (LSU) rRNA, and the 5S rRNA, in that order, from 5' to 3' along the primary transcript. For example, primary ribosomal RNA transcripts containing three genes, in this order, are produced in E. coli and other prokaryotic species. Note that the use of the word tricistronic refers only to the number of mature rRNA molecules which will be produced from the primary transcript and ignores tRNAs that may also be present within the primary transcript." [GOC:curators] is_a: GO:0000478 ! endonucleolytic cleavage involved in rRNA processing [Term] id: GO:0000450 name: cleavage of bicistronic rRNA transcript (SSU-rRNA, LSU-rRNA) namespace: biological_process def: "Endonucleolytic cleavage of pre-rRNAs originally produced as a bicistronic rRNA transcript that contains the SSU-rRNA and the LSU-rRNA in that order from 5' to 3' along the primary transcript. Primary ribosomal RNA transcripts with two genes in this order are produced in Archaeal species." [GOC:curators] is_a: GO:0000478 ! endonucleolytic cleavage involved in rRNA processing [Term] id: GO:0000451 name: rRNA 2'-O-methylation namespace: biological_process def: "The addition of a methyl group to the 2'-oxygen atom of a nucleotide residue in an rRNA molecule during ribosome biogenesis." [GOC:curators, ISBN:1555811337 "Modification and Editing of RNA"] is_a: GO:0031167 ! rRNA methylation [Term] id: GO:0000452 name: snoRNA guided rRNA 2'-O-methylation namespace: biological_process def: "The posttranscriptional addition of methyl groups to the 2'-oxygen atom of nucleotide residues in an rRNA molecule during ribosome biogenesis using a snoRNA guide that targets the position of methylation." [GOC:curators, ISBN:1555811337 "Modification and Editing of RNA"] synonym: "snoRNA guided rRNA 2'-O-ribose methylation" RELATED [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0000451 ! rRNA 2'-O-methylation [Term] id: GO:0000453 name: enzyme-directed rRNA 2'-O-methylation namespace: biological_process def: "The addition of methyl groups to the 2'-oxygen atom of nucleotide residues in an rRNA molecule during ribosome biogenesis where the methylase specifies the site that becomes methylated without using a guide RNA." [GOC:curators, ISBN:1555811337 "Modification and Editing of RNA"] is_a: GO:0000451 ! rRNA 2'-O-methylation [Term] id: GO:0000454 name: snoRNA guided rRNA pseudouridine synthesis namespace: biological_process def: "The intramolecular conversion of uridine to pseudouridine in an rRNA molecule during ribosome biogenesis using a snoRNA guide that targets the position of pseudouridylation." [GOC:curators, ISBN:1555811337 "Modification and Editing of RNA"] is_a: GO:0031118 ! rRNA pseudouridine synthesis [Term] id: GO:0000455 name: enzyme-directed rRNA pseudouridine synthesis namespace: biological_process def: "The intramolecular conversion of uridine to pseudouridine during ribosome biogenesis where the enzyme specifies the site that becomes pseudouridylated without using a guide RNA." [GOC:curators, ISBN:1555811337 "Modification and Editing of RNA"] is_a: GO:0031118 ! rRNA pseudouridine synthesis [Term] id: GO:0000456 name: dimethylation involved in SSU-rRNA maturation namespace: biological_process def: "Dimethylation of the N6 amino groups of two consecutive adenosine residues near the 3'-end of the SSU rRNA. This process has been conserved from bacteria to eukaryotes." [GOC:curators, GOC:dph, GOC:tb, ISBN:1555811337 "Modification and Editing of RNA"] is_a: GO:0031167 ! rRNA methylation relationship: part_of GO:0030490 ! maturation of SSU-rRNA [Term] id: GO:0000457 name: endonucleolytic cleavage between SSU-rRNA and LSU-rRNA of tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 5S) namespace: biological_process def: "Endonucleolytic cleavage to separate a pre-SSU-rRNA from a pre-LSU-rRNA originally produced as a tricistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, the Large Subunit (LSU) rRNA, and the 5S rRNA, in that order, from 5' to 3' along the primary transcript. Note that the use of the word tricistronic refers only to the number of mature rRNA molecules which will be produced from the primary transcript and ignores tRNAs that may also be present within the primary transcript." [GOC:curators] is_a: GO:0000449 ! endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 5S) relationship: part_of GO:0002108 ! maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA,5S) relationship: part_of GO:0002109 ! maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA,5S) [Term] id: GO:0000458 name: endonucleolytic cleavage between LSU-rRNA and 5S rRNA of tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 5S) namespace: biological_process def: "Endonucleolytic cleavage to separate a pre-LSU-rRNA from a pre-5S rRNA originally produced as a tricistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, the Large Subunit (LSU) rRNA, and the 5S rRNA, in that order, from 5' to 3' along the primary transcript. Note that the use of the word tricistronic refers only to the number of mature rRNA molecules which will be produced from the primary transcript and ignores tRNAs that may also be present within the primary transcript." [GOC:curators] is_a: GO:0000449 ! endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 5S) relationship: part_of GO:0002108 ! maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA,5S) [Term] id: GO:0000459 name: exonucleolytic trimming involved in rRNA processing namespace: biological_process def: "Exonucleolytic digestion of a pre-rRNA molecule in the process to generate a mature rRNA molecule." [GOC:curators] synonym: "exonucleolytic trimming during rRNA processing" RELATED [GOC:dph, GOC:tb] is_a: GO:0000469 ! cleavage involved in rRNA processing [Term] id: GO:0000460 name: maturation of 5.8S rRNA namespace: biological_process def: "Any process involved in the maturation of a precursor 5.8S ribosomal RNA (rRNA) molecule into a mature 5.8S rRNA molecule." [GOC:curators] is_a: GO:0006364 ! rRNA processing [Term] id: GO:0000461 name: endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) namespace: biological_process def: "Endonucleolytic cleavage at the 3'-end of the SSU-rRNA from an originally tricistronic rRNA transcript that contained the Small Subunit (SSU) rRNA, the 5.8S rRNA, and the Large Subunit (LSU) rRNA in that order from 5' to 3' along the primary transcript, to produce the mature end of the SSU-rRNA." [GOC:krc, PMID:10690410] synonym: "endonucleolytic cleavage at site D" NARROW [] is_a: GO:0000479 ! endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) is_a: GO:0031125 ! rRNA 3'-end processing relationship: part_of GO:0000462 ! maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) [Term] id: GO:0000462 name: maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) namespace: biological_process def: "Any process involved in the maturation of a precursor Small SubUnit (SSU) ribosomal RNA (rRNA) molecule into a mature SSU-rRNA molecule from the pre-rRNA molecule originally produced as a tricistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, 5.8S rRNA, and the Large Subunit (LSU) in that order from 5' to 3' along the primary transcript." [GOC:curators] is_a: GO:0030490 ! maturation of SSU-rRNA [Term] id: GO:0000463 name: maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) namespace: biological_process def: "Any process involved in the maturation of a precursor Large SubUnit (LSU) ribosomal RNA (rRNA) molecule into a mature LSU-rRNA molecule from the pre-rRNA molecule originally produced as a tricistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, 5.8S rRNA, and Large Subunit (LSU) in that order from 5' to 3' along the primary transcript." [GOC:curators] is_a: GO:0000470 ! maturation of LSU-rRNA [Term] id: GO:0000464 name: endonucleolytic cleavage in ITS1 upstream of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) namespace: biological_process def: "Endonucleolytic cleavage within Internal Transcribed Spacer 1 (ITS1) upstream of the 5.8S rRNA derived from an originally tricistronic rRNA transcript that contained the Small Subunit (SSU) rRNA, the 5.8S rRNA, and the Large Subunit (LSU) rRNA in that order from 5' to 3' along the primary transcript. In S. cerevisiae, this endonucleolytic cleavage within ITS1 initiates the maturation of the LSU and the 5.8S rRNAs." [GOC:krc, PMID:10690410] synonym: "endonucleolytic cleavage at A3" NARROW [] is_a: GO:0000479 ! endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) relationship: part_of GO:0000463 ! maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) relationship: part_of GO:0000466 ! maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) [Term] id: GO:0000465 name: exonucleolytic trimming to generate mature 5'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) namespace: biological_process def: "Exonucleolytic digestion of a pre-rRNA molecule to generate the mature 5'-end of a 5.8S rRNA molecule derived from an originally tricistronic pre-rRNA transcript that contained the Small Subunit (SSU) rRNA, the 5.8S rRNA, and the Large Subunit (LSU) rRNA in that order from 5' to 3' along the primary transcript." [GOC:krc, PMID:10690410] is_a: GO:0000459 ! exonucleolytic trimming involved in rRNA processing is_a: GO:0000967 ! rRNA 5'-end processing relationship: part_of GO:0000466 ! maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) [Term] id: GO:0000466 name: maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) namespace: biological_process def: "Any process involved in the maturation of an rRNA molecule originally produced as part of a tricistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript." [GOC:curators, PMID:10690410] is_a: GO:0000460 ! maturation of 5.8S rRNA [Term] id: GO:0000467 name: exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) namespace: biological_process def: "Exonucleolytic digestion of a pre-rRNA molecule to generate the mature 3'-end of a 5.8S rRNA molecule derived from an originally tricistronic pre-rRNA transcript that contained the Small Subunit (SSU) rRNA, the 5.8S rRNA, and the Large Subunit (LSU) rRNA in that order from 5' to 3' along the primary transcript." [GOC:krc, PMID:10690410] is_a: GO:0000459 ! exonucleolytic trimming involved in rRNA processing is_a: GO:0031125 ! rRNA 3'-end processing relationship: part_of GO:0000466 ! maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) [Term] id: GO:0000468 name: generation of mature 3'-end of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) namespace: biological_process def: "Any process involved in generating the mature 3'-end of an LSU-rRNA derived from a tricistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript." [GOC:krc, PMID:10690410] synonym: "processing at B2" NARROW [] is_a: GO:0031125 ! rRNA 3'-end processing relationship: part_of GO:0000463 ! maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) [Term] id: GO:0000469 name: cleavage involved in rRNA processing namespace: biological_process def: "Any cleavage involved in the conversion of a primary ribosomal RNA (rRNA) transcript into a mature rRNA molecule." [GOC:curators] synonym: "cleavage during rRNA processing" RELATED [GOC:dph, GOC:tb] is_a: GO:0090305 ! nucleic acid phosphodiester bond hydrolysis relationship: part_of GO:0006364 ! rRNA processing [Term] id: GO:0000470 name: maturation of LSU-rRNA namespace: biological_process def: "Any process involved in the maturation of a precursor Large SubUnit (LSU) ribosomal RNA (rRNA) molecule into a mature LSU-rRNA molecule." [GOC:curators] is_a: GO:0006364 ! rRNA processing [Term] id: GO:0000471 name: endonucleolytic cleavage in 3'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) namespace: biological_process def: "Endonucleolytic cleavage within the 3'-External Transcribed Spacer (ETS) of a tricistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, the 5.8S rRNA, and the Large Subunit (LSU) rRNA in that order from 5' to 3' along the primary transcript. In S. cerevisiae, endonucleolytic cleavage within the 3'-ETS of the pre-RNA, which may occur cotranscriptionally, is the first step in rRNA processing, and initiates a cascade of subsequent processing and modification events." [GOC:krc, PMID:10690410] is_a: GO:0000479 ! endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) [Term] id: GO:0000472 name: endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) namespace: biological_process def: "Endonucleolytic cleavage between the 5'-External Transcribed Spacer (5'-ETS) and the 5' end of the SSU-rRNA of a tricistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, the 5.8S rRNA, and the Large Subunit (LSU) rRNA in that order from 5' to 3' along the primary transcript, to produce the mature end of the SSU-rRNA." [GOC:curators, PMID:10690410] synonym: "endonucleolytic cleavage at A1" NARROW [] is_a: GO:0000479 ! endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) is_a: GO:0000967 ! rRNA 5'-end processing relationship: part_of GO:0000462 ! maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) [Term] id: GO:0000473 name: maturation of LSU-rRNA from tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) namespace: biological_process def: "Any process involved in the maturation of a precursor Large SubUnit (LSU) ribosomal RNA (rRNA) molecule into a mature LSU-rRNA molecule from the pre-rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, 5.8 S rRNA, 2S rRNA, and Large Subunit (LSU) in that order from 5' to 3' along the primary transcript." [GOC:curators] is_a: GO:0000470 ! maturation of LSU-rRNA [Term] id: GO:0000474 name: maturation of SSU-rRNA from tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) namespace: biological_process def: "Any process involved in the maturation of a precursor Small SubUnit (SSU) ribosomal RNA (rRNA) molecule into a mature SSU-rRNA molecule from the pre-rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, 5.8 S rRNA, 2S rRNA, and Large Subunit (LSU) in that order from 5' to 3' along the primary transcript." [GOC:curators] is_a: GO:0030490 ! maturation of SSU-rRNA [Term] id: GO:0000475 name: maturation of 2S rRNA namespace: biological_process def: "Any process involved in the maturation of a precursor 2S ribosomal RNA (rRNA) molecule into a mature 2S rRNA molecule." [GOC:curators] is_a: GO:0006364 ! rRNA processing [Term] id: GO:0000476 name: maturation of 4.5S rRNA namespace: biological_process def: "Any process involved in the maturation of a precursor 4.5S ribosomal RNA (rRNA) molecule into a mature 4.5S rRNA molecule." [GOC:curators] is_a: GO:0006364 ! rRNA processing [Term] id: GO:0000477 name: generation of mature 5'-end of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) namespace: biological_process def: "Cleavage within ITS2 to generate the mature 5'-end of an LSU-rRNA derived from a tricistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript." [GOC:curators, PMID:10690410] synonym: "processing at C1" NARROW [] is_a: GO:0000469 ! cleavage involved in rRNA processing is_a: GO:0000967 ! rRNA 5'-end processing relationship: part_of GO:0000463 ! maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) [Term] id: GO:0000478 name: endonucleolytic cleavage involved in rRNA processing namespace: biological_process def: "Any endonucleolytic cleavage involved in the conversion of a primary ribosomal RNA (rRNA) transcript into a mature rRNA molecule. Some endonucleolytic cleavages produce the mature end, while others are a step in the process of generating the mature end from the pre-rRNA." [GOC:krc, PMID:10690410] synonym: "endonucleolytic cleavage during rRNA processing" RELATED [GOC:dph, GOC:tb] is_a: GO:0000469 ! cleavage involved in rRNA processing [Term] id: GO:0000479 name: endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) namespace: biological_process def: "Endonucleolytic cleavage of a pre-rRNA molecule originally produced as a tricistronic rRNA transcript that contains the Small SubUnit (SSU) rRNA, the 5.8S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript. Primary ribosomal RNA transcripts with three genes, in this order, are produced in the nuclei of many eukaryotic species, including S. cerevisiae." [GOC:curators, PMID:10690410] is_a: GO:0000478 ! endonucleolytic cleavage involved in rRNA processing [Term] id: GO:0000480 name: endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) namespace: biological_process def: "Endonucleolytic cleavage within the 5'-External Transcribed Spacer (ETS) of a tricistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, the 5.8S rRNA, and the Large Subunit (LSU) rRNA in that order from 5' to 3' along the primary transcript. Endonucleolytic cleavage within the 5'-ETS of the pre-RNA is conserved as one of the early steps of rRNA processing in all eukaryotes, but the specific position of cleavage is variable." [GOC:curators, PMID:10690410, PMID:15282326] synonym: "endonucleolytic cleavage at A-prime" NARROW [PMID:15282326] synonym: "endonucleolytic cleavage at A0" NARROW [] is_a: GO:0000479 ! endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) relationship: part_of GO:0000462 ! maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) [Term] id: GO:0000481 name: maturation of 5S rRNA namespace: biological_process def: "Any process involved in the maturation of a precursor 5S ribosomal RNA (rRNA) molecule into a mature 5S rRNA molecule." [GOC:curators] is_a: GO:0006364 ! rRNA processing [Term] id: GO:0000482 name: maturation of 5S rRNA from tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) namespace: biological_process def: "Any process involved in the maturation of a precursor 5S ribosomal RNA (rRNA) molecule into a mature 5S rRNA molecule from the pre-rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, Large Subunit (LSU) the 4.5S rRNA, and the 5S rRNA in that order from 5' to 3' along the primary transcript." [GOC:curators] is_a: GO:0000481 ! maturation of 5S rRNA [Term] id: GO:0000483 name: endonucleolytic cleavage of tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) namespace: biological_process def: "Endonucleolytic cleavage of a pre-rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small SubUnit (SSU) rRNA, the 5.8S rRNA, 2S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript. Primary ribosomal RNA transcripts with four genes, in this order, are produced in the nuclei of D. melanogaster as well as in those of other dipteran species." [GOC:curators] is_a: GO:0000478 ! endonucleolytic cleavage involved in rRNA processing [Term] id: GO:0000484 name: cleavage between SSU-rRNA and 5.8S rRNA of tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) namespace: biological_process def: "Endonucleolytic cleavage between the SSU-rRNA and the 5.8S rRNA of an rRNA molecule originally produced as a tetracistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, 2S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript." [GOC:curators] is_a: GO:0000483 ! endonucleolytic cleavage of tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) relationship: part_of GO:0000474 ! maturation of SSU-rRNA from tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) relationship: part_of GO:0000487 ! maturation of 5.8S rRNA from tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) [Term] id: GO:0000485 name: cleavage between 2S rRNA and LSU-rRNA of tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) namespace: biological_process def: "Endonucleolytic cleavage between the LSU-rRNA and the 2S rRNA of an rRNA molecule originally produced as a tetracistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, 2S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript." [GOC:curators, PMID:768488] is_a: GO:0000483 ! endonucleolytic cleavage of tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) relationship: part_of GO:0000473 ! maturation of LSU-rRNA from tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) relationship: part_of GO:0000475 ! maturation of 2S rRNA [Term] id: GO:0000486 name: cleavage between 5.8S rRNA and 2S rRNA of tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) namespace: biological_process def: "Endonucleolytic cleavage between the 5.8S rRNA and the 2S rRNA of an rRNA molecule originally produced as a tetracistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, 2S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript." [GOC:curators, PMID:768488] is_a: GO:0000483 ! endonucleolytic cleavage of tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) relationship: part_of GO:0000475 ! maturation of 2S rRNA relationship: part_of GO:0000487 ! maturation of 5.8S rRNA from tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) [Term] id: GO:0000487 name: maturation of 5.8S rRNA from tetracistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, 2S rRNA, LSU-rRNA) namespace: biological_process def: "Any process involved in the maturation of a precursor 5.8S ribosomal RNA (rRNA) molecule into a mature 5.8S rRNA molecule from the pre-rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, the 8.8S rRNA, the 2S rRNA, and the Large Subunit (LSU) in that order from 5' to 3' along the primary transcript." [GOC:curators] is_a: GO:0000460 ! maturation of 5.8S rRNA [Term] id: GO:0000488 name: maturation of LSU-rRNA from tetracistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 4.5S-rRNA, 5S-rRNA) namespace: biological_process def: "Any process involved in the maturation of a precursor Large SubUnit (LSU) ribosomal RNA (rRNA) molecule into a mature LSU-rRNA molecule from the pre-rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, Large Subunit (LSU) the 4.5S rRNA, and the 5S rRNA in that order from 5' to 3' along the primary transcript." [GOC:curators] is_a: GO:0000470 ! maturation of LSU-rRNA [Term] id: GO:0000489 name: maturation of SSU-rRNA from tetracistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 4.5S-rRNA, 5S-rRNA) namespace: biological_process def: "Any process involved in the maturation of a precursor Small SubUnit (SSU) ribosomal RNA (rRNA) molecule into a mature SSU-rRNA molecule from the pre-rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, Large Subunit (LSU) the 4.5S rRNA, and the 5S rRNA in that order from 5' to 3' along the primary transcript." [GOC:curators] is_a: GO:0030490 ! maturation of SSU-rRNA [Term] id: GO:0000491 name: small nucleolar ribonucleoprotein complex assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of proteins and a snoRNA to form a small nucleolar ribonucleoprotein (snoRNP) complex." [GOC:krc] synonym: "snoRNP assembly" EXACT [] is_a: GO:0022618 ! ribonucleoprotein complex assembly [Term] id: GO:0000492 name: box C/D snoRNP assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of proteins and a box C/D snoRNA to form a box C/D small nucleolar ribonucleoprotein (snoRNP) complex." [GOC:krc] synonym: "box C/D small nucleolar ribonucleoprotein complex assembly" EXACT [] is_a: GO:0000491 ! small nucleolar ribonucleoprotein complex assembly [Term] id: GO:0000493 name: box H/ACA snoRNP assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of proteins and a box H/ACA snoRNA to form a box H/ACA small nucleolar ribonucleoprotein (snoRNP) complex." [GOC:krc, PMID:12515383] synonym: "box H/ACA small nucleolar ribonucleoprotein complex assembly" EXACT [] is_a: GO:0000491 ! small nucleolar ribonucleoprotein complex assembly [Term] id: GO:0000494 name: box C/D snoRNA 3'-end processing namespace: biological_process def: "Any process involved in forming the mature 3' end of a box C/D snoRNA molecule." [GOC:krc] synonym: "box C/D snoRNA 3' end processing" EXACT [] is_a: GO:0031126 ! snoRNA 3'-end processing is_a: GO:0034963 ! box C/D snoRNA processing [Term] id: GO:0000495 name: box H/ACA snoRNA 3'-end processing namespace: biological_process def: "Any process involved in forming the mature 3' end of a box H/ACA snoRNA molecule." [GOC:krc] synonym: "box H/ACA snoRNA 3' end processing" EXACT [] is_a: GO:0031126 ! snoRNA 3'-end processing is_a: GO:0034964 ! box H/ACA snoRNA processing [Term] id: GO:0000496 name: base pairing namespace: molecular_function def: "Interacting selectively and non-covalently with nucleic acid via hydrogen bonds between the bases of a gene product molecule and the bases of a target nucleic acid molecule." [GOC:krc] comment: Note that with respect to annotation, "base pairing" and its child terms are intended to be used to annotate the activity of gene products composed of nucleic acid, presumably RNA, to interact with other nucleic acid molecules via base pairing. Internal base pairing with itself is considered part of the secondary structure of the molecule and is not within the scope of GO function. xref: Wikipedia:Base_pair is_a: GO:0003676 ! nucleic acid binding [Term] id: GO:0000497 name: base pairing with DNA namespace: molecular_function def: "Interacting selectively and non-covalently with nucleic acid via hydrogen bonds between the bases of a gene product molecule and the bases of a target DNA molecule." [GOC:krc] comment: Note that with respect to annotation, "base pairing" and its child terms are intended to be used to annotate the activity of gene products composed of nucleic acid, presumably RNA, to interact with DNA molecules via base pairing. Internal base pairing with itself is considered part of the secondary structure of the molecule and is not within the scope of GO function. is_a: GO:0000496 ! base pairing is_a: GO:0003677 ! DNA binding [Term] id: GO:0000498 name: base pairing with RNA namespace: molecular_function def: "Interacting selectively and non-covalently with ribonucleic acid (RNA) via hydrogen bonds between the bases of a gene product molecule and the bases of a target RNA molecule." [GOC:krc] comment: Note that with respect to annotation, "base pairing with RNA" and its child terms are intended to be used to annotate the activity of gene products composed of nucleic acid, presumably RNA, to interact with other RNA molecules via base pairing. Internal base pairing with itself is considered part of the secondary structure of the molecule and is not within the scope of GO function. is_a: GO:0000496 ! base pairing is_a: GO:0003723 ! RNA binding [Term] id: GO:0000499 name: base pairing with mRNA namespace: molecular_function def: "Interacting selectively and non-covalently with messenger ribonucleic acid (mRNA) via hydrogen bonds between the bases of a gene product molecule and the bases of a target mRNA molecule." [GOC:krc] comment: Note that with respect to annotation, "base pairing with RNA" and its child terms are intended to be used to annotate the activity of gene products composed of nucleic acid, presumably RNA, to interact with other RNA molecules via base pairing. Internal base pairing with itself is considered part of the secondary structure of the molecule and is not within the scope of GO function. is_a: GO:0000498 ! base pairing with RNA [Term] id: GO:0000500 name: RNA polymerase I upstream activating factor complex namespace: cellular_component def: "A complex required for the transcription of rDNA by RNA polymerase I. In yeast the complex consists of Rrrn5p, Rrn9p, Rrn10p, histones H3 and H4, and Uaf30p." [PMID:11500378] synonym: "RNA polymerase I upstream activation factor complex" EXACT [] synonym: "UAF" EXACT [] is_a: GO:0000120 ! RNA polymerase I transcription factor complex [Term] id: GO:0000501 name: flocculation via cell wall protein-carbohydrate interaction namespace: biological_process def: "Mannose-sensitive, nonsexual aggregation of cells mediated by protein-carbohydrate (flocculin-mannan) interaction present in the cell wall. This process is pH- and calcium-dependent and reversible. An example of this process is found in Saccharomyces cerevisiae." [DOI:10.1016/S0963-9969(99)00021-6, GOC:sgd_curators] subset: gosubset_prok is_a: GO:0000128 ! flocculation [Term] id: GO:0000502 name: proteasome complex namespace: cellular_component def: "A large multisubunit complex which catalyzes protein degradation. This complex consists of the barrel shaped proteasome core complex and one or two associated proteins or complexes that act in regulating entry into or exit from the core." [GOC:rb] subset: goslim_pir synonym: "26S proteasome" NARROW [] is_a: GO:0043234 ! protein complex is_a: GO:0044424 ! intracellular part [Term] id: GO:0000504 name: proteasome regulatory particle (sensu Bacteria) namespace: cellular_component def: "OBSOLETE. A multisubunit complex that recognizes and unfolds ubiquitinated proteins, and translocates them to the core complex in an ATP dependent manner. As in, but not restricted to, the taxon Bacteria (Bacteria, ncbi_taxonomy_id:2)." [GOC:rb] comment: This term was made obsolete because there is no ubiquitin in bacteria and they do not have proteasome regulatory particles. Instead they have proteasome-activating nucleotidase. synonym: "26S proteasome" NARROW [] is_obsolete: true [Term] id: GO:0000506 name: glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex namespace: cellular_component def: "An enzyme complex that catalyzes the transfer of GlcNAc from UDP-GlcNAc to an acceptor phosphatidylinositol, the first step in the production of GPI anchors for cell surface proteins. The complex contains PIG-A, PIG-C, PIG-H, PIG-Q, PIG-P, and DPM2 in human, and Eri1p, Gpi1p, Gpi2p, Gpi15p, Gpi19p, and Spt14p in budding yeast." [GOC:kp, GOC:rb, PMID:10944123, PMID:15163411] comment: Note that this term should not be confused with 'GPI-anchor transamidase complex ; GO:0042765', which represents a distinct complex with a different catalytic activity. synonym: "GPI-GlcNAc transferase complex" EXACT [] synonym: "GPI-GnT complex" EXACT [] synonym: "GPI-N-acetylglucosaminyltransferase complex" EXACT [] is_a: GO:0043234 ! protein complex is_a: GO:0044432 ! endoplasmic reticulum part [Term] id: GO:0000578 name: embryonic axis specification namespace: biological_process def: "The establishment, maintenance and elaboration of a pattern along a line or a point in an embryo." [GOC:dph, GOC:go_curators, GOC:sdb_2009, GOC:tb] synonym: "embryonic axis determination" RELATED [] is_a: GO:0009798 ! axis specification is_a: GO:0009880 ! embryonic pattern specification [Term] id: GO:0000700 name: mismatch base pair DNA N-glycosylase activity namespace: molecular_function def: "Catalysis of the removal of single bases present in mismatches by the cleavage the N-C1' glycosidic bond between the target damaged DNA base and the deoxyribose sugar. The reaction releases a free base and leaves an apurinic/apyrimidinic (AP) site." [GOC:elh, PMID:9224623] is_a: GO:0019104 ! DNA N-glycosylase activity [Term] id: GO:0000701 name: purine-specific mismatch base pair DNA N-glycosylase activity namespace: molecular_function def: "Catalysis of the removal of purines present in mismatches, especially opposite oxidized purines, by cleaving the N-C1' glycosidic bond between the target damaged DNA base and the deoxyribose sugar. The reaction releases a free base and leaves an apurinic (AP) site." [GOC:elh, PMID:9224623] synonym: "A/G-specific adenine DNA glycosylase activity" NARROW [] xref: EC:3.2.2.- is_a: GO:0000700 ! mismatch base pair DNA N-glycosylase activity [Term] id: GO:0000702 name: oxidized base lesion DNA N-glycosylase activity namespace: molecular_function def: "Catalysis of the removal of oxidized bases by cleaving the N-C1' glycosidic bond between the target damaged DNA base and the deoxyribose sugar. The reaction releases a free base and leaves an apurinic/apyrimidinic (AP) site." [GOC:elh, PMID:11554296] subset: gosubset_prok is_a: GO:0019104 ! DNA N-glycosylase activity [Term] id: GO:0000703 name: oxidized pyrimidine base lesion DNA N-glycosylase activity namespace: molecular_function alt_id: GO:0019004 def: "Catalysis of the removal oxidized pyrimidine bases by cleaving the N-C1' glycosidic bond between the oxidized pyrimidine and the deoxyribose sugar. The reaction involves formation of a covalent enzyme-pyrimidine base intermediate. Release of the enzyme and free base by a beta-elimination or a beta, gamma-elimination mechanism results in the cleavage of the DNA backbone 3' of the apyrimidinic (AP) site." [GOC:elh, PMID:11554296] comment: Consider also annotating to the molecular function term 'DNA-(apurinic or apyrimidinic site) lyase activity ; GO:0003906'. subset: gosubset_prok synonym: "bifunctional DNA glycosylase" BROAD [] synonym: "DNA glycosylase/AP-lyase" BROAD [] synonym: "DNA glycosylase/beta-lyase" BROAD [] synonym: "endodeoxyribonuclease III" RELATED [] synonym: "endonuclease III" RELATED [] synonym: "endonuclease VIII activity" RELATED [] synonym: "pyrimidine-specific oxidized base lesion DNA N-glycosylase activity" RELATED [] xref: Reactome:25087 "oxidized pyrimidine base lesion DNA N-glycosylase activity" is_a: GO:0000702 ! oxidized base lesion DNA N-glycosylase activity is_a: GO:0003906 ! DNA-(apurinic or apyrimidinic site) lyase activity [Term] id: GO:0000704 name: pyrimidine dimer DNA N-glycosylase activity namespace: molecular_function def: "Catalysis of the removal of pyrimidine dimers by removing the 5' pyrimidine of the dimer by cleaving the N-C1' glycosidic bond between the 5' pyrimidine of the dimer and the deoxyribose sugar. The reaction releases the 5' pyrimidine of the dimer and leaves an apurinic (AP) site. The reaction involves the formation of a covalent enzyme substrate intermediate. Release of the enzyme and free base by a beta-elimination or a beta, gamma-elimination mechanism results in the cleavage of the DNA backbone 3' of the apyrimidinic (AP) site." [GOC:elh, PMID:9224623] is_a: GO:0003906 ! DNA-(apurinic or apyrimidinic site) lyase activity is_a: GO:0004520 ! endodeoxyribonuclease activity is_a: GO:0019104 ! DNA N-glycosylase activity [Term] id: GO:0000705 name: achiasmate meiosis I namespace: biological_process def: "The first division of meiosis in which homologous chromosomes are paired and segregated from each other, occurring in the constitutive absence of chiasmata." [GOC:elh, GOC:sart, PMID:10690419] is_a: GO:0007127 ! meiosis I [Term] id: GO:0000706 name: meiotic DNA double-strand break processing namespace: biological_process def: "The cell cycle process whereby the 5' to 3' exonucleolytic resection of the DNA at the site of the break to form a 3' single-strand DNA overhang occurs. This takes place during meiosis." [GOC:elh, PMID:9334324] is_a: GO:0000729 ! DNA double-strand break processing is_a: GO:0022402 ! cell cycle process relationship: part_of GO:0051321 ! meiotic cell cycle [Term] id: GO:0000707 name: meiotic DNA recombinase assembly namespace: biological_process def: "During meiosis, the aggregation, arrangement and bonding together of strand exchange proteins (recombinases) to form higher order oligomers on single-stranded DNA." [GOC:elh, PMID:11459983] is_a: GO:0000730 ! DNA recombinase assembly is_a: GO:0022402 ! cell cycle process relationship: part_of GO:0007127 ! meiosis I [Term] id: GO:0000708 name: meiotic strand invasion namespace: biological_process def: "The cell cycle process whereby the nucleoprotein complex (composed of the broken single-strand DNA and the recombinase) searches and identifies a region of homology in intact duplex DNA. The broken single-strand DNA displaces the like strand and forms Watson-Crick base pairs with its complement, forming a duplex in which each strand is from one of the two recombining DNA molecules. This occurs during meiosis." [GOC:elh, PMID:10915877] synonym: "meiotic D-loop biosynthesis" RELATED [] synonym: "meiotic D-loop formation" RELATED [] is_a: GO:0022402 ! cell cycle process is_a: GO:0042148 ! strand invasion relationship: part_of GO:0007127 ! meiosis I [Term] id: GO:0000709 name: meiotic joint molecule formation namespace: biological_process def: "The conversion of the paired broken DNA and homologous duplex DNA into a four-stranded branched intermediate, known as a joint molecule, formed during meiotic recombination. These joint molecules contain Holliday junctions on either side of heteroduplex DNA." [GOC:elh, PMID:8521495] is_a: GO:0022402 ! cell cycle process relationship: part_of GO:0007131 ! reciprocal meiotic recombination [Term] id: GO:0000710 name: meiotic mismatch repair namespace: biological_process def: "A system for the identification and correction of base-base mismatches, small insertion-deletion loops, and regions of heterology that are present in duplex DNA formed with strands from two recombining molecules. Correction of the mismatch can result in non-Mendelian segregation of alleles following meiosis." [GOC:elh, PMID:10357855] is_a: GO:0006298 ! mismatch repair is_a: GO:0022402 ! cell cycle process relationship: part_of GO:0007127 ! meiosis I [Term] id: GO:0000711 name: meiotic DNA repair synthesis namespace: biological_process def: "During meiosis, the synthesis of DNA proceeding from the broken 3' single-strand DNA end that uses the homologous intact duplex as the template." [GOC:elh, PMID:9334324] is_a: GO:0000731 ! DNA synthesis involved in DNA repair is_a: GO:0022402 ! cell cycle process relationship: part_of GO:0007127 ! meiosis I [Term] id: GO:0000712 name: resolution of meiotic recombination intermediates namespace: biological_process def: "The cleavage and rejoining of intermediates, such as Holliday junctions, formed during meiotic recombination to produce two intact molecules in which genetic material has been exchanged." [GOC:elh, PMID:11733053] synonym: "crossover biosynthesis" NARROW [] synonym: "crossover formation" NARROW [] synonym: "formation of chiasmata" NARROW [] synonym: "homologous chromosome separation at meiosis I" EXACT [] synonym: "meiotic homologous chromosome separation" RELATED [] synonym: "resolution of meiotic joint molecules as recombinants" NARROW [GOC:elh, GOC:mah] is_a: GO:0051307 ! meiotic chromosome separation relationship: part_of GO:0007131 ! reciprocal meiotic recombination [Term] id: GO:0000713 name: meiotic heteroduplex formation namespace: biological_process def: "During meiosis, the formation of a stable duplex DNA that contains one strand from each of the two recombining DNA molecules." [GOC:elh, PMID:9334324] is_a: GO:0022402 ! cell cycle process is_a: GO:0030491 ! heteroduplex formation relationship: part_of GO:0006310 ! DNA recombination relationship: part_of GO:0007127 ! meiosis I [Term] id: GO:0000714 name: meiotic strand displacement namespace: biological_process def: "The cell cycle process whereby the broken 3' single-strand DNA molecule that formed heteroduplex DNA with its complement in an intact duplex DNA is rejected. The Watson-Crick base pairing in the original duplex is restored. The rejected 3' single-strand DNA molecule reanneals with its original complement to reform two intact duplex molecules. This occurs during meiosis." [GOC:elh, PMID:10357855] is_a: GO:0000732 ! strand displacement is_a: GO:0022402 ! cell cycle process relationship: part_of GO:0007127 ! meiosis I [Term] id: GO:0000715 name: nucleotide-excision repair, DNA damage recognition namespace: biological_process def: "The identification of lesions in DNA, such as pyrimidine-dimers, intrastrand cross-links, and bulky adducts. The wide range of substrate specificity suggests the repair complex recognizes distortions in the DNA helix." [GOC:elh, PMID:10197977] subset: gosubset_prok synonym: "pyrimidine-dimer repair, DNA damage recognition" NARROW [] xref: Reactome:563401 "DNA Damage Recognition in GG-NER" xref: Reactome:589020 "DNA Damage Recognition in GG-NER" xref: Reactome:609745 "DNA Damage Recognition in GG-NER" xref: Reactome:634442 "DNA Damage Recognition in GG-NER" xref: Reactome:645905 "DNA Damage Recognition in GG-NER" xref: Reactome:656223 "DNA Damage Recognition in GG-NER" xref: Reactome:661351 "DNA Damage Recognition in GG-NER" xref: Reactome:667137 "DNA Damage Recognition in GG-NER" xref: Reactome:673279 "DNA Damage Recognition in GG-NER" xref: Reactome:678960 "DNA Damage Recognition in GG-NER" xref: Reactome:683889 "DNA Damage Recognition in GG-NER" xref: Reactome:690141 "DNA Damage Recognition in GG-NER" xref: Reactome:701890 "DNA Damage Recognition in GG-NER" xref: Reactome:716462 "DNA Damage Recognition in GG-NER" xref: Reactome:728425 "DNA Damage Recognition in GG-NER" xref: Reactome:73940 "DNA Damage Recognition in GG-NER" is_a: GO:0051276 ! chromosome organization relationship: part_of GO:0006289 ! nucleotide-excision repair [Term] id: GO:0000716 name: transcription-coupled nucleotide-excision repair, DNA damage recognition namespace: biological_process def: "The identification of lesions on the actively transcribed strand of the DNA duplex as well as a small subset of lesions not recognized by the general nucleotide-excision repair pathway." [GOC:elh, PMID:10197977] subset: gosubset_prok synonym: "pyrimidine-dimer repair, DNA damage recognition" NARROW [] xref: Reactome:109972 "RNA Pol II is blocked by the lesion leading to reduced transcription" xref: Reactome:560216 "RNA Pol II is blocked by the lesion leading to reduced transcription" xref: Reactome:585981 "RNA Pol II is blocked by the lesion leading to reduced transcription" xref: Reactome:607083 "RNA Pol II is blocked by the lesion leading to reduced transcription" xref: Reactome:631491 "RNA Pol II is blocked by the lesion leading to reduced transcription" xref: Reactome:644253 "RNA Pol II is blocked by the lesion leading to reduced transcription" xref: Reactome:654718 "RNA Pol II is blocked by the lesion leading to reduced transcription" xref: Reactome:660508 "RNA Pol II is blocked by the lesion leading to reduced transcription" xref: Reactome:666281 "RNA Pol II is blocked by the lesion leading to reduced transcription" xref: Reactome:672323 "RNA Pol II is blocked by the lesion leading to reduced transcription" xref: Reactome:678123 "RNA Pol II is blocked by the lesion leading to reduced transcription" xref: Reactome:683050 "RNA Pol II is blocked by the lesion leading to reduced transcription" xref: Reactome:689178 "RNA Pol II is blocked by the lesion leading to reduced transcription" xref: Reactome:700482 "RNA Pol II is blocked by the lesion leading to reduced transcription" xref: Reactome:714988 "RNA Pol II is blocked by the lesion leading to reduced transcription" xref: Reactome:720348 "RNA Pol II is blocked by the lesion leading to reduced transcription" xref: Reactome:727442 "RNA Pol II is blocked by the lesion leading to reduced transcription" xref: Reactome:730627 "RNA Pol II is blocked by the lesion leading to reduced transcription" is_a: GO:0000715 ! nucleotide-excision repair, DNA damage recognition relationship: part_of GO:0006283 ! transcription-coupled nucleotide-excision repair [Term] id: GO:0000717 name: nucleotide-excision repair, DNA duplex unwinding namespace: biological_process def: "The unwinding, or local denaturation, of the DNA duplex to create a bubble around the site of the DNA damage." [GOC:elh, PMID:10197977] subset: gosubset_prok xref: Reactome:550670 "Formation of open bubble structure in DNA by helicases" xref: Reactome:577323 "Formation of open bubble structure in DNA by helicases" xref: Reactome:600224 "Formation of open bubble structure in DNA by helicases" xref: Reactome:623730 "Formation of open bubble structure in DNA by helicases" xref: Reactome:640794 "Formation of open bubble structure in DNA by helicases" xref: Reactome:651404 "Formation of open bubble structure in DNA by helicases" xref: Reactome:658950 "Formation of open bubble structure in DNA by helicases" xref: Reactome:664657 "Formation of open bubble structure in DNA by helicases" xref: Reactome:670593 "Formation of open bubble structure in DNA by helicases" xref: Reactome:676621 "Formation of open bubble structure in DNA by helicases" xref: Reactome:681735 "Formation of open bubble structure in DNA by helicases" xref: Reactome:687373 "Formation of open bubble structure in DNA by helicases" xref: Reactome:697653 "Formation of open bubble structure in DNA by helicases" xref: Reactome:711444 "Formation of open bubble structure in DNA by helicases" xref: Reactome:725157 "Formation of open bubble structure in DNA by helicases" xref: Reactome:73934 "Formation of open bubble structure in DNA by helicases" is_a: GO:0032508 ! DNA duplex unwinding relationship: part_of GO:0006289 ! nucleotide-excision repair [Term] id: GO:0000718 name: nucleotide-excision repair, DNA damage removal namespace: biological_process def: "The removal of the oligonucleotide that contains the DNA damage. The oligonucleotide is formed by dual incisions that flank the site of DNA damage." [GOC:elh, PMID:10197977] subset: gosubset_prok xref: Reactome:562612 "Dual incision reaction in GG-NER" xref: Reactome:588238 "Dual incision reaction in GG-NER" xref: Reactome:608997 "Dual incision reaction in GG-NER" xref: Reactome:633684 "Dual incision reaction in GG-NER" xref: Reactome:645294 "Dual incision reaction in GG-NER" xref: Reactome:655670 "Dual incision reaction in GG-NER" xref: Reactome:660952 "Dual incision reaction in GG-NER" xref: Reactome:666722 "Dual incision reaction in GG-NER" xref: Reactome:672824 "Dual incision reaction in GG-NER" xref: Reactome:678547 "Dual incision reaction in GG-NER" xref: Reactome:683509 "Dual incision reaction in GG-NER" xref: Reactome:689708 "Dual incision reaction in GG-NER" xref: Reactome:701441 "Dual incision reaction in GG-NER" xref: Reactome:716012 "Dual incision reaction in GG-NER" xref: Reactome:727962 "Dual incision reaction in GG-NER" xref: Reactome:73941 "Dual incision reaction in GG-NER" is_a: GO:0006308 ! DNA catabolic process relationship: part_of GO:0006289 ! nucleotide-excision repair [Term] id: GO:0000719 name: photoreactive repair namespace: biological_process def: "The repair of UV-induced T-T, C-T and C-C dimers by directly reversing the damage to restore the original pyrimidines." [GOC:elh, PMID:10915863] subset: gosubset_prok synonym: "pyrimidine-dimer repair by photolyase" NARROW [] is_a: GO:0006290 ! pyrimidine dimer repair [Term] id: GO:0000720 name: pyrimidine dimer repair by nucleotide-excision repair namespace: biological_process def: "The repair of UV-induced T-T, C-T, and C-C dimers by the recognition and removal of the damaged DNA strand from the DNA helix as an oligonucleotide. The small gap left in the DNA helix is filled in by the sequential action of DNA polymerase and DNA ligase." [GOC:elh] comment: Note that the repair of pyrimidine dimers by nucleotide excision repair involves the same gene products that are involved in general nucleotide excision repair. Consider also annotating to other children of the biological process term 'nucleotide-excision repair ; GO:0006289'. subset: gosubset_prok is_a: GO:0006289 ! nucleotide-excision repair is_a: GO:0006290 ! pyrimidine dimer repair [Term] id: GO:0000721 name: (R,R)-butanediol dehydrogenase activity namespace: molecular_function def: "Catalysis of the reversible reaction: (R,R)-butane-2,3-diol + NAD+ = (R)-acetoin + NADH + H+." [EC:1.1.1.4] subset: gosubset_prok synonym: "(R)-2,3-butanediol dehydrogenase activity" EXACT [EC:1.1.1.4] synonym: "(R)-diacetyl reductase activity" EXACT [EC:1.1.1.4] synonym: "1-amino-2-propanol dehydrogenase activity" EXACT [EC:1.1.1.4] synonym: "1-amino-2-propanol oxidoreductase activity" EXACT [EC:1.1.1.4] synonym: "2,3-butanediol dehydrogenase activity" EXACT [EC:1.1.1.4] synonym: "aminopropanol oxidoreductase activity" EXACT [EC:1.1.1.4] synonym: "butylene glycol dehydrogenase activity" EXACT [EC:1.1.1.4] synonym: "butyleneglycol dehydrogenase activity" EXACT [EC:1.1.1.4] synonym: "D-(-)-butanediol dehydrogenase activity" EXACT [EC:1.1.1.4] synonym: "D-1-amino-2-propanol dehydrogenase activity" EXACT [EC:1.1.1.4] synonym: "D-1-amino-2-propanol:NAD(2) oxidoreductase activity" EXACT [EC:1.1.1.4] synonym: "D-aminopropanol dehydrogenase activity" EXACT [EC:1.1.1.4] synonym: "D-butanediol dehydrogenase activity" EXACT [EC:1.1.1.4] synonym: "diacetyl (acetoin) reductase activity" RELATED [EC:1.1.1.4] xref: EC:1.1.1.4 xref: MetaCyc:RR-BUTANEDIOL-DEHYDROGENASE-RXN is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0000722 name: telomere maintenance via recombination namespace: biological_process def: "Any recombinational process that contributes to the maintenance of proper telomeric length." [GOC:elh, PMID:11850777] synonym: "telomerase-independent telomere maintenance" RELATED [] xref: Reactome:174411 "Polymerase switching on the C-strand of the telomere" xref: Reactome:174414 "Processive synthesis on the C-strand of the telomere" xref: Reactome:174425 "The primase component of DNA polymerase:primase synthesizes a 6-10 nucleotide RNA primer on the G strand of the telomere" xref: Reactome:174427 "The polymerase component of DNA polymerase alpha:primase synthesizes a 20-nucleotide primer on the G strand of the telomere" xref: Reactome:174430 "Telomere C-strand synthesis initiation" xref: Reactome:174437 "Removal of the Flap Intermediate from the C-strand" xref: Reactome:174438 "Formation of the Flap Intermediate on the C-strand" xref: Reactome:174439 "Loading of PCNA - Sliding Clamp Formation on the C-strand of the telomere" xref: Reactome:174441 "Removal of RNA primer and dissociation of RPA and Dna2 from the C-strand" xref: Reactome:174444 "Formation of C-strand Okazaki fragments" xref: Reactome:174445 "RPA binds to the Flap on the C-strand" xref: Reactome:174446 "Removal of remaining Flap from the C-strand" xref: Reactome:174447 "RFC dissociates after sliding clamp formation on the C-strand of the telomere" xref: Reactome:174448 "Formation of Processive Complex on the C-strand of the telomere" xref: Reactome:174451 "Recruitment of Dna2 endonuclease to the C strand" xref: Reactome:174452 "RFC binding displaces Pol Alpha on the C-strand of the telomere" xref: Reactome:174456 "Joining of adjacent Okazaki fragments of the C-strand" xref: Reactome:550357 "Formation of C-strand Okazaki fragments" xref: Reactome:550677 "Formation of Processive Complex on the C-strand of the telomere" xref: Reactome:550726 "Formation of the Flap Intermediate on the C-strand" xref: Reactome:553947 "Joining of adjacent Okazaki fragments of the C-strand" xref: Reactome:554720 "Loading of PCNA - Sliding Clamp Formation on the C-strand of the telomere" xref: Reactome:559668 "Recruitment of Dna2 endonuclease to the C strand" xref: Reactome:560118 "Removal of remaining Flap from the C-strand" xref: Reactome:560122 "Removal of RNA primer and dissociation of RPA and Dna2 from the C-strand" xref: Reactome:560148 "RFC binding displaces Pol Alpha on the C-strand of the telomere" xref: Reactome:560150 "RFC dissociates after sliding clamp formation on the C-strand of the telomere" xref: Reactome:560256 "RPA binds to the Flap on the C-strand" xref: Reactome:561063 "The polymerase component of DNA polymerase alpha:primase synthesizes a 20-nucleotide primer on the G strand of the telomere" xref: Reactome:561068 "The primase component of DNA polymerase:primase synthesizes a 6-10 nucleotide RNA primer on the G strand of the telomere" xref: Reactome:563185 "Processive synthesis on the C-strand of the telomere" xref: Reactome:563195 "Polymerase switching on the C-strand of the telomere" xref: Reactome:563364 "Removal of the Flap Intermediate from the C-strand" xref: Reactome:563386 "Telomere C-strand synthesis initiation" xref: Reactome:576985 "Formation of C-strand Okazaki fragments" xref: Reactome:577330 "Formation of Processive Complex on the C-strand of the telomere" xref: Reactome:577372 "Formation of the Flap Intermediate on the C-strand" xref: Reactome:579849 "Joining of adjacent Okazaki fragments of the C-strand" xref: Reactome:580511 "Loading of PCNA - Sliding Clamp Formation on the C-strand of the telomere" xref: Reactome:585427 "Recruitment of Dna2 endonuclease to the C strand" xref: Reactome:585893 "Removal of remaining Flap from the C-strand" xref: Reactome:585897 "Removal of RNA primer and dissociation of RPA and Dna2 from the C-strand" xref: Reactome:585923 "RFC binding displaces Pol Alpha on the C-strand of the telomere" xref: Reactome:585925 "RFC dissociates after sliding clamp formation on the C-strand of the telomere" xref: Reactome:586034 "RPA binds to the Flap on the C-strand" xref: Reactome:586824 "The polymerase component of DNA polymerase alpha:primase synthesizes a 20-nucleotide primer on the G strand of the telomere" xref: Reactome:586829 "The primase component of DNA polymerase:primase synthesizes a 6-10 nucleotide RNA primer on the G strand of the telomere" xref: Reactome:588791 "Processive synthesis on the C-strand of the telomere" xref: Reactome:588801 "Polymerase switching on the C-strand of the telomere" xref: Reactome:588985 "Removal of the Flap Intermediate from the C-strand" xref: Reactome:589006 "Telomere C-strand synthesis initiation" xref: Reactome:603330 "Loading of PCNA - Sliding Clamp Formation on the C-strand of the telomere" xref: Reactome:607042 "RFC dissociates after sliding clamp formation on the C-strand of the telomere" xref: Reactome:609602 "Polymerase switching on the C-strand of the telomere" xref: Reactome:623419 "Formation of C-strand Okazaki fragments" xref: Reactome:623737 "Formation of Processive Complex on the C-strand of the telomere" xref: Reactome:623780 "Formation of the Flap Intermediate on the C-strand" xref: Reactome:626808 "Joining of adjacent Okazaki fragments of the C-strand" xref: Reactome:627314 "Loading of PCNA - Sliding Clamp Formation on the C-strand of the telomere" xref: Reactome:630994 "Recruitment of Dna2 endonuclease to the C strand" xref: Reactome:631425 "Removal of remaining Flap from the C-strand" xref: Reactome:631448 "RFC binding displaces Pol Alpha on the C-strand of the telomere" xref: Reactome:631450 "RFC dissociates after sliding clamp formation on the C-strand of the telomere" xref: Reactome:632287 "The polymerase component of DNA polymerase alpha:primase synthesizes a 20-nucleotide primer on the G strand of the telomere" xref: Reactome:632292 "The primase component of DNA polymerase:primase synthesizes a 6-10 nucleotide RNA primer on the G strand of the telomere" xref: Reactome:634220 "Processive synthesis on the C-strand of the telomere" xref: Reactome:634232 "Polymerase switching on the C-strand of the telomere" xref: Reactome:634397 "Removal of the Flap Intermediate from the C-strand" xref: Reactome:634425 "Telomere C-strand synthesis initiation" xref: Reactome:642035 "Loading of PCNA - Sliding Clamp Formation on the C-strand of the telomere" xref: Reactome:644229 "RFC binding displaces Pol Alpha on the C-strand of the telomere" xref: Reactome:644231 "RFC dissociates after sliding clamp formation on the C-strand of the telomere" xref: Reactome:644670 "The polymerase component of DNA polymerase alpha:primase synthesizes a 20-nucleotide primer on the G strand of the telomere" xref: Reactome:644675 "The primase component of DNA polymerase:primase synthesizes a 6-10 nucleotide RNA primer on the G strand of the telomere" xref: Reactome:645781 "Polymerase switching on the C-strand of the telomere" xref: Reactome:645889 "Telomere C-strand synthesis initiation" xref: Reactome:652640 "Loading of PCNA - Sliding Clamp Formation on the C-strand of the telomere" xref: Reactome:654687 "RFC binding displaces Pol Alpha on the C-strand of the telomere" xref: Reactome:654689 "RFC dissociates after sliding clamp formation on the C-strand of the telomere" xref: Reactome:655032 "The polymerase component of DNA polymerase alpha:primase synthesizes a 20-nucleotide primer on the G strand of the telomere" xref: Reactome:655037 "The primase component of DNA polymerase:primase synthesizes a 6-10 nucleotide RNA primer on the G strand of the telomere" xref: Reactome:656104 "Polymerase switching on the C-strand of the telomere" xref: Reactome:656209 "Telomere C-strand synthesis initiation" xref: Reactome:658902 "Formation of C-strand Okazaki fragments" xref: Reactome:658955 "Formation of Processive Complex on the C-strand of the telomere" xref: Reactome:658968 "Formation of the Flap Intermediate on the C-strand" xref: Reactome:659482 "Joining of adjacent Okazaki fragments of the C-strand" xref: Reactome:659549 "Loading of PCNA - Sliding Clamp Formation on the C-strand of the telomere" xref: Reactome:660352 "Recruitment of Dna2 endonuclease to the C strand" xref: Reactome:660489 "Removal of remaining Flap from the C-strand" xref: Reactome:660496 "RFC binding displaces Pol Alpha on the C-strand of the telomere" xref: Reactome:660498 "RFC dissociates after sliding clamp formation on the C-strand of the telomere" xref: Reactome:660647 "The polymerase component of DNA polymerase alpha:primase synthesizes a 20-nucleotide primer on the G strand of the telomere" xref: Reactome:660652 "The primase component of DNA polymerase:primase synthesizes a 6-10 nucleotide RNA primer on the G strand of the telomere" xref: Reactome:661221 "Processive synthesis on the C-strand of the telomere" xref: Reactome:661229 "Polymerase switching on the C-strand of the telomere" xref: Reactome:661321 "Removal of the Flap Intermediate from the C-strand" xref: Reactome:661339 "Telomere C-strand synthesis initiation" xref: Reactome:665242 "Loading of PCNA - Sliding Clamp Formation on the C-strand of the telomere" xref: Reactome:666269 "RFC binding displaces Pol Alpha on the C-strand of the telomere" xref: Reactome:666271 "RFC dissociates after sliding clamp formation on the C-strand of the telomere" xref: Reactome:666420 "The polymerase component of DNA polymerase alpha:primase synthesizes a 20-nucleotide primer on the G strand of the telomere" xref: Reactome:666425 "The primase component of DNA polymerase:primase synthesizes a 6-10 nucleotide RNA primer on the G strand of the telomere" xref: Reactome:667046 "Polymerase switching on the C-strand of the telomere" xref: Reactome:667123 "Telomere C-strand synthesis initiation" xref: Reactome:670552 "Formation of C-strand Okazaki fragments" xref: Reactome:670597 "Formation of Processive Complex on the C-strand of the telomere" xref: Reactome:670610 "Formation of the Flap Intermediate on the C-strand" xref: Reactome:671153 "Joining of adjacent Okazaki fragments of the C-strand" xref: Reactome:671226 "Loading of PCNA - Sliding Clamp Formation on the C-strand of the telomere" xref: Reactome:672143 "Recruitment of Dna2 endonuclease to the C strand" xref: Reactome:672304 "Removal of remaining Flap from the C-strand" xref: Reactome:672311 "RFC binding displaces Pol Alpha on the C-strand of the telomere" xref: Reactome:672313 "RFC dissociates after sliding clamp formation on the C-strand of the telomere" xref: Reactome:672471 "The polymerase component of DNA polymerase alpha:primase synthesizes a 20-nucleotide primer on the G strand of the telomere" xref: Reactome:672476 "The primase component of DNA polymerase:primase synthesizes a 6-10 nucleotide RNA primer on the G strand of the telomere" xref: Reactome:673139 "Processive synthesis on the C-strand of the telomere" xref: Reactome:673145 "Polymerase switching on the C-strand of the telomere" xref: Reactome:673246 "Removal of the Flap Intermediate from the C-strand" xref: Reactome:673264 "Telomere C-strand synthesis initiation" xref: Reactome:676573 "Formation of C-strand Okazaki fragments" xref: Reactome:676624 "Formation of Processive Complex on the C-strand of the telomere" xref: Reactome:676637 "Formation of the Flap Intermediate on the C-strand" xref: Reactome:677101 "Joining of adjacent Okazaki fragments of the C-strand" xref: Reactome:677159 "Loading of PCNA - Sliding Clamp Formation on the C-strand of the telomere" xref: Reactome:677946 "Recruitment of Dna2 endonuclease to the C strand" xref: Reactome:678104 "Removal of remaining Flap from the C-strand" xref: Reactome:678111 "RFC binding displaces Pol Alpha on the C-strand of the telomere" xref: Reactome:678113 "RFC dissociates after sliding clamp formation on the C-strand of the telomere" xref: Reactome:678276 "The polymerase component of DNA polymerase alpha:primase synthesizes a 20-nucleotide primer on the G strand of the telomere" xref: Reactome:678281 "The primase component of DNA polymerase:primase synthesizes a 6-10 nucleotide RNA primer on the G strand of the telomere" xref: Reactome:678834 "Processive synthesis on the C-strand of the telomere" xref: Reactome:678840 "Polymerase switching on the C-strand of the telomere" xref: Reactome:678933 "Removal of the Flap Intermediate from the C-strand" xref: Reactome:678950 "Telomere C-strand synthesis initiation" xref: Reactome:681688 "Formation of C-strand Okazaki fragments" xref: Reactome:681739 "Formation of Processive Complex on the C-strand of the telomere" xref: Reactome:681752 "Formation of the Flap Intermediate on the C-strand" xref: Reactome:682183 "Joining of adjacent Okazaki fragments of the C-strand" xref: Reactome:682261 "Loading of PCNA - Sliding Clamp Formation on the C-strand of the telomere" xref: Reactome:682934 "Recruitment of Dna2 endonuclease to the C strand" xref: Reactome:683031 "Removal of remaining Flap from the C-strand" xref: Reactome:683038 "RFC binding displaces Pol Alpha on the C-strand of the telomere" xref: Reactome:683040 "RFC dissociates after sliding clamp formation on the C-strand of the telomere" xref: Reactome:683168 "The polymerase component of DNA polymerase alpha:primase synthesizes a 20-nucleotide primer on the G strand of the telomere" xref: Reactome:683173 "The primase component of DNA polymerase:primase synthesizes a 6-10 nucleotide RNA primer on the G strand of the telomere" xref: Reactome:683766 "Processive synthesis on the C-strand of the telomere" xref: Reactome:683777 "Polymerase switching on the C-strand of the telomere" xref: Reactome:683855 "Removal of the Flap Intermediate from the C-strand" xref: Reactome:683870 "Telomere C-strand synthesis initiation" xref: Reactome:688041 "Loading of PCNA - Sliding Clamp Formation on the C-strand of the telomere" xref: Reactome:689163 "RFC binding displaces Pol Alpha on the C-strand of the telomere" xref: Reactome:689165 "RFC dissociates after sliding clamp formation on the C-strand of the telomere" xref: Reactome:689324 "The polymerase component of DNA polymerase alpha:primase synthesizes a 20-nucleotide primer on the G strand of the telomere" xref: Reactome:689329 "The primase component of DNA polymerase:primase synthesizes a 6-10 nucleotide RNA primer on the G strand of the telomere" xref: Reactome:690047 "Polymerase switching on the C-strand of the telomere" xref: Reactome:690124 "Telomere C-strand synthesis initiation" xref: Reactome:697616 "Formation of C-strand Okazaki fragments" xref: Reactome:697656 "Formation of Processive Complex on the C-strand of the telomere" xref: Reactome:697671 "Formation of the Flap Intermediate on the C-strand" xref: Reactome:698588 "Joining of adjacent Okazaki fragments of the C-strand" xref: Reactome:698758 "Loading of PCNA - Sliding Clamp Formation on the C-strand of the telomere" xref: Reactome:700185 "Recruitment of Dna2 endonuclease to the C strand" xref: Reactome:700457 "Removal of remaining Flap from the C-strand" xref: Reactome:700470 "RFC binding displaces Pol Alpha on the C-strand of the telomere" xref: Reactome:700472 "RFC dissociates after sliding clamp formation on the C-strand of the telomere" xref: Reactome:700768 "The polymerase component of DNA polymerase alpha:primase synthesizes a 20-nucleotide primer on the G strand of the telomere" xref: Reactome:700773 "The primase component of DNA polymerase:primase synthesizes a 6-10 nucleotide RNA primer on the G strand of the telomere" xref: Reactome:701766 "Processive synthesis on the C-strand of the telomere" xref: Reactome:701772 "Polymerase switching on the C-strand of the telomere" xref: Reactome:701856 "Removal of the Flap Intermediate from the C-strand" xref: Reactome:701872 "Telomere C-strand synthesis initiation" xref: Reactome:711384 "Formation of C-strand Okazaki fragments" xref: Reactome:711446 "Formation of Processive Complex on the C-strand of the telomere" xref: Reactome:711461 "Formation of the Flap Intermediate on the C-strand" xref: Reactome:712570 "Joining of adjacent Okazaki fragments of the C-strand" xref: Reactome:712786 "Loading of PCNA - Sliding Clamp Formation on the C-strand of the telomere" xref: Reactome:714600 "Recruitment of Dna2 endonuclease to the C strand" xref: Reactome:714958 "Removal of remaining Flap from the C-strand" xref: Reactome:714971 "RFC binding displaces Pol Alpha on the C-strand of the telomere" xref: Reactome:714973 "RFC dissociates after sliding clamp formation on the C-strand of the telomere" xref: Reactome:715287 "The polymerase component of DNA polymerase alpha:primase synthesizes a 20-nucleotide primer on the G strand of the telomere" xref: Reactome:715292 "The primase component of DNA polymerase:primase synthesizes a 6-10 nucleotide RNA primer on the G strand of the telomere" xref: Reactome:716342 "Processive synthesis on the C-strand of the telomere" xref: Reactome:716348 "Polymerase switching on the C-strand of the telomere" xref: Reactome:716430 "Removal of the Flap Intermediate from the C-strand" xref: Reactome:716446 "Telomere C-strand synthesis initiation" xref: Reactome:719533 "Loading of PCNA - Sliding Clamp Formation on the C-strand of the telomere" xref: Reactome:720342 "RFC binding displaces Pol Alpha on the C-strand of the telomere" xref: Reactome:720344 "RFC dissociates after sliding clamp formation on the C-strand of the telomere" xref: Reactome:720466 "The polymerase component of DNA polymerase alpha:primase synthesizes a 20-nucleotide primer on the G strand of the telomere" xref: Reactome:720874 "Polymerase switching on the C-strand of the telomere" xref: Reactome:720954 "Telomere C-strand synthesis initiation" xref: Reactome:725966 "Loading of PCNA - Sliding Clamp Formation on the C-strand of the telomere" xref: Reactome:727416 "RFC binding displaces Pol Alpha on the C-strand of the telomere" xref: Reactome:727418 "RFC dissociates after sliding clamp formation on the C-strand of the telomere" xref: Reactome:727591 "The polymerase component of DNA polymerase alpha:primase synthesizes a 20-nucleotide primer on the G strand of the telomere" xref: Reactome:727596 "The primase component of DNA polymerase:primase synthesizes a 6-10 nucleotide RNA primer on the G strand of the telomere" xref: Reactome:728323 "Polymerase switching on the C-strand of the telomere" xref: Reactome:728404 "Telomere C-strand synthesis initiation" xref: Reactome:730178 "Loading of PCNA - Sliding Clamp Formation on the C-strand of the telomere" xref: Reactome:730615 "RFC binding displaces Pol Alpha on the C-strand of the telomere" xref: Reactome:730617 "RFC dissociates after sliding clamp formation on the C-strand of the telomere" xref: Reactome:730685 "The polymerase component of DNA polymerase alpha:primase synthesizes a 20-nucleotide primer on the G strand of the telomere" xref: Reactome:730690 "The primase component of DNA polymerase:primase synthesizes a 6-10 nucleotide RNA primer on the G strand of the telomere" xref: Reactome:731143 "Polymerase switching on the C-strand of the telomere" xref: Reactome:731183 "Telomere C-strand synthesis initiation" is_a: GO:0000723 ! telomere maintenance is_a: GO:0006312 ! mitotic recombination [Term] id: GO:0000723 name: telomere maintenance namespace: biological_process def: "Any process that contributes to the maintenance of proper telomeric length and structure by affecting and monitoring the activity of telomeric proteins and the length of telomeric DNA. These processes includes those that shorten and lengthen the telomeric DNA sequences." [GOC:elh, PMID:11092831] synonym: "regulation of telomere length" RELATED [GOC:dph, GOC:tb] xref: Reactome:157579 "Telomere Maintenance" xref: Reactome:171306 "Packaging Of Telomere Ends" xref: Reactome:176702 "Disassociation of Processive Complex and Completed Telomere End" xref: Reactome:548037 "Disassociation of Processive Complex and Completed Telomere End" xref: Reactome:562857 "Telomere Maintenance" xref: Reactome:575018 "Disassociation of Processive Complex and Completed Telomere End" xref: Reactome:588477 "Telomere Maintenance" xref: Reactome:609218 "Telomere Maintenance" xref: Reactome:621805 "Disassociation of Processive Complex and Completed Telomere End" xref: Reactome:633911 "Telomere Maintenance" xref: Reactome:645784 "Telomere Maintenance" xref: Reactome:656107 "Telomere Maintenance" xref: Reactome:658594 "Disassociation of Processive Complex and Completed Telomere End" xref: Reactome:661047 "Telomere Maintenance" xref: Reactome:666823 "Telomere Maintenance" xref: Reactome:670188 "Disassociation of Processive Complex and Completed Telomere End" xref: Reactome:672934 "Telomere Maintenance" xref: Reactome:676212 "Disassociation of Processive Complex and Completed Telomere End" xref: Reactome:678647 "Telomere Maintenance" xref: Reactome:681329 "Disassociation of Processive Complex and Completed Telomere End" xref: Reactome:683580 "Telomere Maintenance" xref: Reactome:689816 "Telomere Maintenance" xref: Reactome:696862 "Disassociation of Processive Complex and Completed Telomere End" xref: Reactome:701531 "Telomere Maintenance" xref: Reactome:710415 "Disassociation of Processive Complex and Completed Telomere End" xref: Reactome:716115 "Telomere Maintenance" xref: Reactome:720877 "Telomere Maintenance" xref: Reactome:728079 "Telomere Maintenance" xref: Reactome:731146 "Telomere Maintenance" is_a: GO:0006259 ! DNA metabolic process is_a: GO:0032200 ! telomere organization is_a: GO:0060249 ! anatomical structure homeostasis [Term] id: GO:0000724 name: double-strand break repair via homologous recombination namespace: biological_process alt_id: GO:0016924 def: "The error-free repair of a double-strand break in DNA in which the broken DNA molecule is repaired using homologous sequences. A strand in the broken DNA searches for a homologous region in an intact chromosome to serve as the template for DNA synthesis. The restoration of two intact DNA molecules results in the exchange, reciprocal or nonreciprocal, of genetic material between the intact DNA molecule and the broken DNA molecule." [GOC:elh, PMID:10357855] subset: gosubset_prok synonym: "HDR" EXACT [GOC:vk] synonym: "homologous recombinational repair" EXACT [] synonym: "homology-directed repair" EXACT [GOC:vk] synonym: "HRR" EXACT [] synonym: "Rad51-dependent recombinational repair" EXACT [GOC:mah] synonym: "Rhp51-dependent recombinational repair" EXACT [] xref: Reactome:562635 "Homologous Recombination Repair" xref: Reactome:588261 "Homologous Recombination Repair" xref: Reactome:609254 "Homologous Recombination Repair" xref: Reactome:633970 "Homologous Recombination Repair" xref: Reactome:645533 "Homologous Recombination Repair" xref: Reactome:655886 "Homologous Recombination Repair" xref: Reactome:661071 "Homologous Recombination Repair" xref: Reactome:666850 "Homologous Recombination Repair" xref: Reactome:672965 "Homologous Recombination Repair" xref: Reactome:678684 "Homologous Recombination Repair" xref: Reactome:683624 "Homologous Recombination Repair" xref: Reactome:689849 "Homologous Recombination Repair" xref: Reactome:701574 "Homologous Recombination Repair" xref: Reactome:716158 "Homologous Recombination Repair" xref: Reactome:720743 "Homologous Recombination Repair" xref: Reactome:728120 "Homologous Recombination Repair" xref: Reactome:731005 "Homologous Recombination Repair" xref: Reactome:733059 "Homologous Recombination Repair" xref: Reactome:733894 "Homologous Recombination Repair" xref: Reactome:736610 "Homologous Recombination Repair" xref: Reactome:738590 "Homologous Recombination Repair" xref: Reactome:73888 "Homologous Recombination Repair" is_a: GO:0000725 ! recombinational repair is_a: GO:0006302 ! double-strand break repair [Term] id: GO:0000725 name: recombinational repair namespace: biological_process def: "A DNA repair process that involves the exchange, reciprocal or nonreciprocal, of genetic material between the broken DNA molecule and a homologous region of DNA." [GOC:elh] subset: gosubset_prok xref: Wikipedia:Recombinational_repair is_a: GO:0006281 ! DNA repair is_a: GO:0006310 ! DNA recombination [Term] id: GO:0000726 name: non-recombinational repair namespace: biological_process def: "A DNA repair process in which that does not require the exchange of genetic material between the broken DNA molecule and a homologous region of DNA." [GOC:elh] subset: gosubset_prok is_a: GO:0006281 ! DNA repair [Term] id: GO:0000727 name: double-strand break repair via break-induced replication namespace: biological_process def: "The error-free repair of a double-strand break in DNA in which the centromere-proximal end of a broken chromosome searches for a homologous region in an intact chromosome. DNA synthesis initiates from the 3' end of the invading DNA strand, using the intact chromosome as the template, and progresses to the end of the chromosome." [GOC:elh, PMID:10357855] subset: gosubset_prok is_a: GO:0000724 ! double-strand break repair via homologous recombination [Term] id: GO:0000728 name: gene conversion at mating-type locus, DNA double-strand break formation namespace: biological_process def: "The site-specific endonucleolytic cleavage of DNA at the mating-type locus which initiates the conversion of one mating-type allele to another." [GOC:elh, PMID:7646483] is_a: GO:0048610 ! reproductive cellular process is_a: GO:0090305 ! nucleic acid phosphodiester bond hydrolysis relationship: part_of GO:0007534 ! gene conversion at mating-type locus [Term] id: GO:0000729 name: DNA double-strand break processing namespace: biological_process def: "The 5' to 3' exonucleolytic resection of the DNA at the site of the break to form a 3' single-strand DNA overhang." [PMID:10357855] xref: Reactome:83897 "Resection of double-strand break ends" is_a: GO:0000738 ! DNA catabolic process, exonucleolytic relationship: part_of GO:0006302 ! double-strand break repair [Term] id: GO:0000730 name: DNA recombinase assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of strand exchange proteins (recombinases) into higher order oligomers on single-stranded DNA." [PMID:10357855] synonym: "Rad51 nucleoprotein filament formation" EXACT [GOC:elh, GOC:vw] xref: Reactome:562932 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:588553 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:609293 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:633985 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:645544 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:655882 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:661072 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:666846 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:672961 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:678680 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:683620 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:689851 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:701587 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:716171 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:720745 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:728121 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:731001 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:733055 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:733890 "Assembly of the RAD51-ssDNA nucleoprotein complex" xref: Reactome:76000 "Assembly of the RAD51-ssDNA nucleoprotein complex" is_a: GO:0065004 ! protein-DNA complex assembly relationship: part_of GO:0045003 ! double-strand break repair via synthesis-dependent strand annealing [Term] id: GO:0000731 name: DNA synthesis involved in DNA repair namespace: biological_process def: "Synthesis of DNA that proceeds from the broken 3' single-strand DNA end uses the homologous intact duplex as the template." [PMID:10357855] subset: gosubset_prok synonym: "DNA repair synthesis" BROAD [] synonym: "DNA synthesis during DNA repair" RELATED [GOC:dph, GOC:tb] xref: Reactome:76011 "DNA repair synthesis" is_a: GO:0006260 ! DNA replication relationship: part_of GO:0006281 ! DNA repair [Term] id: GO:0000732 name: strand displacement namespace: biological_process def: "The rejection of the broken 3' single-strand DNA molecule that formed heteroduplex DNA with its complement in an intact duplex DNA. The Watson-Crick base pairing in the original duplex is restored. The rejected 3' single-strand DNA molecule reanneals with its original complement to reform two intact duplex molecules." [PMID:10357855] subset: gosubset_prok xref: Reactome:83663 "Dissociation of the extended strands" is_a: GO:0006259 ! DNA metabolic process relationship: part_of GO:0006310 ! DNA recombination [Term] id: GO:0000733 name: DNA strand renaturation namespace: biological_process def: "The identification and annealing of complementary base pairs in single-strand DNA." [GOC:elh] subset: gosubset_prok is_a: GO:0006259 ! DNA metabolic process relationship: part_of GO:0045002 ! double-strand break repair via single-strand annealing [Term] id: GO:0000734 name: gene conversion at mating-type locus, DNA repair synthesis namespace: biological_process def: "Synthesis of DNA that proceeds from the broken 3' single-strand DNA end uses the homologous intact duplex as the template during gene conversion at the mating-type locus." [GOC:elh] is_a: GO:0000731 ! DNA synthesis involved in DNA repair relationship: part_of GO:0007534 ! gene conversion at mating-type locus [Term] id: GO:0000735 name: removal of nonhomologous ends namespace: biological_process def: "The removal of nonhomologous sequences at the broken 3' single-strand DNA end before DNA repair synthesis can occur." [PMID:10357855] is_a: GO:0000737 ! DNA catabolic process, endonucleolytic is_a: GO:0048610 ! reproductive cellular process relationship: part_of GO:0007534 ! gene conversion at mating-type locus [Term] id: GO:0000736 name: double-strand break repair via single-strand annealing, removal of nonhomologous ends namespace: biological_process def: "During DSBR via single-strand annealing, the removal of nonhomologous sequences at the broken 3' single-strand DNA end before DNA repair synthesis can occur." [PMID:10357855] subset: gosubset_prok is_a: GO:0000735 ! removal of nonhomologous ends relationship: part_of GO:0045002 ! double-strand break repair via single-strand annealing [Term] id: GO:0000737 name: DNA catabolic process, endonucleolytic namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of DNA, involving the hydrolysis of internal 3',5'-phosphodiester bonds in one or two strands of deoxyribonucleotides." [GOC:elh, GOC:mah] subset: gosubset_prok synonym: "DNA breakdown, endonucleolytic" EXACT [] synonym: "DNA degradation, endonucleolytic" EXACT [] synonym: "endonucleolytic degradation of DNA" EXACT [] synonym: "endonucleolytic DNA catabolism" EXACT [] is_a: GO:0006308 ! DNA catabolic process [Term] id: GO:0000738 name: DNA catabolic process, exonucleolytic namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of DNA, involving the hydrolysis of terminal 3',5'-phosphodiester bonds in one or two strands of deoxyribonucleotides." [GOC:elh, GOC:mah] subset: gosubset_prok synonym: "DNA breakdown, exonucleolytic" EXACT [] synonym: "DNA degradation, exonucleolytic" EXACT [] synonym: "exonucleolytic degradation of DNA" EXACT [] is_a: GO:0006308 ! DNA catabolic process [Term] id: GO:0000739 name: DNA strand annealing activity namespace: molecular_function def: "Facilitates the base-pairing of complementary single-stranded DNA." [GOC:elh] is_a: GO:0003690 ! double-stranded DNA binding is_a: GO:0003697 ! single-stranded DNA binding [Term] id: GO:0000740 name: nuclear membrane fusion namespace: biological_process def: "The joining of 2 or more lipid bilayer membranes that surround the nucleus." [GOC:elh] is_a: GO:0090174 ! organelle membrane fusion [Term] id: GO:0000741 name: karyogamy namespace: biological_process alt_id: GO:0007335 def: "The creation of a single nucleus from multiple nuclei as a result of fusing the lipid bilayers that surround each nuclei." [GOC:elh] synonym: "nuclear fusion" EXACT [] synonym: "nuclear fusion during karyogamy" EXACT [] xref: Wikipedia:Karyogamy is_a: GO:0048284 ! organelle fusion relationship: part_of GO:0006997 ! nucleus organization [Term] id: GO:0000742 name: karyogamy involved in conjugation with cellular fusion namespace: biological_process def: "During sexual reproduction, the creation of a single nucleus from multiple nuclei as a result of fusing the lipid bilayers that surround each nuclei. This occurs after cytogamy." [GOC:elh] synonym: "karyogamy during conjugation with cellular fusion" RELATED [GOC:dph, GOC:tb] is_a: GO:0000741 ! karyogamy is_a: GO:0048610 ! reproductive cellular process relationship: part_of GO:0000747 ! conjugation with cellular fusion [Term] id: GO:0000743 name: nuclear migration involved in conjugation with cellular fusion namespace: biological_process alt_id: GO:0006946 def: "The net movement of nuclei towards one another as a prelude to karyogamy in organisms undergoing conjugation with cellular fusion." [GOC:clt] synonym: "nuclear congression" BROAD [] synonym: "nuclear migration during conjugation with cellular fusion" RELATED [GOC:dph, GOC:tb] is_a: GO:0030473 ! nuclear migration along microtubule is_a: GO:0048610 ! reproductive cellular process relationship: part_of GO:0000747 ! conjugation with cellular fusion [Term] id: GO:0000744 name: karyogamy involved in conjugation with mutual genetic exchange namespace: biological_process def: "During sexual reproduction, the creation of a single nucleus from multiple nuclei as a result of fusing the lipid bilayers that surround each nuclei. This occurs after the mutual exchange of nuclei." [GOC:elh] synonym: "karyogamy involved in conjugation without cellular fusion" EXACT [GOC:dph, GOC:tb] is_a: GO:0000741 ! karyogamy relationship: part_of GO:0000748 ! conjugation with mutual genetic exchange [Term] id: GO:0000745 name: nuclear migration involved in conjugation with mutual genetic exchange namespace: biological_process def: "The net movement of nuclei towards one another, leading to the bilateral transfer of genetic material in organisms undergoing conjugation without cellular fusion." [GOC:clt, GOC:mah] synonym: "nuclear exchange during conjugation without cellular fusion" RELATED [] synonym: "nuclear migration involved in conjugation without cellular fusion" EXACT [GOC:dph, GOC:tb] is_a: GO:0007097 ! nuclear migration relationship: part_of GO:0000744 ! karyogamy involved in conjugation with mutual genetic exchange [Term] id: GO:0000746 name: conjugation namespace: biological_process def: "The union or introduction of genetic information from compatible mating types that results in a genetically different individual. Conjugation requires direct cellular contact between the organisms." [GOC:elh] subset: goslim_candida subset: goslim_pir subset: goslim_yeast subset: gosubset_prok xref: Wikipedia:Conjugation is_a: GO:0051704 ! multi-organism process [Term] id: GO:0000747 name: conjugation with cellular fusion namespace: biological_process alt_id: GO:0007322 alt_id: GO:0007333 alt_id: GO:0030461 alt_id: GO:0030477 def: "A conjugation process that results in the union of cellular and genetic information from compatible mating types. An example of this process is found in Saccharomyces cerevisiae." [GOC:elh] subset: goslim_pombe synonym: "cell fusion" RELATED [] synonym: "mating" RELATED [] is_a: GO:0000746 ! conjugation is_a: GO:0019953 ! sexual reproduction [Term] id: GO:0000748 name: conjugation with mutual genetic exchange namespace: biological_process def: "A conjugation process that results in the mutual exchange and union of only genetic information between compatible mating types. Conjugation without cellular fusion requires direct cellular contact between the organisms without plasma membrane fusion. The organisms involved in conjugation without cellular fusion separate after nuclear exchange." [GOC:elh] synonym: "conjugation without cellular fusion" EXACT [] is_a: GO:0000746 ! conjugation [Term] id: GO:0000749 name: response to pheromone involved in conjugation with cellular fusion namespace: biological_process alt_id: GO:0007328 alt_id: GO:0030434 def: "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 pheromone stimulus that contributes to the process of conjugation with cellular fusion. An example of this process is found in Saccharomyces cerevisiae." [GOC:clt] synonym: "response to pheromone during conjugation with cellular fusion" RELATED [GOC:dph] is_a: GO:0019236 ! response to pheromone is_a: GO:0070887 ! cellular response to chemical stimulus relationship: part_of GO:0000747 ! conjugation with cellular fusion [Term] id: GO:0000750 name: pheromone-dependent signal transduction involved in conjugation with cellular fusion namespace: biological_process alt_id: GO:0007330 alt_id: GO:0030454 def: "A signal transduction process resulting in the relay, amplification or dampening of a signal generated in response to pheromone exposure in organisms that undergo conjugation with cellular fusion. An example of this process is found in Saccharomyces cerevisiae." [GOC:clt] synonym: "transduction of mating signal" BROAD [] is_a: GO:0007186 ! G-protein coupled receptor protein signaling pathway is_a: GO:0032005 ! regulation of conjugation with cellular fusion by signal transduction relationship: part_of GO:0000749 ! response to pheromone involved in conjugation with cellular fusion [Term] id: GO:0000751 name: cell cycle arrest in response to pheromone namespace: biological_process alt_id: GO:0030571 def: "The process by which the cell cycle is halted during one of the normal phases (G1, S, G2, M) as a result of a pheromone stimulus. An example of this process is found in Saccharomyces cerevisiae." [GOC:clt, GOC:dph, GOC:tb] is_a: GO:0007050 ! cell cycle arrest is_a: GO:0048610 ! reproductive cellular process relationship: part_of GO:0000749 ! response to pheromone involved in conjugation with cellular fusion [Term] id: GO:0000752 name: agglutination involved in conjugation with cellular fusion namespace: biological_process alt_id: GO:0007334 def: "During conjugation with cellular fusion, the aggregation or adhesion of compatible mating types via complementary cell-cell interactions. An example of this process is agglutination in Saccharomyces cerevisiae." [GOC:elh] synonym: "agglutination" BROAD [] synonym: "cell-cell adhesion during conjugation with cellular fusion" EXACT [] synonym: "cell-cell adhesion during mating" EXACT [] is_a: GO:0000771 ! agglutination involved in conjugation is_a: GO:0048610 ! reproductive cellular process relationship: part_of GO:0000749 ! response to pheromone involved in conjugation with cellular fusion [Term] id: GO:0000753 name: cell morphogenesis involved in conjugation with cellular fusion namespace: biological_process alt_id: GO:0007332 def: "The change in form (cell shape and size) that occurs during sexual reproduction in order to facilitate direct contact between the compatible mating types in organisms that undergo conjugation cellular fusion." [GOC:clt] synonym: "shmoo orientation" NARROW [] synonym: "shmooing" NARROW [] is_a: GO:0000767 ! cell morphogenesis involved in conjugation is_a: GO:0003006 ! reproductive developmental process is_a: GO:0048610 ! reproductive cellular process relationship: part_of GO:0000749 ! response to pheromone involved in conjugation with cellular fusion [Term] id: GO:0000754 name: adaptation of signaling pathway by response to pheromone involved in conjugation with cellular fusion namespace: biological_process alt_id: GO:0007331 alt_id: GO:0030453 def: "In organisms that undergo conjugation with cellular fusion, the process resulting in desensitization following exposure to pheromone stimulus that act to down-regulate further stimulation or block initial conjugation responses. An example of this is the adaptation to pheromone during conjugation with cellular fusion in Saccharomyces cerevisiae." [GOC:clt] synonym: "adaptation to pheromone during conjugation with cellular fusion" RELATED [GOC:dph, GOC:tb] synonym: "desensitization to pheromone during conjugation with cellular fusion" EXACT [] is_a: GO:0000749 ! response to pheromone involved in conjugation with cellular fusion is_a: GO:0023058 ! adaptation of signaling pathway [Term] id: GO:0000755 name: cytogamy namespace: biological_process alt_id: GO:0000218 alt_id: GO:0030462 def: "During conjugation with cellular fusion, the process resulting in creating a single cell from complementary mating types. The localized remodeling and dissolution of external protective structures allow the fusion of the plasma membranes and cytoplasmic mixing. An example of this process is found in Saccharomyces cerevisiae." [GOC:elh] synonym: "zygote formation" NARROW [] is_a: GO:0022413 ! reproductive process in single-celled organism relationship: part_of GO:0000747 ! conjugation with cellular fusion [Term] id: GO:0000756 name: response to pheromone involved in conjugation with mutual genetic exchange namespace: biological_process def: "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 pheromone stimulus during the process of conjugation without cellular fusion." [GOC:clt] synonym: "response to pheromone involved in conjugation without cellular fusion" EXACT [GOC:dph, GOC:tb] is_a: GO:0007154 ! cell communication is_a: GO:0019236 ! response to pheromone is_a: GO:0070887 ! cellular response to chemical stimulus relationship: part_of GO:0000748 ! conjugation with mutual genetic exchange [Term] id: GO:0000757 name: signal transduction involved in conjugation with mutual genetic exchange namespace: biological_process def: "A signal transduction process resulting in the relay, amplification or dampening of a signal generated in response to pheromone exposure in organisms that undergo conjugation without cellular fusion." [GOC:clt] synonym: "signal transduction involved in conjugation without cellular fusion" EXACT [GOC:dph, GOC:tb] is_a: GO:0007165 ! signal transduction is_a: GO:0007186 ! G-protein coupled receptor protein signaling pathway relationship: part_of GO:0000756 ! response to pheromone involved in conjugation with mutual genetic exchange [Term] id: GO:0000758 name: agglutination involved in conjugation with mutual genetic exchange namespace: biological_process def: "During conjugation without cellular fusion, the aggregation or adhesion of compatible mating types via complementary cell-cell interactions." [GOC:elh] synonym: "agglutination involved in conjugation without cellular fusion" EXACT [GOC:dph, GOC:tb] is_a: GO:0000771 ! agglutination involved in conjugation relationship: part_of GO:0000756 ! response to pheromone involved in conjugation with mutual genetic exchange [Term] id: GO:0000759 name: cell morphogenesis involved in conjugation with mutual genetic exchange namespace: biological_process def: "The change in form (cell shape and size) that occurs during sexual reproduction in order to facilitate direct contact between the compatible mating types in organisms that undergo conjugation without cellular fusion." [GOC:clt] synonym: "cellular morphogenesis involved in conjugation without cellular fusion" EXACT [GOC:dph, GOC:tb] is_a: GO:0000767 ! cell morphogenesis involved in conjugation relationship: part_of GO:0000756 ! response to pheromone involved in conjugation with mutual genetic exchange [Term] id: GO:0000760 name: adaptation to pheromone involved in conjugation with mutual genetic exchange namespace: biological_process def: "In organisms that undergo conjugation without cellular fusion, the process resulting in desensitization following exposure to pheromone stimulus that act to down-regulate further stimulation or block initial conjugation responses." [GOC:clt] synonym: "adaptation to pheromone involved conjugation without cellular fusion" RELATED [GOC:dph, GOC:tb] synonym: "desensitization to pheromone during conjugation without cellular fusion" EXACT [] is_a: GO:0000756 ! response to pheromone involved in conjugation with mutual genetic exchange is_a: GO:0022401 ! negative adaptation of signaling pathway [Term] id: GO:0000761 name: conjugant formation namespace: biological_process def: "During conjugation without cellular fusion, the process that results in pairing complementary mating types. Localized morphological, cytological, and cytoskeletal changes connect the mating types without cytoplasmic mixing." [GOC:elh] is_a: GO:0016337 ! cell-cell adhesion relationship: part_of GO:0000748 ! conjugation with mutual genetic exchange [Term] id: GO:0000762 name: pheromone-induced unidirectional conjugation namespace: biological_process def: "The process of unidirectional (polarized) transfer of genetic information in response to a pheromone. It involves direct cellular contact between a donor and recipient cell; the contact is followed by the formation of a cellular bridge that physically connects the cells; some or all of the chromosome(s) of one cell ('male') is then transferred into the other cell ('female'); unidirectional conjugation occurs between cells of different mating types." [GOC:elh] is_a: GO:0009291 ! unidirectional conjugation [Term] id: GO:0000763 name: cell morphogenesis involved in unidirectional conjugation namespace: biological_process def: "The change in form (cell shape and size) that occurs during sexual reproduction in order to facilitate direct contact between the compatible mating types in organisms that undergo unidirectional conjugation." [GOC:clt] is_a: GO:0000767 ! cell morphogenesis involved in conjugation relationship: part_of GO:0009291 ! unidirectional conjugation [Term] id: GO:0000764 name: cellular morphogenesis involved in pheromone-induced unidirectional conjugation namespace: biological_process def: "The change in form (cell shape and size) that contributes to sexual reproduction in order to facilitate direct contact between the compatible mating types in organisms that undergo pheromone-induced unidirectional conjugation." [GOC:clt] synonym: "cellular morphogenesis during pheromone-induced unidirectional" RELATED [GOC:dph, GOC:tb] is_a: GO:0000763 ! cell morphogenesis involved in unidirectional conjugation relationship: part_of GO:0000762 ! pheromone-induced unidirectional conjugation [Term] id: GO:0000765 name: response to pheromone involved in pheromone-induced unidirectional conjugation namespace: biological_process def: "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 pheromone stimulus that contributes to the process of pheromone-induced unidirectional conjugation." [GOC:clt] synonym: "response to pheromone during pheromone-induced unidirectional" RELATED [GOC:dph, GOC:tb] is_a: GO:0019236 ! response to pheromone relationship: part_of GO:0000762 ! pheromone-induced unidirectional conjugation [Term] id: GO:0000766 name: negative adaptation of signaling pathway by response to pheromone involved in pheromone-induced unidirectional conjugation namespace: biological_process def: "In organisms that undergo pheromone-induced unidirectional conjugation, the process involved in desensitization following exposure to pheromone stimulus that acts to down-regulate further stimulation or block initial conjugation responses." [GOC:clt] synonym: "adaptation to pheromone during pheromone-induced unidirectional conjugation" RELATED [GOC:dph, GOC:tb] synonym: "desensitization to pheromone during pheromone-induced unidirectional conjugation" EXACT [] is_a: GO:0000765 ! response to pheromone involved in pheromone-induced unidirectional conjugation is_a: GO:0022401 ! negative adaptation of signaling pathway [Term] id: GO:0000767 name: cell morphogenesis involved in conjugation namespace: biological_process def: "The change in form (cell shape and size) that occurs during sexual reproduction in order to facilitate direct contact between the compatible mating types." [GOC:elh] is_a: GO:0000902 ! cell morphogenesis relationship: part_of GO:0000746 ! conjugation [Term] id: GO:0000768 name: syncytium formation by plasma membrane fusion namespace: biological_process def: "The formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by the fusion of the plasma membranes of two or more individual cells." [GOC:mtg_muscle, GOC:tb] synonym: "cell fusion" BROAD [] synonym: "cell-cell fusion" EXACT [] is_a: GO:0006949 ! syncytium formation relationship: has_part GO:0045026 ! plasma membrane fusion [Term] id: GO:0000769 name: syncytium formation by mitosis without cell division namespace: biological_process def: "The formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by one or more rounds of nuclear division without cell division." [GOC:tb] is_a: GO:0006949 ! syncytium formation relationship: has_part GO:0033301 ! cell cycle comprising mitosis without cytokinesis [Term] id: GO:0000770 name: peptide pheromone export namespace: biological_process alt_id: GO:0007325 def: "The directed movement of a peptide pheromone out of a cell by a secretion or export pathway used solely for the export of peptide pheromones." [GOC:elh] synonym: "a-factor export" NARROW [] is_a: GO:0015833 ! peptide transport [Term] id: GO:0000771 name: agglutination involved in conjugation namespace: biological_process def: "The aggregation or adhesion of compatible mating types via complementary cell-cell interactions prior to the formation of irreversible cellular contacts during conjugation." [GOC:elh] is_a: GO:0007157 ! heterophilic cell-cell adhesion relationship: part_of GO:0000746 ! conjugation [Term] id: GO:0000772 name: mating pheromone activity namespace: molecular_function def: "The activity of binding to and activating specific cell surface receptors, thereby inducing a behavioral or physiological response(s) from a responding organism or cell that leads to the transfer or union of genetic material between organisms or cells. The mating pheromone can either be retained on the cell surface or secreted." [GOC:clt, GOC:elh] is_a: GO:0005186 ! pheromone activity [Term] id: GO:0000773 name: phosphatidyl-N-methylethanolamine N-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + phosphatidyl-N-methylethanolamine = S-adenosyl-L-homocysteine + phosphatidyl-N-dimethylethanolamine." [EC:2.1.1.71] subset: gosubset_prok synonym: "methyltransferase II" RELATED [EC:2.1.1.71] synonym: "phosphatidyl-N-methylethanolamine methyltransferase activity" EXACT [EC:2.1.1.71] synonym: "phosphatidyl-N-monomethylethanolamine methyltransferase activity" EXACT [EC:2.1.1.71] synonym: "phosphatidylethanolamine methyltransferase I" RELATED [EC:2.1.1.71] synonym: "phosphatidylmonomethylethanolamine methyltransferase activity" EXACT [EC:2.1.1.71] synonym: "phospholipid methyltransferase activity" EXACT [EC:2.1.1.71] synonym: "PLMT" EXACT [] synonym: "S-adenosyl-L-methionine:phosphatidyl-N-methylethanolamine N-methyltransferase activity" EXACT [EC:2.1.1.71] xref: EC:2.1.1.71 xref: MetaCyc:2.1.1.71-RXN is_a: GO:0008170 ! N-methyltransferase activity is_a: GO:0008757 ! S-adenosylmethionine-dependent methyltransferase activity [Term] id: GO:0000774 name: adenyl-nucleotide exchange factor activity namespace: molecular_function def: "Stimulates the hydrolysis and exchange of adenyl nucleotides by other proteins." [GOC:kd] subset: gosubset_prok is_a: GO:0030554 ! adenyl nucleotide binding is_a: GO:0060590 ! ATPase regulator activity [Term] id: GO:0000775 name: chromosome, centromeric region namespace: cellular_component def: "The region of a chromosome that includes the centromeric DNA and associated proteins. In monocentric chromosomes, this region corresponds to a single area of the chromosome, whereas in holocentric chromosomes, it is evenly distributed along the chromosome." [GOC:elh, GOC:kmv] comment: Note that this term can be used in place of the obsolete cellular component term 'centromere ; GO:0005698'. Use with caution because this term refers to a specific region of the chromosome and not a protein complex. synonym: "centromere" RELATED [] synonym: "chromosome, centric region" EXACT [] synonym: "chromosome, pericentric region" RELATED [] is_a: GO:0044427 ! chromosomal part [Term] id: GO:0000776 name: kinetochore namespace: cellular_component alt_id: GO:0005699 def: "A multisubunit complex that is located at the centromeric region of DNA and provides an attachment point for the spindle microtubules." [GOC:elh] subset: goslim_pir xref: Wikipedia:Kinetochore is_a: GO:0043232 ! intracellular non-membrane-bounded organelle is_a: GO:0043234 ! protein complex is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0000775 ! chromosome, centromeric region [Term] id: GO:0000777 name: condensed chromosome kinetochore namespace: cellular_component def: "A multisubunit complex that is located at the centromeric region of a condensed chromosome and provides an attachment point for the spindle microtubules." [GOC:elh] is_a: GO:0000776 ! kinetochore intersection_of: GO:0000776 ! kinetochore intersection_of: part_of GO:0000793 ! condensed chromosome relationship: part_of GO:0000779 ! condensed chromosome, centromeric region [Term] id: GO:0000778 name: condensed nuclear chromosome kinetochore namespace: cellular_component def: "A multisubunit complex that is located at the centromeric region of a condensed chromosome in the nucleus and provides an attachment point for the spindle microtubules." [GOC:elh] is_a: GO:0000777 ! condensed chromosome kinetochore is_a: GO:0044454 ! nuclear chromosome part intersection_of: GO:0000776 ! kinetochore intersection_of: part_of GO:0000794 ! condensed nuclear chromosome relationship: part_of GO:0000780 ! condensed nuclear chromosome, centromeric region [Term] id: GO:0000779 name: condensed chromosome, centromeric region namespace: cellular_component def: "The region of a condensed chromosome that includes the centromere and associated proteins, including the kinetochore. In monocentric chromosomes, this region corresponds to a single area of the chromosome, whereas in holocentric chromosomes, it is evenly distributed along the chromosome." [GOC:elh, GOC:kmv] comment: Note that this term can be used in place of the obsolete cellular component term 'centromere ; GO:0005698'. Use with caution because this term refers to a specific region of the chromosome and not a protein complex. synonym: "condensed chromosome, centric region" EXACT [] synonym: "condensed chromosome, centromere" RELATED [] synonym: "condensed chromosome, pericentric region" RELATED [] is_a: GO:0000775 ! chromosome, centromeric region intersection_of: GO:0000775 ! chromosome, centromeric region intersection_of: part_of GO:0000793 ! condensed chromosome relationship: part_of GO:0000793 ! condensed chromosome [Term] id: GO:0000780 name: condensed nuclear chromosome, centromeric region namespace: cellular_component def: "The region of a condensed chromosome in the nucleus that includes the centromere and associated proteins, including the kinetochore. In monocentric chromosomes, this region corresponds to a single area of the chromosome, whereas in holocentric chromosomes, it is evenly distributed along the chromosome." [GOC:elh, GOC:kmv] comment: Note that this term can be used in place of the obsolete cellular component term 'centromere ; GO:0005698'. Use with caution because this term refers to a specific region of the chromosome and not a protein complex. synonym: "condensed nuclear chromosome, centric region" EXACT [] synonym: "condensed nuclear chromosome, centromere" RELATED [] synonym: "condensed nuclear chromosome, pericentric region" RELATED [] is_a: GO:0000779 ! condensed chromosome, centromeric region is_a: GO:0044454 ! nuclear chromosome part intersection_of: GO:0000779 ! condensed chromosome, centromeric region intersection_of: part_of GO:0000794 ! condensed nuclear chromosome intersection_of: part_of GO:0005634 ! nucleus relationship: part_of GO:0000794 ! condensed nuclear chromosome [Term] id: GO:0000781 name: chromosome, telomeric region namespace: cellular_component def: "The terminal region of a linear chromosome that includes the telomeric DNA repeats and associated proteins." [GOC:elh] comment: Note that this term can be used in place of the obsolete cellular component term 'telomere ; GO:0005696'. Use with caution because this term refers to a specific region of the chromosome and not a protein complex. synonym: "telomere" RELATED [] is_a: GO:0044427 ! chromosomal part [Term] id: GO:0000782 name: telomere cap complex namespace: cellular_component def: "A complex of DNA and protein located at the end of a linear chromosome that protects and stabilizes a linear chromosome." [GOC:elh] comment: Note that this term can be used in place of the obsolete cellular component term 'telomere ; GO:0005696'. Use with caution because this term refers to a specific protein complex and not a region of the chromosome. subset: goslim_pir subset: gosubset_prok is_a: GO:0032993 ! protein-DNA complex is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0000781 ! chromosome, telomeric region [Term] id: GO:0000783 name: nuclear telomere cap complex namespace: cellular_component def: "A complex of DNA and protein located at the end of a linear chromosome in the nucleus that protects and stabilizes a linear chromosome." [GOC:elh] comment: Note that this term can be used in place of the obsolete cellular component term 'telomere ; GO:0005696'. Use with caution because this term refers to a specific protein complex and not a region of the chromosome. is_a: GO:0000782 ! telomere cap complex is_a: GO:0044454 ! nuclear chromosome part intersection_of: GO:0000782 ! telomere cap complex intersection_of: part_of GO:0005634 ! nucleus relationship: part_of GO:0000784 ! nuclear chromosome, telomeric region [Term] id: GO:0000784 name: nuclear chromosome, telomeric region namespace: cellular_component def: "The terminal region of a linear chromosome in the nucleus that includes the telomeric DNA repeats and associated proteins." [GOC:elh] comment: Note that this term can be used in place of the obsolete cellular component term 'telomere ; GO:0005696'. Use with caution because this term refers to a specific region of the chromosome and not a protein complex. synonym: "nuclear chromosome, telomere" EXACT [] is_a: GO:0000781 ! chromosome, telomeric region is_a: GO:0044454 ! nuclear chromosome part intersection_of: GO:0000781 ! chromosome, telomeric region intersection_of: part_of GO:0005634 ! nucleus [Term] id: GO:0000785 name: chromatin namespace: cellular_component alt_id: GO:0005717 def: "The ordered and organized complex of DNA and protein that forms the chromosome." [GOC:elh] synonym: "chromosome scaffold" RELATED [] xref: NIF_Subcellular:sao1615953555 is_a: GO:0044427 ! chromosomal part [Term] id: GO:0000786 name: nucleosome namespace: cellular_component alt_id: GO:0005718 def: "A complex comprised of DNA wound around a multisubunit core and associated proteins, which forms the primary packing unit of DNA into higher order structures." [GOC:elh] subset: goslim_pir xref: Wikipedia:Nucleosome is_a: GO:0032993 ! protein-DNA complex is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0000785 ! chromatin [Term] id: GO:0000787 name: cytoplasmic nucleosome namespace: cellular_component def: "A complex comprised of DNA wound around a multisubunit core and associated proteins, which forms the primary packing unit of DNA in the cytoplasm into higher order structures." [GOC:elh] is_a: GO:0000786 ! nucleosome is_a: GO:0044444 ! cytoplasmic part intersection_of: GO:0000786 ! nucleosome intersection_of: part_of GO:0005737 ! cytoplasm relationship: part_of GO:0000789 ! cytoplasmic chromatin [Term] id: GO:0000788 name: nuclear nucleosome namespace: cellular_component def: "A complex comprised of DNA wound around a multisubunit core and associated proteins, which forms the primary packing unit of DNA in the nucleus into higher order structures." [GOC:elh] is_a: GO:0000786 ! nucleosome is_a: GO:0044454 ! nuclear chromosome part intersection_of: GO:0000786 ! nucleosome intersection_of: part_of GO:0005634 ! nucleus relationship: part_of GO:0000790 ! nuclear chromatin [Term] id: GO:0000789 name: cytoplasmic chromatin namespace: cellular_component def: "The ordered and organized complex of DNA and protein that forms the chromosome in the cytoplasm." [GOC:elh] is_a: GO:0000785 ! chromatin is_a: GO:0044444 ! cytoplasmic part intersection_of: GO:0000785 ! chromatin intersection_of: part_of GO:0005737 ! cytoplasm relationship: part_of GO:0000229 ! cytoplasmic chromosome [Term] id: GO:0000790 name: nuclear chromatin namespace: cellular_component def: "The ordered and organized complex of DNA and protein that forms the chromosome in the nucleus." [GOC:elh] is_a: GO:0000785 ! chromatin is_a: GO:0044454 ! nuclear chromosome part intersection_of: GO:0000785 ! chromatin intersection_of: part_of GO:0005634 ! nucleus [Term] id: GO:0000791 name: euchromatin namespace: cellular_component def: "A dispersed and relatively uncompacted form of chromatin." [GOC:elh] xref: NIF_Subcellular:sao445485807 xref: Wikipedia:Euchromatin is_a: GO:0000785 ! chromatin [Term] id: GO:0000792 name: heterochromatin namespace: cellular_component def: "A compact and highly condensed form of chromatin." [GOC:elh] xref: NIF_Subcellular:sao581845896 xref: Wikipedia:Heterochromatin is_a: GO:0000785 ! chromatin [Term] id: GO:0000793 name: condensed chromosome namespace: cellular_component def: "A highly compacted molecule of DNA and associated proteins resulting in a cytologically distinct structure." [GOC:elh] comment: Note that this term can be used to annotate gene products that localize to a mitotic chromosome in an organism that undergoes an 'open mitosis' in which the nuclear envelope breaks down during mitosis. synonym: "cytoplasmic mitotic chromosome" RELATED [] synonym: "metaphase chromosome" RELATED [] synonym: "mitotic chromosome" RELATED [] is_a: GO:0005694 ! chromosome [Term] id: GO:0000794 name: condensed nuclear chromosome namespace: cellular_component def: "A highly compacted molecule of DNA and associated proteins resulting in a cytologically distinct structure that remains in the nucleus." [GOC:elh] comment: Note that this term and its children can be used to annotate gene products that localize to a mitotic chromosome in an organism that undergoes a 'closed mitosis' in which the nuclear envelope does not break down during mitosis and for gene products that localize to a meiotic chromosome. synonym: "meiotic chromosome" RELATED [] synonym: "nuclear mitotic chromosome" RELATED [] is_a: GO:0000228 ! nuclear chromosome is_a: GO:0000793 ! condensed chromosome intersection_of: GO:0000793 ! condensed chromosome intersection_of: part_of GO:0005634 ! nucleus [Term] id: GO:0000795 name: synaptonemal complex namespace: cellular_component alt_id: GO:0005716 def: "A proteinaceous scaffold found between homologous chromosomes during meiosis." [GOC:elh] xref: Wikipedia:Synaptonemal_complex is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000794 ! condensed nuclear chromosome [Term] id: GO:0000796 name: condensin complex namespace: cellular_component alt_id: GO:0005676 alt_id: GO:0008620 def: "A multisubunit protein complex that plays a central role in chromosome condensation." [GOC:elh] subset: goslim_pir synonym: "13S condensin complex" NARROW [] synonym: "SMC complex" RELATED [] is_a: GO:0043234 ! protein complex is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0000793 ! condensed chromosome [Term] id: GO:0000797 name: condensin core heterodimer namespace: cellular_component alt_id: GO:0008621 def: "The core heterodimer of a condensin complex, a multisubunit protein complex that plays a central role in chromosome condensation." [GOC:elh] synonym: "8S condensin complex" NARROW [] synonym: "Smc2-Smc4 complex" NARROW [] is_a: GO:0043234 ! protein complex is_a: GO:0044427 ! chromosomal part intersection_of: GO:0043234 ! protein complex intersection_of: part_of GO:0000796 ! condensin complex relationship: part_of GO:0000796 ! condensin complex [Term] id: GO:0000798 name: nuclear cohesin complex namespace: cellular_component def: "A cohesin complex required for cohesion between sister chromatids that remain in the nucleus." [GOC:elh] comment: Note that this term and its children should be used to annotate gene products found in cohesin complexes in organisms that undergo closed mitosis (i.e. where the nuclear envelope does not break down, as in fungi). For organisms in which the nuclear envelope breaks down during mitosis, the parent should be used. is_a: GO:0008278 ! cohesin complex is_a: GO:0044454 ! nuclear chromosome part intersection_of: GO:0008278 ! cohesin complex intersection_of: part_of GO:0005634 ! nucleus relationship: part_of GO:0000794 ! condensed nuclear chromosome [Term] id: GO:0000799 name: nuclear condensin complex namespace: cellular_component def: "A multisubunit protein complex that plays a central role in the condensation of chromosomes that remain in the nucleus." [GOC:elh] is_a: GO:0000796 ! condensin complex is_a: GO:0044454 ! nuclear chromosome part intersection_of: GO:0000796 ! condensin complex intersection_of: part_of GO:0005634 ! nucleus relationship: part_of GO:0000794 ! condensed nuclear chromosome [Term] id: GO:0000800 name: lateral element namespace: cellular_component def: "A proteinaceous core found between sister chromatids during meiotic prophase." [GOC:elh] synonym: "axial element" EXACT [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000795 ! synaptonemal complex [Term] id: GO:0000801 name: central element namespace: cellular_component def: "A structural unit of the synaptonemal complex found between the lateral elements." [GOC:elh] is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000795 ! synaptonemal complex [Term] id: GO:0000802 name: transverse filament namespace: cellular_component def: "A structural unit of the synaptonemal complex that spans the regions between the lateral elements and connects them." [GOC:elh] is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000795 ! synaptonemal complex [Term] id: GO:0000803 name: sex chromosome namespace: cellular_component def: "A chromosome involved in sex determination." [GOC:elh] is_a: GO:0005694 ! chromosome [Term] id: GO:0000804 name: W chromosome namespace: cellular_component def: "The sex chromosome present in females of species in which the female is the heterogametic sex; generally, the sex chromosome that pairs with the Z chromosome in the heterogametic sex. The W chromosome is absent from the cells of males and present in one copy in the somatic cells of females." [GOC:mah, ISBN:0321000382] xref: Wikipedia:ZW_sex-determination_system is_a: GO:0000803 ! sex chromosome [Term] id: GO:0000805 name: X chromosome namespace: cellular_component def: "The sex chromosome present in both sexes of species in which the male is the heterogametic sex. Two copies of the X chromosome are present in each somatic cell of females and one copy is present in males." [GOC:mah, ISBN:0582227089] xref: Wikipedia:X_chromosome is_a: GO:0000803 ! sex chromosome [Term] id: GO:0000806 name: Y chromosome namespace: cellular_component def: "The sex chromosome present in males of species in which the male is the heterogametic sex; generally, the sex chromosome that pairs with the X chromosome in the heterogametic sex. The Y chromosome is absent from the cells of females and present in one copy in the somatic cells of males." [GOC:mah, ISBN:0582227089] xref: Wikipedia:Y_chromosome is_a: GO:0000803 ! sex chromosome [Term] id: GO:0000807 name: Z chromosome namespace: cellular_component def: "The sex chromosome present in both sexes of species in which the female is the heterogametic sex. Two copies of the Z chromosome are present in each somatic cell of males and one copy is present in females." [GOC:mah, ISBN:0321000382] xref: Wikipedia:ZW_sex-determination_system is_a: GO:0000803 ! sex chromosome [Term] id: GO:0000808 name: origin recognition complex namespace: cellular_component def: "A multisubunit complex that is located at the replication origins of a chromosome." [GOC:elh] subset: goslim_pir subset: gosubset_prok synonym: "ORC" EXACT [] synonym: "origin of replication recognition complex" EXACT [] xref: Wikipedia:Origin_recognition_complex is_a: GO:0043234 ! protein complex is_a: GO:0044427 ! chromosomal part [Term] id: GO:0000809 name: cytoplasmic origin of replication recognition complex namespace: cellular_component def: "A multisubunit complex that is located at the replication origins of a chromosome in the cytoplasm." [GOC:elh] subset: gosubset_prok synonym: "cytoplasmic ORC" EXACT [] synonym: "prokaryotic ORC" RELATED [] is_a: GO:0000808 ! origin recognition complex is_a: GO:0044444 ! cytoplasmic part intersection_of: GO:0000808 ! origin recognition complex intersection_of: part_of GO:0005737 ! cytoplasm relationship: part_of GO:0000229 ! cytoplasmic chromosome [Term] id: GO:0000810 name: diacylglycerol pyrophosphate phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: diacylglycerol pyrophosphate + H20 = 3-sn-phosphatidate + phosphate." [EC:3.6.1.-, PMID:8567632, PMID:9452443] synonym: "DGPP phosphatase activity" EXACT [] synonym: "DGPP phosphohydrolase activity" EXACT [] is_a: GO:0016462 ! pyrophosphatase activity [Term] id: GO:0000811 name: GINS complex namespace: cellular_component def: "A heterotetrameric protein complex that associates with replication origins, where it is required for the initiation of DNA replication, and with replication forks." [GOC:rn, PMID:12730134, PMID:16990792, PMID:17467990] synonym: "Go, Ichi, Ni and San complex" EXACT [] is_a: GO:0043234 ! protein complex is_a: GO:0044454 ! nuclear chromosome part [Term] id: GO:0000812 name: Swr1 complex namespace: cellular_component def: "A multisubunit protein complex that is involved in chromatin remodeling. It is required for the incorporation of the histone variant H2AZ into chromatin. In S. cerevisiae, the complex contains Swr1p, a Swi2/Snf2-related ATPase, and 12 additional subunits." [PMID:14645854, PMID:14690608] synonym: "SWR-C" EXACT [] is_a: GO:0016585 ! chromatin remodeling complex relationship: part_of GO:0000790 ! nuclear chromatin [Term] id: GO:0000813 name: ESCRT I complex namespace: cellular_component def: "An endosomal sorting complex required for transport. It consists of the class E vacuolar protein sorting (Vps) proteins and interacts with ubiquitinated cargoes." [GOC:rb, PMID:12892785, PMID:12900393] synonym: "Endosomal Sorting Complex Required for Transport" BROAD [] is_a: GO:0043234 ! protein complex is_a: GO:0044425 ! membrane part is_a: GO:0044440 ! endosomal part relationship: part_of GO:0010008 ! endosome membrane [Term] id: GO:0000814 name: ESCRT II complex namespace: cellular_component def: "An endosomal sorting complex required for transport and functions downstream of ESCRT I complex. It consists of the class E vacuolar protein sorting (Vps) proteins and is required for the membrane recruitment of ESCRT III complex and binds to ubiquitinated cargoes." [GOC:rb, PMID:12892785, PMID:12900393] synonym: "Endosomal Sorting Complex Required for Transport" BROAD [] is_a: GO:0043234 ! protein complex is_a: GO:0044425 ! membrane part is_a: GO:0044440 ! endosomal part relationship: part_of GO:0010008 ! endosome membrane [Term] id: GO:0000815 name: ESCRT III complex namespace: cellular_component def: "An endosomal sorting complex required for transport. Consists of two soluble subcomplexes of highly charged coiled-coil proteins and is required for sorting and/or concentration of multivesicular body (MVB) cargoes." [GOC:rb, PMID:12892785, PMID:12900393] synonym: "Endosomal Sorting Complex Required for Transport" BROAD [] is_a: GO:0043234 ! protein complex is_a: GO:0044425 ! membrane part is_a: GO:0044440 ! endosomal part relationship: part_of GO:0010008 ! endosome membrane [Term] id: GO:0000816 name: nicotinamide riboside kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + nicotinamide riboside = ADP + nicotinamide nucleotide (NMN)." [PMID:15137942] is_a: GO:0019206 ! nucleoside kinase activity [Term] id: GO:0000817 name: COMA complex namespace: cellular_component def: "A multiprotein complex in yeast consisting of Ctf19p, Okp1p, Mcm21p, and Ame1p. This complex bridges the subunits that are in contact with centromeric DNA and the subunits bound to microtubules during kinetochore assembly." [GOC:se, PMID:14633972] synonym: "Ctf19p-Okp1p-Mcm1p-Ame1p complex" EXACT [] is_a: GO:0043234 ! protein complex is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000778 ! condensed nuclear chromosome kinetochore [Term] id: GO:0000818 name: nuclear MIS12/MIND type complex namespace: cellular_component def: "A multiprotein kinetochore subcomplex that binds to centromeric chromatin and forms part of the inner kinetochore of a chromosome in the nucleus. It helps to recruit outer kinetochore subunits that will bind to microtubules. Nuclear localization arises in some organisms because the nuclear envelope is not broken down during mitosis. In S. cerevisiae, it consists of at least four proteins: Mtw1p, Nnf1p, Nsl1p, and Dsn1." [GOC:krc, GOC:se, PMID:14633972] synonym: "MIND complex" EXACT [] synonym: "Mtw1p Including Nnf1p-Nsl1p-Dsn1p complex" EXACT [] is_a: GO:0000444 ! MIS12/MIND type complex is_a: GO:0044454 ! nuclear chromosome part intersection_of: GO:0000444 ! MIS12/MIND type complex intersection_of: part_of GO:0005634 ! nucleus relationship: part_of GO:0000778 ! condensed nuclear chromosome kinetochore [Term] id: GO:0000819 name: sister chromatid segregation namespace: biological_process def: "The process by which sister chromatids are organized and then physically separated and apportioned to two or more sets." [GOC:ai, GOC:elh] is_a: GO:0007059 ! chromosome segregation is_a: GO:0022402 ! cell cycle process is_a: GO:0051276 ! chromosome organization [Term] id: GO:0000820 name: regulation of glutamine family amino acid metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving amino acids of the glutamine family, comprising arginine, glutamate, glutamine and proline." [GOC:go_curators] synonym: "regulation of glutamine family amino acid metabolism" EXACT [] is_a: GO:0006521 ! regulation of cellular amino acid metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009064 ! glutamine family amino acid metabolic process relationship: regulates GO:0009064 ! glutamine family amino acid metabolic process [Term] id: GO:0000821 name: regulation of arginine metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving arginine, 2-amino-5-(carbamimidamido)pentanoic acid." [ChEBI:29016, GOC:go_curators] synonym: "regulation of arginine metabolism" EXACT [] is_a: GO:0000820 ! regulation of glutamine family amino acid metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006525 ! arginine metabolic process relationship: regulates GO:0006525 ! arginine metabolic process [Term] id: GO:0000822 name: inositol hexakisphosphate binding namespace: molecular_function def: "Interacting selectively and non-covalently with inositol hexakisphosphate." [GOC:go_curators] synonym: "InsP6 binding" EXACT [] synonym: "IP6 binding" EXACT [] is_a: GO:0043178 ! alcohol binding [Term] id: GO:0000823 name: inositol trisphosphate 6-kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 1D-myo-inositol 1,4,5-trisphosphate = ADP + 1D-myo-inositol 1,4,5,6-tetrakisphosphate." [GOC:elh] synonym: "ATP:1D-myo-inositol-1,4,5-trisphosphate 6-phosphotransferase activity" EXACT [] synonym: "EC:2.7.1.151" BROAD [] synonym: "inositol polyphosphate multikinase activity" BROAD [] synonym: "IpmK" BROAD [] is_a: GO:0051766 ! inositol trisphosphate kinase activity [Term] id: GO:0000824 name: inositol tetrakisphosphate 3-kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 1D-myo-inositol 1,4,5,6-tetrakisphosphate = ADP + 1D-myo-inositol 1,3,4,5,6-pentakisphosphate." [GOC:elh] synonym: "1D-myo-inositol-tetrakisphosphate 3-kinase activity" EXACT [] synonym: "EC:2.7.1.151" BROAD [] synonym: "inositol 1,4,5,6-tetrakisphosphate 3-kinase activity" EXACT [] synonym: "inositol polyphosphate multikinase activity" BROAD [] synonym: "IpmK" BROAD [] is_a: GO:0051765 ! inositol tetrakisphosphate kinase activity [Term] id: GO:0000825 name: inositol tetrakisphosphate 6-kinase activity namespace: molecular_function def: "Catalysis of the reaction: 1D-myo-inositol 1,3,4,5-tetrakisphosphate + ATP = 1D-myo-inositol 1,3,4,5,6-pentakisphosphate + ADP." [GOC:elh] synonym: "1D-myo-inositol-tetrakisphosphate 6-kinase activity" EXACT [] synonym: "inositol 1,3,4,5-tetrakisphosphate 6-kinase activity" EXACT [] is_a: GO:0051765 ! inositol tetrakisphosphate kinase activity [Term] id: GO:0000826 name: inositol pyrophosphate synthase activity namespace: molecular_function def: "Catalysis of the phosphorylation of inositol phosphates which possess pyrophosphate bonds." [GOC:elh, PMID:16429326] synonym: "inositol diphosphate synthase activity" EXACT [] is_a: GO:0004428 ! inositol or phosphatidylinositol kinase activity is_a: GO:0016776 ! phosphotransferase activity, phosphate group as acceptor [Term] id: GO:0000827 name: inositol 1,3,4,5,6-pentakisphosphate kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 1D-myo-inositol 1,3,4,5,6-pentakisphosphate = ADP + diphospho-1D-myo-inositol tetrakisphosphate (isomeric configuration unknown)." [GOC:elh, PMID:11311242] synonym: "EC:2.7.4.21" BROAD [] is_a: GO:0000826 ! inositol pyrophosphate synthase activity [Term] id: GO:0000828 name: inositol hexakisphosphate kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 1D-myo-inositol hexakisphosphate (IP6) = ADP + diphospho-1D-myo-inositol-pentakisphosphate (PP-IP5; isomer unknown)." [GOC:elh, PMID:16429326] xref: MetaCyc:2.7.1.152-RXN is_a: GO:0000826 ! inositol pyrophosphate synthase activity [Term] id: GO:0000829 name: inositol heptakisphosphate kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + diphospho-1D-myo-inositol-pentakisphosphate (PP-IP5; isomer unknown) = ADP + bis(diphospho)-1D-myo-inositol-tetrakisphosphate (bis-PP-IP4; isomer unknown)." [GOC:elh, PMID:16429326] is_a: GO:0000826 ! inositol pyrophosphate synthase activity [Term] id: GO:0000830 name: inositol hexakisphosphate 4-kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 1D-myo-inositol hexakisphosphate = ADP + 4-diphospho-1D-myo-inositol (1,2,3,5,6)pentakisphosphate." [GOC:elh, PMID:16429326] is_a: GO:0033187 ! inositol hexakisphosphate 4-kinase or 6-kinase activity [Term] id: GO:0000831 name: inositol hexakisphosphate 6-kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 1D-myo-inositol hexakisphosphate = ADP + 6-diphospho-1D-myo-inositol (1,2,3,4,5)pentakisphosphate." [GOC:elh, PMID:16429326] is_a: GO:0033187 ! inositol hexakisphosphate 4-kinase or 6-kinase activity [Term] id: GO:0000832 name: inositol hexakisphosphate 5-kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 1D-myo-inositol hexakisphosphate = ADP + 5-diphospho-1D-myo-inositol (1,2,3,4,6)pentakisphosphate." [GOC:elh, PMID:16429326] synonym: "ATP:1D-myo-inositol-hexakisphosphate 5-phosphotransferase activity" EXACT [] synonym: "EC:2.7.4.21" BROAD [] is_a: GO:0000828 ! inositol hexakisphosphate kinase activity [Term] id: GO:0000833 name: inositol heptakisphosphate 4-kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 5-diphospho-1D-myo-inositol (1,2,3,4,6)pentakisphosphate = 4,5-bisdiphosphoinositol-1D-myoinositol (1,2,3,6)tetrakisphosphate." [GOC:elh, PMID:16429326] synonym: "diphosphoinositol-pentakisphosphate 4-kinase activity" EXACT [] synonym: "IP7 4-kinase activity" EXACT [] is_a: GO:0033199 ! inositol heptakisphosphate 4-kinase or 6-kinase activity [Term] id: GO:0000834 name: inositol heptakisphosphate 6-kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 5-diphospho-1D-myo-inositol (1,2,3,4,6)pentakisphosphate = 5,6-bisdiphosphoinositol-1D-myoinositol (1,2,3,4)tetrakisphosphate." [GOC:elh, PMID:16429326] is_a: GO:0033199 ! inositol heptakisphosphate 4-kinase or 6-kinase activity [Term] id: GO:0000835 name: ER ubiquitin ligase complex namespace: cellular_component def: "A ubiquitin ligase complex found in the ER." [GOC:elh] is_a: GO:0000153 ! cytoplasmic ubiquitin ligase complex is_a: GO:0044425 ! membrane part is_a: GO:0044432 ! endoplasmic reticulum part intersection_of: GO:0000151 ! ubiquitin ligase complex intersection_of: part_of GO:0005783 ! endoplasmic reticulum relationship: part_of GO:0005789 ! endoplasmic reticulum membrane [Term] id: GO:0000836 name: Hrd1p ubiquitin ligase complex namespace: cellular_component def: "A multiprotein complex that recognizes and ubiquitinates proteins with misfolded luminal and membrane domains during ER-associated protein degradation (ERAD). In S. cerevisiae, this complex contains the ubiquitin ligase Hrd1p." [GOC:elh, PMID:16873066] is_a: GO:0000835 ! ER ubiquitin ligase complex [Term] id: GO:0000837 name: Doa10p ubiquitin ligase complex namespace: cellular_component def: "A multiprotein complex that recognizes and ubiquitinates membranes proteins with misfolded cytosolic domains during ER-associated protein degradation (ERAD). In S. cerevisiae, this complex contains the ubiquitin ligase Ssm4p/Doa10p." [GOC:elh, PMID:16873066] synonym: "Ssm4p ubiquitin ligase complex" EXACT [] is_a: GO:0000835 ! ER ubiquitin ligase complex [Term] id: GO:0000838 name: Hrd1p ubiquitin ligase ERAD-M complex namespace: cellular_component def: "A multiprotein complex that recognizes and ubiquitinates proteins with misfolded membrane domains during ER-associated protein degradation (ERAD). In S. cerevisiae, this complex contains the ubiquitin ligase Hrd1p." [GOC:elh, PMID:16873066] is_a: GO:0000836 ! Hrd1p ubiquitin ligase complex [Term] id: GO:0000839 name: Hrd1p ubiquitin ligase ERAD-L complex namespace: cellular_component def: "A multiprotein complex that recognizes and ubiquitinates proteins with misfolded luminal domains during ER-associated protein degradation (ERAD). In S. cerevisiae, this complex contains the ubiquitin ligase Hrd1p." [GOC:elh, PMID:16873065, PMID:16873066] is_a: GO:0000836 ! Hrd1p ubiquitin ligase complex [Term] id: GO:0000900 name: translation repressor activity, nucleic acid binding namespace: molecular_function def: "Antagonizes the ribosome-mediated translation of mRNA into a polypeptide via direct binding to nucleic acid." [GOC:clt] is_a: GO:0030371 ! translation repressor activity is_a: GO:0090079 ! translation regulator activity, nucleic acid binding [Term] id: GO:0000901 name: translation repressor activity, non-nucleic acid binding namespace: molecular_function def: "Antagonizes the ribosome-mediated translation of mRNA into a polypeptide but does not bind directly to nucleic acid." [GOC:clt] is_a: GO:0030371 ! translation repressor activity is_a: GO:0045183 ! translation factor activity, non-nucleic acid binding [Term] id: GO:0000902 name: cell morphogenesis namespace: biological_process alt_id: GO:0007148 alt_id: GO:0045790 alt_id: GO:0045791 def: "The developmental process by which the size or shape of a cell is generated and organized. Morphogenesis pertains to the creation of form." [GOC:clt, GOC:dph, GOC:go_curators, GOC:tb] subset: gosubset_prok synonym: "cellular morphogenesis" EXACT [] is_a: GO:0032989 ! cellular component morphogenesis [Term] id: GO:0000903 name: cell morphogenesis during vegetative growth phase namespace: biological_process def: "The change in cell shape that occurs during the vegetative growth phase. The vegetative growth phase is the growth phase during which single celled organisms reproduce by budding or other asexual methods." [GOC:clt, GOC:go_curators] synonym: "cellular morphogenesis during vegetative growth" EXACT [GOC:dph, GOC:tb] is_a: GO:0000902 ! cell morphogenesis [Term] id: GO:0000904 name: cell morphogenesis involved in differentiation namespace: biological_process def: "The change in form (cell shape and size) that occurs when relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history." [GOC:go_curators] is_a: GO:0000902 ! cell morphogenesis relationship: part_of GO:0048468 ! cell development [Term] id: GO:0000905 name: sporocarp development involved in asexual reproduction namespace: biological_process def: "The formation of a spore-bearing structure by fungus where spores will arise from asexual reproduction." [GOC:clt, GOC:mtg_sensu] synonym: "conidium development" NARROW [] synonym: "fruiting body formation involved in asexual reproduction" BROAD [] synonym: "haploid fruiting" RELATED [] synonym: "homokaryotic fruiting" RELATED [] synonym: "imperfect stage fruiting body development" NARROW [] synonym: "monokaryotic fruiting" RELATED [] is_a: GO:0030584 ! sporocarp development relationship: part_of GO:0019954 ! asexual reproduction [Term] id: GO:0000906 name: 6,7-dimethyl-8-ribityllumazine synthase activity namespace: molecular_function def: "Catalysis of the reaction: 3,4-dihydroxy-2-butanone 4-phosphate + 5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione = 6,7-dimethyl-8-ribityllumazine + phosphate." [EC:5.4.-.-, PMID:7559556] synonym: "lumazine synthase activity" BROAD [MetaCyc:LUMAZINESYN-CPLX] xref: EC:5.4.-.- is_a: GO:0016867 ! intramolecular transferase activity, transferring acyl groups [Term] id: GO:0000907 name: sulfonate dioxygenase activity namespace: molecular_function def: "Catalysis of the reaction: sulfonate + 2-oxoglutarate + O2 = SO3(2-) (sulfite) + aminoacetaldehyde + succinate + CO2." [EC:1.14.11.-, GOC:clt, PMID:10482536] subset: gosubset_prok synonym: "sulfonate/alpha-ketoglutarate dioxygenase activity" EXACT [] synonym: "sulphonate dioxygenase activity" EXACT [] xref: EC:1.14.11.- is_a: GO:0016706 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors [Term] id: GO:0000908 name: taurine dioxygenase activity namespace: molecular_function def: "Catalysis of the reaction: taurine + 2-oxoglutarate + O2 = SO3(2-) (sulfite) + aminoacetaldehyde + succinate + CO2." [EC:1.14.11.17, MetaCyc:RXN0-299] subset: gosubset_prok synonym: "2-aminoethanesulfonate dioxygenase activity" EXACT [EC:1.14.11.17] synonym: "alpha-ketoglutarate-dependent taurine dioxygenase activity" EXACT [EC:1.14.11.17] synonym: "taurine, 2-oxoglutarate:O2 oxidoreductase (sulfite-forming)" EXACT [EC:1.14.11.17] xref: EC:1.14.11.17 xref: MetaCyc:RXN0-299 is_a: GO:0000907 ! sulfonate dioxygenase activity [Term] id: GO:0000909 name: sporocarp development involved in sexual reproduction namespace: biological_process def: "The process whose specific outcome is the progression of a fruiting body organ over time, from its formation to the mature structure. The fruiting body is a spore bearing structure. In fungi, the sporocarp (also known as fruiting body) is a multicellular structure on which spore-producing structures, such as basidia or asci, are borne. The fruiting body is part of the sexual phase of a fungal life cycle, with the rest of the life cycle being characterized by vegetative mycelial growth. The sporocarp of a basidiomycete is known as a basidiocarp, while the fruiting body of an ascomycete is known as an ascocarp. A significant range of different shapes and morphologies is found in both basidiocarps and ascocarps; these features play an important role in the identification and taxonomy of fungi." [GOC:clt, GOC:mtg_sensu] synonym: "ascus development" NARROW [] synonym: "fruiting body development involved in sexual reproduction" BROAD [] synonym: "fruiting body formation involved in sexual reproduction" BROAD [] synonym: "perfect stage fruiting body development" NARROW [] is_a: GO:0030584 ! sporocarp development relationship: part_of GO:0019953 ! sexual reproduction [Term] id: GO:0000910 name: cytokinesis namespace: biological_process alt_id: GO:0007104 alt_id: GO:0016288 def: "A cellular process resulting in the division of the cytoplasm of a cell and its separation into two daughter cells. Cytokinesis usually occurs after growth, replication, and segregation of cellular components." [GOC:ai] subset: goslim_candida subset: goslim_pombe subset: goslim_yeast subset: gosubset_prok xref: Reactome:563366 "Mitotic Telophase /Cytokinesis" xref: Reactome:588987 "Mitotic Telophase /Cytokinesis" xref: Reactome:609703 "Mitotic Telophase /Cytokinesis" xref: Reactome:634401 "Mitotic Telophase /Cytokinesis" xref: Reactome:645864 "Mitotic Telophase /Cytokinesis" xref: Reactome:656182 "Mitotic Telophase /Cytokinesis" xref: Reactome:661326 "Mitotic Telophase /Cytokinesis" xref: Reactome:673252 "Mitotic Telophase /Cytokinesis" xref: Reactome:678938 "Mitotic Telophase /Cytokinesis" xref: Reactome:683860 "Mitotic Telophase /Cytokinesis" xref: Reactome:68884 "Mitotic Telophase /Cytokinesis" xref: Reactome:690112 "Mitotic Telophase /Cytokinesis" xref: Reactome:720937 "Mitotic Telophase /Cytokinesis" xref: Reactome:728389 "Mitotic Telophase /Cytokinesis" xref: Wikipedia:Cytokinesis is_a: GO:0051301 ! cell division [Term] id: GO:0000911 name: cytokinesis by cell plate formation namespace: biological_process def: "The process of dividing the cytoplasm of a parent cell where a structure forms in the cytoplasm and grows until reaching the plasma membrane, thereby completely separating the cytoplasms of adjacent progeny cells. An example of this is found in Arabidopsis thaliana." [GOC:clt] is_a: GO:0033205 ! cell cycle cytokinesis [Term] id: GO:0000912 name: assembly of actomyosin apparatus involved in cell cycle cytokinesis namespace: biological_process def: "The assembly and arrangement of an apparatus composed of actin, myosin, and associated proteins that will function in cytokinesis." [GOC:clt, GOC:mah] synonym: "actomyosin apparatus assembly involved in cytokinesis" EXACT [GOC:mah] synonym: "cytokinesis, formation of actomyosin apparatus" EXACT [GOC:dph, GOC:tb] synonym: "formation of actomyosin apparatus involved in cytokinesis" RELATED [GOC:dph] is_a: GO:0022607 ! cellular component assembly is_a: GO:0031032 ! actomyosin structure organization is_a: GO:0032506 ! cytokinetic process relationship: part_of GO:0033205 ! cell cycle cytokinesis [Term] id: GO:0000913 name: preprophase band assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form the preprophase band, a dense band of microtubules that marks the position in the cell where cytokinesis will occur in cells that perform cytokinesis by cell plate formation." [GOC:clt, GOC:mah] synonym: "preprophase band formation" RELATED [GOC:mah] is_a: GO:0007105 ! cytokinesis, site selection is_a: GO:0022607 ! cellular component assembly relationship: part_of GO:0000911 ! cytokinesis by cell plate formation [Term] id: GO:0000914 name: phragmoplast assembly namespace: biological_process def: "The formation of a structure composed of actin, myosin, and associated proteins that will function in cytokinesis in cells that perform cytokinesis by cell plate formation. The structure usually contains antiparallel microtubules and membrane (often visible as vesicles)." [GOC:clt] synonym: "phragmoplast formation" RELATED [goc:dph] is_a: GO:0000912 ! assembly of actomyosin apparatus involved in cell cycle cytokinesis relationship: part_of GO:0000911 ! cytokinesis by cell plate formation [Term] id: GO:0000915 name: cytokinesis, actomyosin contractile ring assembly namespace: biological_process alt_id: GO:0045573 def: "The process of assembly of a ring composed of actin, myosin, and associated proteins that will function in cytokinesis." [GOC:clt, GOC:dph, GOC:tb] synonym: "constriction ring assembly" NARROW [] synonym: "contractile ring assembly" EXACT [GOC:ascb_2009, GOC:dph, GOC:tb] synonym: "cytokinesis, actomyosin contractile ring formation" RELATED [GOC:ascb_2009, GOC:dph, GOC:tb] synonym: "cytokinesis, actomyosin ring biosynthesis" RELATED [] synonym: "cytokinesis, actomyosin ring formation" RELATED [] synonym: "cytokinesis, contractile ring assembly" RELATED [GOC:mah] is_a: GO:0000912 ! assembly of actomyosin apparatus involved in cell cycle cytokinesis [Term] id: GO:0000916 name: contractile ring contraction involved in cell cycle cytokinesis namespace: biological_process def: "The process of an actomyosin ring getting smaller in diameter, in the context of cytokinesis that takes place as part of a cell cycle." [GOC:clt, GOC:dph, GOC:mah, GOC:tb] synonym: "contractile ring constriction" EXACT [GOC:ascb_2009, GOC:dph, GOC:tb] synonym: "cytokinesis, actomyosin ring contraction" EXACT [] synonym: "cytokinesis, contractile ring contraction" EXACT [GOC:dph, GOC:tb] is_a: GO:0032506 ! cytokinetic process relationship: part_of GO:0033205 ! cell cycle cytokinesis [Term] id: GO:0000917 name: barrier septum formation namespace: biological_process def: "The assembly and arrangement of a septum that spans the plasma membrane interface between progeny cells following cytokinesis. The progeny cells that form a barrier septum are not able to exchange intracellular material." [GOC:clt, GOC:mah] synonym: "barrier septum assembly" EXACT [GOC:mah] synonym: "formation of barrier septum" EXACT [] synonym: "septation" BROAD [] synonym: "septin assembly and septum biosynthesis" RELATED [] synonym: "septin assembly and septum formation" RELATED [] is_a: GO:0022607 ! cellular component assembly is_a: GO:0032506 ! cytokinetic process [Term] id: GO:0000918 name: selection of site for barrier septum formation namespace: biological_process def: "The process of marking the site where a barrier septum will form." [GOC:clt] synonym: "selection of site for barrier cell septum biosynthesis" EXACT [] synonym: "selection of site for barrier cell septum formation" EXACT [] synonym: "septin assembly and septum biosynthesis" BROAD [] synonym: "septin assembly and septum formation" BROAD [] synonym: "septum positioning" EXACT [] is_a: GO:0032506 ! cytokinetic process relationship: part_of GO:0000917 ! barrier septum formation [Term] id: GO:0000919 name: cell plate assembly namespace: biological_process def: "The process of assembly, maturation, and growth of the cell plate to the cell periphery in cells that divide by cell plate formation; often involves deposition of cell wall material in and around the phragmoplast." [GOC:clt] synonym: "cell plate formation" RELATED [GOC:mah] is_a: GO:0022607 ! cellular component assembly is_a: GO:0032506 ! cytokinetic process relationship: part_of GO:0000911 ! cytokinesis by cell plate formation [Term] id: GO:0000920 name: cytokinetic cell separation namespace: biological_process def: "The process of physically separating progeny cells during cytokinesis; this may involve enzymatic digestion of septum or cell wall components." [GOC:clt] synonym: "cell separation during cytokinesis" RELATED [GOC:dph, GOC:tb] synonym: "rotokinesis" NARROW [] is_a: GO:0032506 ! cytokinetic process [Term] id: GO:0000921 name: septin ring assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of septins and associated proteins to form an organized structure resembling a ring at the cell cortex." [GOC:clt] subset: gosubset_prok synonym: "septin assembly and septum biosynthesis" BROAD [] synonym: "septin assembly and septum formation" BROAD [] is_a: GO:0043623 ! cellular protein complex assembly relationship: part_of GO:0031106 ! septin ring organization [Term] id: GO:0000922 name: spindle pole namespace: cellular_component alt_id: GO:0030615 def: "Either of the ends of a spindle, where spindle microtubules are organized; usually contains a microtubule organizing center and accessory molecules, spindle microtubules and astral microtubules." [GOC:clt] is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0005819 ! spindle [Term] id: GO:0000923 name: equatorial microtubule organizing center namespace: cellular_component def: "A microtubule organizing center formed by a band of gamma-tubulin that is recruited to a circumferential band of F-actin at the midpoint of a cell and which nucleates microtubules from the cell division site at the end of mitosis." [PMID:11792817] synonym: "EMTOC" EXACT [] synonym: "equatorial microtubule organising centre" EXACT [] is_a: GO:0005815 ! microtubule organizing center is_a: GO:0032155 ! cell division site part intersection_of: GO:0005815 ! microtubule organizing center intersection_of: part_of GO:0032153 ! cell division site [Term] id: GO:0000924 name: gamma-tubulin ring complex, centrosomal namespace: cellular_component alt_id: GO:0000925 alt_id: GO:0000926 def: "A centrosome-localized multiprotein complex composed of gamma-tubulin and other non-tubulin proteins assembled into a ring structure that is thought to be the unit of nucleation at the minus end of a microtubule. Gamma-tubulin small complexes are thought to be the core repeating units of the ring." [GOC:clt, GOC:mtg_sensu, PMID:12134075, PMID:17021256] synonym: "gamma-tubulin large complex, centrosomal" EXACT [] is_a: GO:0008274 ! gamma-tubulin ring complex intersection_of: GO:0008274 ! gamma-tubulin ring complex intersection_of: part_of GO:0000242 ! pericentriolar material relationship: part_of GO:0000242 ! pericentriolar material [Term] id: GO:0000927 name: gamma-tubulin small complex, centrosomal namespace: cellular_component def: "A centrosomal complex usually comprising two gamma-tubulin molecules, at least two conserved non-tubulin proteins that multimerize along with additional non-tubulin proteins in animal cells into larger functional complexes. Gamma-tubulin small complexes are thought to be the repeating unit making up the core of the gamma-tubulin ring complex. An example of this structure is found in Mus musculus." [GOC:mtg_sensu, PMID:12134075] is_a: GO:0008275 ! gamma-tubulin small complex [Term] id: GO:0000928 name: gamma-tubulin small complex, spindle pole body namespace: cellular_component def: "A complex composed of two gamma-tubulin molecules and conserved non-tubulin proteins isolated by fractionation from cells. The complex, approximately 6S-9S, is analogous to the small complex in animal cells but contains fewer subunits, and is not thought to multimerize into larger functional units, like complexes in those organisms. An example of this structure is found in Saccharomyces cerevisiae." [GOC:mtg_sensu, PMID:12134075] synonym: "Tub4 complex" EXACT [] is_a: GO:0008275 ! gamma-tubulin small complex intersection_of: GO:0008275 ! gamma-tubulin small complex intersection_of: part_of GO:0005816 ! spindle pole body relationship: part_of GO:0005816 ! spindle pole body [Term] id: GO:0000930 name: gamma-tubulin complex namespace: cellular_component def: "A multiprotein complex composed of gamma-tubulin and other non-tubulin proteins. Gamma-tubulin complexes are localized to microtubule organizing centers, and play an important role in the nucleation of microtubules. The number and complexity of non-tubulin proteins associated with these complexes varies between species." [GOC:clt, PMID:12134075] subset: goslim_pir is_a: GO:0043234 ! protein complex is_a: GO:0044450 ! microtubule organizing center part [Term] id: GO:0000931 name: gamma-tubulin large complex namespace: cellular_component alt_id: GO:0000929 def: "A complex of gamma tubulin and associated proteins thought to be formed by multimerization of gamma-tubulin small complexes. An example of this structure is found in Schizosaccharomyces pombe." [GOC:mtg_sensu, PMID:12134075] is_a: GO:0000930 ! gamma-tubulin complex [Term] id: GO:0000932 name: cytoplasmic mRNA processing body namespace: cellular_component def: "A focus in the cytoplasm where mRNAs may become inactivated by decapping or some other mechanism. mRNA processing and binding proteins are localized to these foci." [GOC:clt, PMID:12730603] synonym: "cytoplasmic foci" RELATED [] synonym: "P body" EXACT [] synonym: "P-body" EXACT [] xref: Wikipedia:P_body is_a: GO:0030529 ! ribonucleoprotein complex is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0000933 name: adventitious septum namespace: cellular_component def: "A cell septum whose formation is independent of nuclear division." [GOC:clt, ISBN:0471940526] is_a: GO:0030428 ! cell septum [Term] id: GO:0000934 name: porous cell septum namespace: cellular_component def: "A septum or cross wall which does not entirely span the space between two portions of cell wall and may contain a specialized central pore structure. A porous septum allows the movement of organelles and/or cytoplasm between compartments." [GOC:clt] synonym: "porous septum" BROAD [] is_a: GO:0030428 ! cell septum [Term] id: GO:0000935 name: barrier septum namespace: cellular_component def: "A septum which spans a cell and does not allow exchange of organelles or cytoplasm between compartments." [GOC:clt] synonym: "complete septum" EXACT [] is_a: GO:0030428 ! cell septum [Term] id: GO:0000936 name: primary cell septum namespace: cellular_component def: "A cell septum that forms following nuclear division." [GOC:clt, ISBN:0471940526] synonym: "primary septum" BROAD [] is_a: GO:0030428 ! cell septum [Term] id: GO:0000937 name: dolipore septum namespace: cellular_component def: "A septum, or cross-wall, between two portions of a cell or hypha; contains a central pore around which the septum is swollen to form a barrel-shaped structure; pore is covered on each side of the septum by a septal pore cap (parenthosome)." [GOC:clt] is_a: GO:0000934 ! porous cell septum [Term] id: GO:0000938 name: GARP complex namespace: cellular_component def: "A quatrefoil tethering complex required for retrograde traffic from the early endosome back to the late Golgi and biogenesis of cytoplasmic vesicles." [GOC:clt, GOC:rn, PMID:10637310, PMID:12077354, PMID:12446664] synonym: "Golgi associated retrograde protein complex" EXACT [] synonym: "VFT tethering complex" EXACT [] synonym: "Vps fifty three tethering complex" EXACT [] is_a: GO:0043234 ! protein complex is_a: GO:0044431 ! Golgi apparatus part is_a: GO:0044433 ! cytoplasmic vesicle part relationship: part_of GO:0016023 ! cytoplasmic membrane-bounded vesicle [Term] id: GO:0000939 name: inner kinetochore of condensed chromosome namespace: cellular_component def: "The region of a condensed chromosome kinetochore closest to centromeric DNA; in mammals the CREST antigens (CENP proteins) are found in this layer; this layer may help define underlying centromeric chromatin structure and position of the kinetochore on the chromosome." [GOC:clt, PMID:10619130, PMID:11483983] synonym: "inner centromere core complex" RELATED [] synonym: "inner kinetochore plate" NARROW [] is_a: GO:0043234 ! protein complex is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0000777 ! condensed chromosome kinetochore [Term] id: GO:0000940 name: outer kinetochore of condensed chromosome namespace: cellular_component def: "The region of a condensed chromosome kinetochore most external to centromeric DNA; this outer region mediates kinetochore-microtubule interactions." [GOC:clt, PMID:11483983] synonym: "outer kinetochore plate" NARROW [] is_a: GO:0043234 ! protein complex is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0000777 ! condensed chromosome kinetochore [Term] id: GO:0000941 name: inner kinetochore of condensed nuclear chromosome namespace: cellular_component def: "The region of a condensed nuclear chromosome kinetochore closest to centromeric DNA; this layer may help define underlying centromeric chromatin structure and position of the kinetochore on the chromosome." [GOC:clt, PMID:10619130, PMID:1148398] is_a: GO:0000939 ! inner kinetochore of condensed chromosome is_a: GO:0044454 ! nuclear chromosome part intersection_of: GO:0000939 ! inner kinetochore of condensed chromosome intersection_of: part_of GO:0000778 ! condensed nuclear chromosome kinetochore relationship: part_of GO:0000778 ! condensed nuclear chromosome kinetochore [Term] id: GO:0000942 name: outer kinetochore of condensed nuclear chromosome namespace: cellular_component def: "The region of a condensed nuclear chromosome kinetochore most external to centromeric DNA; this outer region mediates kinetochore-microtubule interactions." [GOC:clt, PMID:1148398] is_a: GO:0000940 ! outer kinetochore of condensed chromosome is_a: GO:0044454 ! nuclear chromosome part intersection_of: GO:0000940 ! outer kinetochore of condensed chromosome intersection_of: part_of GO:0000778 ! condensed nuclear chromosome kinetochore relationship: part_of GO:0000778 ! condensed nuclear chromosome kinetochore [Term] id: GO:0000943 name: retrotransposon nucleocapsid namespace: cellular_component def: "A complex of the retrotransposon RNA genome, reverse transcriptase, integrase, and associated molecules required for reproduction and integration of the retrotransposon into the host genome; the main structural molecule of the nucleocapsid is often a gag protein homolog." [GOC:clt, PMID:10861903] synonym: "Virus-like particle" EXACT [] synonym: "VLP" EXACT [] xref: Wikipedia:Virus-like_particle is_a: GO:0044428 ! nuclear part [Term] id: GO:0000944 name: base pairing with rRNA namespace: molecular_function def: "Interacting selectively and non-covalently with ribosomal ribonucleic acid (rRNA) via hydrogen bonds between the bases of a gene product molecule and the bases of a target rRNA molecule." [GOC:krc] comment: Note that with respect to annotation, "base pairing with RNA" and its child terms are intended to be used to annotate the activity of gene products composed of nucleic acid, presumably RNA, to interact with other RNA molecules via base pairing. Internal base pairing with itself is considered part of the secondary structure of the molecule and is not within the scope of GO function. is_a: GO:0000498 ! base pairing with RNA is_a: GO:0019843 ! rRNA binding [Term] id: GO:0000945 name: base pairing with snRNA namespace: molecular_function def: "Interacting selectively and non-covalently with small nuclear ribonucleic acid (snRNA) via hydrogen bonds between the bases of a gene product molecule and the bases of a target snRNA molecule." [GOC:krc] comment: Note that with respect to annotation, "base pairing with RNA" and its child terms are intended to be used to annotate the activity of gene products composed of nucleic acid, presumably RNA, to interact with other RNA molecules via base pairing. Internal base pairing with itself is considered part of the secondary structure of the molecule and is not within the scope of GO function. is_a: GO:0000498 ! base pairing with RNA is_a: GO:0017069 ! snRNA binding [Term] id: GO:0000946 name: base pairing with tRNA namespace: molecular_function def: "Interacting selectively and non-covalently with transfer ribonucleic acid (mRNA) via hydrogen bonds between the bases of a gene product molecule and the bases of a target tRNA molecule." [GOC:krc] comment: Note that with respect to annotation, "base pairing with RNA" and its child terms are intended to be used to annotate the activity of gene products composed of nucleic acid, presumably RNA, to interact with other RNA molecules via base pairing. Internal base pairing with itself is considered part of the secondary structure of the molecule and is not within the scope of GO function. is_a: GO:0000049 ! tRNA binding is_a: GO:0000498 ! base pairing with RNA [Term] id: GO:0000947 name: amino acid catabolic process to alcohol via Ehrlich pathway namespace: biological_process def: "The chemical reactions and pathways involving the catabolism of amino acids to produce alcohols with one carbon less than the starting amino acid. In S. cerevisiae, this is known to occur for leucine, isoleucine, valine, methionine, phenylalanine, tyrosine, or tryptophan. Often referred to as the Ehrlich pathway, these reactions generally occur during fermentation to produce a variety of alcohols, often collectively referred to as fusel alcohols. Depending on the redox state of the cells, carboxylic acid derivatives may be produced instead of alcohols." [GOC:krc, PMID:18281432] is_a: GO:0000955 ! amino acid catabolic process via Ehrlich pathway is_a: GO:0046165 ! alcohol biosynthetic process [Term] id: GO:0000948 name: amino acid catabolic process to carboxylic acid via Ehrlich pathway namespace: biological_process def: "The chemical reactions and pathways involving the catabolism of amino acids to produce carboxylic acids with one carbon less than the starting amino acid. In S. cerevisiae, this is known to occur for leucine, isoleucine, valine, methionine, phenylalanine, tyrosine, or tryptophan. Often referred to as the Ehrlich pathway, these reactions generally occur during fermentation to produce a variety of carboxylic acids, sometimes collectively referred to as fusel acids. Depending on the redox state of the cells, alcohol derivatives may be produced instead of carboxylic acids." [GOC:krc, PMID:18281432] is_a: GO:0000955 ! amino acid catabolic process via Ehrlich pathway is_a: GO:0046394 ! carboxylic acid biosynthetic process [Term] id: GO:0000949 name: aromatic amino acid family catabolic process to alcohol via Ehrlich pathway namespace: biological_process def: "The chemical reactions and pathways involving the catabolism of aromatic amino acids to produce aromatic alcohols with one carbon less than the starting amino acid. In S. cerevisiae, this is known to occur for leucine, isoleucine, valine, methionine, phenylalanine, tyrosine, or tryptophan. When an aromatic family amino acid, phenylalanine, tyrosine, or tryptophan, is used as the substrate, 2-phenylethanol, 4-hydroxyphenylethanol, or tryptophol, respectively, is produced. Often referred to as the Ehrlich pathway, these reactions generally occur during fermentation to produce a variety of alcohols, often collectively referred to as fusel alcohols. Depending on the redox state of the cells, carboxylic acid derivatives may be produced instead of alcohols." [GOC:krc, PMID:18281432] is_a: GO:0000947 ! amino acid catabolic process to alcohol via Ehrlich pathway is_a: GO:0009074 ! aromatic amino acid family catabolic process [Term] id: GO:0000950 name: branched chain family amino acid catabolic process to alcohol via Ehrlich pathway namespace: biological_process def: "The chemical reactions and pathways involving the catabolism of branched chain amino acids to produce branched chain alcohols with one carbon less than the starting amino acid. In S. cerevisiae, this is known to occur for leucine, isoleucine, valine, methionine, phenylalanine, tyrosine, or tryptophan. When a branched chain family amino acid, leucine, isoleucine, or valine, is used as the substrate, 3-methylbutanol, 2-methylbutanol, or 2-methylpropanol, respectively, is produced. Often referred to as the Ehrlich pathway, these reactions generally occur during fermentation to produce a variety of alcohols, often collectively referred to as fusel alcohols. Depending on the redox state of the cells, carboxylic acid derivatives may be produced instead of alcohols." [GOC:krc, PMID:18281432] is_a: GO:0000947 ! amino acid catabolic process to alcohol via Ehrlich pathway is_a: GO:0009083 ! branched chain family amino acid catabolic process [Term] id: GO:0000951 name: methionine catabolic process to 3-methylthiopropanol namespace: biological_process def: "The chemical reactions and pathways involving the catabolism of branched chain amino acids to produce branched chain alcohols with one carbon less than the starting amino acid. In S. cerevisiae, this is known to occur for leucine, isoleucine, valine, methionine, phenylalanine, tyrosine, or tryptophan. When methionine is used as the substrate, 3-methylthiopropanol is produced. Often referred to as the Ehrlich pathway, these reactions generally occur during fermentation to produce a variety of alcohols, often collectively referred to as fusel alcohols. Depending on the redox state of the cells, carboxylic acid derivatives may be produced instead of alcohols." [GOC:krc, PMID:18281432] is_a: GO:0000947 ! amino acid catabolic process to alcohol via Ehrlich pathway is_a: GO:0009087 ! methionine catabolic process [Term] id: GO:0000952 name: aromatic amino acid family catabolic process to carboxylic acid via Ehrlich pathway namespace: biological_process def: "The chemical reactions and pathways involving the catabolism of amino acids to produce carboxylic acids with one carbon less than the starting amino acid. In S. cerevisiae, this is known to occur for leucine, isoleucine, valine, methionine, phenylalanine, tyrosine, or tryptophan. When an aromatic family amino acid, phenylalanine, tyrosine, or tryptophan, is used as the substrate, 2-phenylethanoate, 4-hydroxyphenylethanoate, or 2-(Indol-3-yl)-ethanoate, respectively, is produced. Often referred to as the Ehrlich pathway, these reactions generally occur during fermentation to produce a variety of carboxylic acids, sometimes collectively referred to as fusel acids. Depending on the redox state of the cells, alcohol derivatives may be produced instead of carboxylic acids." [GOC:krc, PMID:18281432] is_a: GO:0000948 ! amino acid catabolic process to carboxylic acid via Ehrlich pathway is_a: GO:0009074 ! aromatic amino acid family catabolic process [Term] id: GO:0000953 name: branched chain family amino acid catabolic process to carboxylic acid via Ehrlich pathway namespace: biological_process def: "The chemical reactions and pathways involving the catabolism of amino acids to produce carboxylic acids with one carbon less than the starting amino acid. In S. cerevisiae, this is known to occur for leucine, isoleucine, valine, methionine, phenylalanine, tyrosine, or tryptophan. When a branched chain family amino acid, leucine, isoleucine, or valine, is used as the substrate, 3-methylbutanoate, 2-methylbutanoate, or 2-methylpropanoate, respectively, is produced. Often referred to as the Ehrlich pathway, these reactions generally occur during fermentation to produce a variety of carboxylic acids, sometimes collectively referred to as fusel acids. Depending on the redox state of the cells, alcohol derivatives may be produced instead of carboxylic acids." [GOC:krc, PMID:18281432] is_a: GO:0000948 ! amino acid catabolic process to carboxylic acid via Ehrlich pathway is_a: GO:0009083 ! branched chain family amino acid catabolic process [Term] id: GO:0000954 name: methionine catabolic process to 3-methylthiopropanoate namespace: biological_process def: "The chemical reactions and pathways involving the catabolism of amino acids to produce carboxylic acids with one carbon less than the starting amino acid. In S. cerevisiae, this is known to occur for leucine, isoleucine, valine, methionine, phenylalanine, tyrosine, or tryptophan. When methionine is used as the substrate, 3-methylthiopropanoate is produced. Often referred to as the Ehrlich pathway, these reactions generally occur during fermentation to produce a variety of carboxylic acids, sometimes collectively referred to as fusel acids. Depending on the redox state of the cells, alcohol derivatives may be produced instead of carboxylic acids." [GOC:krc, PMID:18281432] is_a: GO:0000948 ! amino acid catabolic process to carboxylic acid via Ehrlich pathway is_a: GO:0009087 ! methionine catabolic process [Term] id: GO:0000955 name: amino acid catabolic process via Ehrlich pathway namespace: biological_process def: "The chemical reactions and pathways involving the catabolism of amino acids to produce alcohols or carboxylic acids containing one carbon less than the starting amino acid. In S. cerevisiae, this is known to occur for leucine, isoleucine, valine, methionine, phenylalanine, tyrosine, or tryptophan. Often referred to as the Ehrlich pathway, these reactions generally occur during fermentation to produce a variety of alcohols, often collectively referred to as fusel alcohols. Depending on the redox state of the cells, carboxylic acid derivatives, sometimes referred to as fusel acids, may be produced instead of alcohols." [GOC:krc, PMID:18281432] is_a: GO:0009063 ! cellular amino acid catabolic process [Term] id: GO:0000956 name: nuclear-transcribed mRNA catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of nuclear-transcribed mRNAs in eukaryotic cells." [GOC:krc] synonym: "nuclear mRNA breakdown" EXACT [] synonym: "nuclear mRNA catabolism" EXACT [] synonym: "nuclear mRNA degradation" EXACT [] is_a: GO:0006402 ! mRNA catabolic process [Term] id: GO:0000957 name: mitochondrial RNA catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of RNA transcribed from the mitochondrial genome and occurring in the mitochondrion." [GOC:krc, GOC:mah] is_a: GO:0000959 ! mitochondrial RNA metabolic process is_a: GO:0006401 ! RNA catabolic process [Term] id: GO:0000958 name: mitochondrial mRNA catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of mRNA transcribed from the mitochondrial genome and occurring in the mitochondrion." [GOC:krc, GOC:mah] is_a: GO:0000957 ! mitochondrial RNA catabolic process is_a: GO:0006402 ! mRNA catabolic process [Term] id: GO:0000959 name: mitochondrial RNA metabolic process namespace: biological_process def: "The chemical reactions and pathways involving RNA transcribed from the mitochondrial genome and occurring in the mitochondrion." [GOC:krc, GOC:mah] is_a: GO:0016070 ! RNA metabolic process [Term] id: GO:0000960 name: regulation of mitochondrial RNA catabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving catabolism in the mitochondrion of RNA transcribed from the mitochondrial genome." [GOC:krc, GOC:mah] is_a: GO:0031329 ! regulation of cellular catabolic process is_a: GO:0051252 ! regulation of RNA metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0000957 ! mitochondrial RNA catabolic process relationship: regulates GO:0000957 ! mitochondrial RNA catabolic process [Term] id: GO:0000961 name: negative regulation of mitochondrial RNA catabolic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of the chemical reactions and pathways involving catabolism in the mitochondrion of RNA transcribed from the mitochondrial genome." [GOC:krc, GOC:mah] is_a: GO:0000960 ! regulation of mitochondrial RNA catabolic process is_a: GO:0031330 ! negative regulation of cellular catabolic process is_a: GO:0051253 ! negative regulation of RNA metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0000957 ! mitochondrial RNA catabolic process relationship: negatively_regulates GO:0000957 ! mitochondrial RNA catabolic process [Term] id: GO:0000962 name: positive regulation of mitochondrial RNA catabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving catabolism in the mitochondrion of RNA transcribed from the mitochondrial genome." [GOC:krc, GOC:mah] is_a: GO:0000960 ! regulation of mitochondrial RNA catabolic process is_a: GO:0031331 ! positive regulation of cellular catabolic process is_a: GO:0051254 ! positive regulation of RNA metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0000957 ! mitochondrial RNA catabolic process relationship: positively_regulates GO:0000957 ! mitochondrial RNA catabolic process [Term] id: GO:0000963 name: mitochondrial RNA processing namespace: biological_process def: "The conversion of a primary RNA molecule transcribed from a mitochondrial genome into one or more mature RNA molecules; occurs in the mitochondrion." [GOC:krc, GOC:mah] is_a: GO:0000959 ! mitochondrial RNA metabolic process is_a: GO:0006396 ! RNA processing [Term] id: GO:0000964 name: mitochondrial RNA 5'-end processing namespace: biological_process def: "Any process involved in forming the mature 5' end of an RNA molecule transcribed from a mitochondrial genome; occurs in the mitochondrion." [GOC:krc, GOC:mah] synonym: "mitochondrial RNA 5' end processing" RELATED [] is_a: GO:0000963 ! mitochondrial RNA processing is_a: GO:0000966 ! RNA 5'-end processing [Term] id: GO:0000965 name: mitochondrial RNA 3'-end processing namespace: biological_process def: "Any process involved in forming the mature 3' end of an RNA molecule transcribed from a mitochondrial genome; occurs in the mitochondrion." [GOC:krc, GOC:mah] synonym: "mitochondrial RNA 3' end processing" RELATED [] is_a: GO:0000963 ! mitochondrial RNA processing is_a: GO:0031123 ! RNA 3'-end processing [Term] id: GO:0000966 name: RNA 5'-end processing namespace: biological_process def: "Any process involved in forming the mature 5' end of an RNA molecule." [GOC:krc] synonym: "RNA 5' end processing" EXACT [] is_a: GO:0006396 ! RNA processing [Term] id: GO:0000967 name: rRNA 5'-end processing namespace: biological_process def: "Any process involved in forming the mature 5' end of an rRNA molecule." [GOC:krc] synonym: "rRNA 5' end processing" EXACT [] is_a: GO:0034471 ! ncRNA 5'-end processing [Term] id: GO:0000968 name: tRNA exon ligation namespace: biological_process def: "The process by which the two exons of a pre-tRNA which has had the intron removed are rejoined." [GOC:krc] is_a: GO:0000378 ! RNA exon ligation relationship: part_of GO:0006388 ! tRNA splicing, via endonucleolytic cleavage and ligation created_by: kchris creation_date: 2009-04-28T10:22:40Z [Term] id: GO:0000969 name: tRNA exon ligation utilizing ATP as source of linkage phosphate namespace: biological_process def: "The process by which the two exons of a pre-tRNA which has had the intron removed are rejoined where the splice junction phosphate is derived from exogenous ATP. This type of ligation to rejoin the 5' and 3' exons of a tRNA is observed in vertebrate species." [GOC:krc, PMID:17786051] is_a: GO:0000968 ! tRNA exon ligation created_by: kchris creation_date: 2009-04-28T10:29:37Z [Term] id: GO:0000970 name: tRNA exon ligation utilizing GTP as source of linkage phosphate namespace: biological_process def: "The process by which the two exons of a pre-tRNA which has had the intron removed are rejoined where the splice junction phosphate is derived from exogenous GTP. This type of ligation to rejoin the 5' and 3' exons of a tRNA is observed in the yeast Saccharomyces cerevisiae where the ligation reaction also produces a 2'-phosphate at the splice junction which is subsequently removed as part of the ligation process." [GOC:krc, PMID:18217203, PMID:9299409] is_a: GO:0000968 ! tRNA exon ligation created_by: kchris creation_date: 2009-04-28T10:33:25Z [Term] id: GO:0000971 name: tRNA exon ligation utilizing 2',3' cyclic phosphate of 5'-exon as source of linkage phosphate namespace: biological_process def: "The process by which the two exons of a pre-tRNA which has had the intron removed are rejoined where the splice junction phosphate is derived from the 2',3' cyclic phosphate at the 3'-end of the 5'-exon. This type of ligation to rejoin the 5' and 3' exons of a tRNA is observed in wheat, Chlamydomonas, and vertebrate species including humans." [GOC:krc, PMID:17786051, PMID:18217203, PMID:9299409] is_a: GO:0000968 ! tRNA exon ligation created_by: kchris creation_date: 2009-04-28T10:36:17Z [Term] id: GO:0000972 name: transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery namespace: biological_process def: "The process by which the DNA sequence containing a gene transcribed by RNA polymerase II is maintained in a specific location at the nuclear periphery. In S. cerevisiae, this process involves cis-acting DNA sequences such as the TATA box and upstream activating sequence (UAS) elements, trans-acting transcriptional activators, and also the 3'-UTR of the transcript." [GOC:krc, PMID:18614049] is_a: GO:0051276 ! chromosome organization created_by: kchris creation_date: 2009-09-10T12:25:11Z [Term] id: GO:0000973 name: posttranscriptional tethering of RNA polymerase II gene DNA at nuclear periphery namespace: biological_process def: "The process by which the DNA sequence containing a gene transcribed by RNA polymerase II is maintained in a specific location at the nuclear periphery even after transcription has been repressed." [GOC:krc, PMID:17373856, PMID:18614049] is_a: GO:0000972 ! transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery created_by: kchris creation_date: 2009-09-10T12:28:04Z [Term] id: GO:0000974 name: Prp19 complex namespace: cellular_component def: "A protein complex consisting of Prp19 and associated proteins that is involved in the transition from the precatalytic spliceosome to the activated form that catalyzes step 1 of splicing, and which remains associated with the spliceosome through the second catalytic step. It is widely conserved, found in both yeast and mammals, though the exact composition varies. In S. cerevisiae, it contains Prp19p, Ntc20p, Snt309p, Isy1p, Syf2p, Cwc2p, Prp46p, Clf1p, Cef1p, and Syf1p." [GOC:krc, PMID:16540691, PMID:19239890] synonym: "nineteen complex" NARROW [] synonym: "NTC" RELATED [] synonym: "Prp19/CDC5 complex" NARROW [] is_a: GO:0043234 ! protein complex created_by: kchris creation_date: 2009-10-12T10:01:30Z [Term] id: GO:0001100 name: negative regulation of exit from mitosis namespace: biological_process def: "Any process involved in the inhibition of progression from anaphase/telophase (high mitotic CDK activity) to G1 (low mitotic CDK activity)." [GOC:rn] synonym: "down regulation of exit from mitosis" EXACT [] synonym: "down-regulation of exit from mitosis" EXACT [] synonym: "downregulation of exit from mitosis" EXACT [] synonym: "inhibition of exit from mitosis" NARROW [] is_a: GO:0007096 ! regulation of exit from mitosis is_a: GO:0010948 ! negative regulation of cell cycle process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0010458 ! exit from mitosis relationship: negatively_regulates GO:0010458 ! exit from mitosis [Term] id: GO:0001101 name: response to acid namespace: biological_process def: "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 an acid stimulus." [GOC:rn] is_a: GO:0042221 ! response to chemical stimulus [Term] id: GO:0001300 name: chronological cell aging namespace: biological_process def: "The process associated with progression of the cell from its inception to the end of its lifespan that occurs when the cell is in a non-dividing, or quiescent, state." [GOC:jh, PMID:12044934] synonym: "chronological cell ageing" EXACT [] is_a: GO:0007569 ! cell aging [Term] id: GO:0001301 name: progressive alteration of chromatin involved in cell aging namespace: biological_process def: "The chromatin modification process that occurs during the lifespan of the cell that results in changes in chromatin structure. Such changes may lead to gene dysregulation and ultimately to a loss in cell homeostasis, bringing about an aging phenotype." [GOC:jh, PMID:12044938] synonym: "age-dependent accumulation of genetic damage" RELATED [] synonym: "progressive alteration of chromatin during cell ageing" EXACT [] synonym: "progressive alteration of chromatin during cell aging" RELATED [GOC:dph, GOC:tb] is_a: GO:0016568 ! chromatin modification relationship: part_of GO:0007569 ! cell aging [Term] id: GO:0001302 name: replicative cell aging namespace: biological_process def: "The process associated with progression of the cell from its inception to the end of its lifespan that occurs as the cell continues cycles of growth and division." [GOC:jh, PMID:12044934] synonym: "replicative cell ageing" EXACT [] is_a: GO:0007569 ! cell aging [Term] id: GO:0001303 name: nucleolar fragmentation involved in replicative aging namespace: biological_process def: "Process of enlargement and fragmentation of the nucleolus into multiple rounded structures that occurs in conjunction with increasing age in dividing cells." [GOC:jh, PMID:9891807] synonym: "nucleolar fragmentation during replicative ageing" RELATED [] synonym: "nucleolar fragmentation during replicative aging" RELATED [GOC:dph, GOC:tb] is_a: GO:0007576 ! nucleolar fragmentation relationship: part_of GO:0001302 ! replicative cell aging [Term] id: GO:0001304 name: progressive alteration of chromatin involved in replicative cell aging namespace: biological_process def: "The process by which changes in chromatin structure contributing to replicative cell aging occurs." [GOC:dph, GOC:jh, GOC:tb] synonym: "progressive alteration of chromatin during replicative cell ageing" EXACT [] synonym: "progressive alteration of chromatin during replicative cell aging" RELATED [GOC:dph, GOC:tb] is_a: GO:0001301 ! progressive alteration of chromatin involved in cell aging relationship: part_of GO:0001302 ! replicative cell aging [Term] id: GO:0001305 name: progressive alteration of chromatin involved in chronological cell aging namespace: biological_process def: "The process by which changes in chromatin structure contributing to chronological cell aging occur in non-dividing cells." [GOC:dph, GOC:jh, GOC:tb] synonym: "progressive alteration of chromatin during chronological cell ageing" RELATED [] synonym: "progressive alteration of chromatin during chronological cell aging" RELATED [GOC:dph, GOC:tb] is_a: GO:0001301 ! progressive alteration of chromatin involved in cell aging relationship: part_of GO:0001300 ! chronological cell aging [Term] id: GO:0001306 name: age-dependent response to oxidative stress namespace: biological_process def: "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 oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, where the change varies according to the age of the cell or organism." [GOC:jh, PMID:12044938] is_a: GO:0006979 ! response to oxidative stress is_a: GO:0007571 ! age-dependent general metabolic decline [Term] id: GO:0001307 name: extrachromosomal circular DNA accumulation involved in replicative cell aging namespace: biological_process def: "Increase in abundance of circular DNA molecules in dividing cells as they age. These molecules originate in the chromosome but are excised and circularized, often by intramolecular homologous recombination between direct tandem repeats, and then replicated independently of chromosomal replication." [GOC:jh] synonym: "extrachromosomal circular DNA accumulation during replicative cell ageing" RELATED [] synonym: "extrachromosomal circular DNA accumulation during replicative cell aging" RELATED [GOC:dph, GOC:tb] is_a: GO:0001304 ! progressive alteration of chromatin involved in replicative cell aging is_a: GO:0007580 ! extrachromosomal circular DNA accumulation involved in cell aging [Term] id: GO:0001308 name: loss of chromatin silencing involved in replicative cell aging namespace: biological_process def: "The process, which occurs as a dividing cell ages, leading to expression of genes that are typically not expressed due to silencing by regulatory proteins." [GOC:jh, PMID:12044934] synonym: "loss of chromatin silencing during replicative cell ageing" RELATED [] is_a: GO:0001304 ! progressive alteration of chromatin involved in replicative cell aging is_a: GO:0006345 ! loss of chromatin silencing [Term] id: GO:0001309 name: age-dependent telomere shortening namespace: biological_process def: "Progressive reduction in length of the telomeres, the termini of eukaryotic chromosomes, that occurs as part of the cellular aging process." [GOC:jh, PMID:9891807] is_a: GO:0001304 ! progressive alteration of chromatin involved in replicative cell aging is_a: GO:0010834 ! telomere maintenance via telomere shortening [Term] id: GO:0001310 name: extrachromosomal rDNA circle accumulation involved in replicative cell aging namespace: biological_process def: "Increase in abundance of circular DNA molecules containing ribosomal DNA repeats in dividing cells as they age. These molecules originate in the chromosome but are excised and circularized, often by intramolecular homologous recombination between direct tandem repeats, and then replicated independently of chromosomal replication." [GOC:jh, PMID:12044934] synonym: "extrachromosomal rDNA circle accumulation during replicative cell ageing" RELATED [] synonym: "extrachromosomal rDNA circle accumulation during replicative cell aging" RELATED [GOC:dph, GOC:tb] synonym: "extrachromosomal ribosomal DNA circle accumulation during replicative cell aging" RELATED [] is_a: GO:0001307 ! extrachromosomal circular DNA accumulation involved in replicative cell aging [Term] id: GO:0001311 name: formation of extrachromosomal circular rDNA by homologous recombination involved in replicative cell aging namespace: biological_process def: "Excision from the chromosome and circularization of DNA molecules encoding ribosomal RNA in dividing cells as they age." [GOC:jh, PMID:12044934] synonym: "formation of extrachromosomal circular rDNA by homologous recombination during replicative cell ageing" RELATED [] synonym: "formation of extrachromosomal circular rDNA by homologous recombination during replicative cell aging" RELATED [GOC:dph, GOC:tb] synonym: "formation of extrachromosomal circular ribosomal DNA by homologous recombination during replicative cell aging" RELATED [] is_a: GO:0001313 ! formation of extrachromosomal circular DNA involved in replicative cell aging relationship: part_of GO:0001310 ! extrachromosomal rDNA circle accumulation involved in replicative cell aging [Term] id: GO:0001312 name: replication of extrachromosomal rDNA circles involved in replicative cell aging namespace: biological_process def: "Replication of rDNA following its excision from the chromosome of dividing cells as they age. Extrachromosomal rDNA forms a circle that contains at least one autonomously replicating sequence (ARS), which supports replication independent of chromosomal replication." [GOC:jh, PMID:12044934] synonym: "replication of extrachromosomal rDNA circles during replicative cell ageing" RELATED [] synonym: "replication of extrachromosomal rDNA circles during replicative cell aging" RELATED [GOC:dph, GOC:tb] synonym: "replication of extrachromosomal ribosomal DNA circles during replicative cell aging" RELATED [] is_a: GO:0001314 ! replication of extrachromosomal circular DNA involved in replicative cell aging relationship: part_of GO:0001310 ! extrachromosomal rDNA circle accumulation involved in replicative cell aging [Term] id: GO:0001313 name: formation of extrachromosomal circular DNA involved in replicative cell aging namespace: biological_process def: "Excision from the chromosome and circularization of a region of chromosomal DNA, generally, but not always, via homologous recombination between direct tandem repeats, in dividing cells as they age." [GOC:jh] synonym: "formation of extrachromosomal circular DNA during replicative cell ageing" RELATED [] synonym: "formation of extrachromosomal circular DNA during replicative cell aging" RELATED [GOC:dph, GOC:tb] is_a: GO:0001325 ! formation of extrachromosomal circular DNA relationship: part_of GO:0001307 ! extrachromosomal circular DNA accumulation involved in replicative cell aging [Term] id: GO:0001314 name: replication of extrachromosomal circular DNA involved in replicative cell aging namespace: biological_process def: "Replication of circular DNA following excision from the chromosome of dividing cells as they age; replication of extrachromosomal circular DNA generally occurs independently of chromosomal replication." [GOC:jh] synonym: "replication of extrachromosomal circular DNA during replicative cell ageing" EXACT [] synonym: "replication of extrachromosomal circular DNA during replicative cell aging" RELATED [GOC:dph, GOC:tb] is_a: GO:0001326 ! replication of extrachromosomal circular DNA relationship: part_of GO:0001307 ! extrachromosomal circular DNA accumulation involved in replicative cell aging [Term] id: GO:0001315 name: age-dependent response to reactive oxygen species namespace: biological_process def: "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 reactive oxygen species, where the change varies according to the age of the cell or organism." [GOC:jh, PMID:12044938] subset: gosubset_prok synonym: "age-dependent response to active oxygen species" EXACT [] synonym: "age-dependent response to AOS" EXACT [] synonym: "age-dependent response to reactive oxidative species" EXACT [] synonym: "age-dependent response to reactive oxygen intermediate" EXACT [] synonym: "age-dependent response to ROI" EXACT [] synonym: "age-dependent response to ROS" EXACT [] is_a: GO:0000302 ! response to reactive oxygen species [Term] id: GO:0001316 name: age-dependent response to reactive oxygen species involved in replicative cell aging namespace: biological_process def: "A change in state or activity of a cell or an organism occurring during the process of replicative cell aging as a result of reactive oxygen species, where the change varies according to the age of the cell or organism." [GOC:jh] synonym: "age-dependent response to active oxygen species during replicative cell aging" RELATED [] synonym: "age-dependent response to AOS during replicative cell aging" EXACT [] synonym: "age-dependent response to reactive oxidative species during replicative cell aging" EXACT [] synonym: "age-dependent response to reactive oxygen intermediate during replicative cell aging" RELATED [] synonym: "age-dependent response to reactive oxygen species during replicative cell ageing" EXACT [] synonym: "age-dependent response to reactive oxygen species during replicative cell aging" RELATED [GOC:dph, GOC:tb] synonym: "age-dependent response to ROI during replicative cell aging" RELATED [] synonym: "age-dependent response to ROS during replicative cell aging" RELATED [] is_a: GO:0001315 ! age-dependent response to reactive oxygen species is_a: GO:0001322 ! age-dependent response to oxidative stress involved in replicative cell aging [Term] id: GO:0001317 name: accumulation of oxidatively modified proteins involved in replicative cell aging namespace: biological_process def: "Accumulation of proteins that have undergone reactions with reactive oxygen species in aging dividing cells and exhibit modifications such as increased protein carbonyl content, oxidized methionine, protein hydrophobicity, and cross-linking." [GOC:jh] synonym: "accumulation of oxidatively modified proteins during replicative cell ageing" RELATED [] synonym: "accumulation of oxidatively modified proteins during replicative cell aging" RELATED [GOC:dph, GOC:tb] is_a: GO:0001316 ! age-dependent response to reactive oxygen species involved in replicative cell aging [Term] id: GO:0001318 name: formation of oxidatively modified proteins involved in replicative cell aging namespace: biological_process def: "Chemical reaction, between proteins and reactive oxygen species, that occurs in dividing cells as they age and leads to a variety of changes in the affected proteins, including increases in protein carbonyl content, oxidized methionine, protein hydrophobicity, and cross-linking." [GOC:jh] synonym: "formation of oxidatively modified proteins during replicative cell ageing" RELATED [] synonym: "formation of oxidatively modified proteins during replicative cell aging" RELATED [GOC:dph, GOC:tb] is_a: GO:0043687 ! post-translational protein modification relationship: part_of GO:0001317 ! accumulation of oxidatively modified proteins involved in replicative cell aging [Term] id: GO:0001319 name: inheritance of oxidatively modified proteins involved in replicative cell aging namespace: biological_process def: "Process by which progeny cells acquire, or are barred from acquiring, proteins that have been altered by reaction with reactive oxygen species in dividing aging cells." [GOC:jh] synonym: "inheritance of oxidatively modified proteins during replicative cell ageing" RELATED [] synonym: "inheritance of oxidatively modified proteins during replicative cell aging" RELATED [GOC:dph, GOC:tb] is_a: GO:0008105 ! asymmetric protein localization relationship: part_of GO:0001317 ! accumulation of oxidatively modified proteins involved in replicative cell aging [Term] id: GO:0001320 name: age-dependent response to reactive oxygen species involved in chronological cell aging namespace: biological_process def: "A change in state or activity of a cell or an organism occurring in non-dividing cells as they age as a result of reactive oxygen species, where the change varies according to the age of the cell or organism." [GOC:jh] synonym: "age-dependent response to active oxygen species during chronological cell aging" RELATED [] synonym: "age-dependent response to AOS during chronological cell aging" RELATED [] synonym: "age-dependent response to reactive oxidative species during chronological cell aging" EXACT [] synonym: "age-dependent response to reactive oxygen intermediate during chronological cell aging" RELATED [] synonym: "age-dependent response to reactive oxygen species during chronological cell ageing" RELATED [] synonym: "age-dependent response to reactive oxygen species during chronological cell aging" RELATED [GOC:dph, GOC:tb] synonym: "age-dependent response to ROI during chronological cell aging" RELATED [] synonym: "age-dependent response to ROS during chronological cell aging" RELATED [] is_a: GO:0001315 ! age-dependent response to reactive oxygen species is_a: GO:0001324 ! age-dependent response to oxidative stress involved in chronological cell aging [Term] id: GO:0001321 name: age-dependent general metabolic decline involved in replicative cell aging namespace: biological_process def: "The process, arising in dividing cells as they age, that alters cellular metabolism and thus causes a decline in cell function." [GOC:jh] synonym: "age-dependent general metabolic decline during replicative cell ageing" RELATED [] synonym: "age-dependent general metabolic decline involved in replicative cell aging" RELATED [GOC:dph, GOC:tb] is_a: GO:0007571 ! age-dependent general metabolic decline relationship: part_of GO:0001302 ! replicative cell aging [Term] id: GO:0001322 name: age-dependent response to oxidative stress involved in replicative cell aging namespace: biological_process def: "A change in state or activity of a cell or an organism occurring in dividing cells as they age as a result of oxidative stress, where the change varies according to the age of the cell or organism." [GOC:jh] synonym: "age-dependent response to oxidative stress during replicative cell ageing" RELATED [] synonym: "age-dependent response to oxidative stress during replicative cell aging" RELATED [GOC:dph, GOC:tb] is_a: GO:0001306 ! age-dependent response to oxidative stress is_a: GO:0001321 ! age-dependent general metabolic decline involved in replicative cell aging [Term] id: GO:0001323 name: age-dependent general metabolic decline involved in chronological cell aging namespace: biological_process def: "The process, arising in non-dividing cells as they age, that alters cellular metabolism and thus causes a decline in cell function." [GOC:jh] synonym: "age-dependent general metabolic decline during chronological cell ageing" RELATED [] synonym: "age-dependent general metabolic decline during chronological cell aging" RELATED [GOC:dph, GOC:tb] is_a: GO:0007571 ! age-dependent general metabolic decline relationship: part_of GO:0001300 ! chronological cell aging [Term] id: GO:0001324 name: age-dependent response to oxidative stress involved in chronological cell aging namespace: biological_process def: "A change in state or activity of a cell or an organism occurring in non-dividing cells as they age as a result of oxidative stress, where the change varies according to the age of the cell or organism." [GOC:jh] synonym: "age-dependent response to oxidative stress during chronological cell ageing" RELATED [] synonym: "age-dependent response to oxidative stress during chronological cell aging" RELATED [GOC:dph, GOC:tb] is_a: GO:0001306 ! age-dependent response to oxidative stress is_a: GO:0001323 ! age-dependent general metabolic decline involved in chronological cell aging [Term] id: GO:0001325 name: formation of extrachromosomal circular DNA namespace: biological_process def: "Excision from the chromosome and circularization of a region of chromosomal DNA, generally, but not always, via homologous recombination between direct tandem repeats." [GOC:jh, PMID:12044938] subset: gosubset_prok is_a: GO:0006259 ! DNA metabolic process is_a: GO:0022607 ! cellular component assembly [Term] id: GO:0001326 name: replication of extrachromosomal circular DNA namespace: biological_process def: "Replication of circular DNA following excision from the chromosome; replication of extrachromosomal circular DNA generally occurs independently of chromosomal replication." [GOC:jh] subset: gosubset_prok is_a: GO:0006260 ! DNA replication [Term] id: GO:0001400 name: mating projection base namespace: cellular_component def: "The region where the mating projection meets the bulk of the cell, in unicellular fungi exposed to mating pheromone." [GOC:mcc] synonym: "base of shmoo tip" NARROW [] synonym: "conjugation tube base" NARROW [] is_a: GO:0044463 ! cell projection part relationship: part_of GO:0005937 ! mating projection [Term] id: GO:0001401 name: mitochondrial sorting and assembly machinery complex namespace: cellular_component def: "A large complex of the mitochondrial outer membrane that mediates sorting of some imported proteins to the outer membrane and their assembly in the membrane; functions after import of incoming proteins by the mitochondrial outer membrane translocase complex." [PMID:12891361] comment: See also the cellular component term 'mitochondrial outer membrane translocase complex ; GO:0005742'. synonym: "SAM complex" EXACT [] synonym: "TOB complex" EXACT [] is_a: GO:0043234 ! protein complex is_a: GO:0044455 ! mitochondrial membrane part relationship: part_of GO:0005741 ! mitochondrial outer membrane [Term] id: GO:0001402 name: signal transduction involved in filamentous growth namespace: biological_process def: "Relaying of environmental signals promoting filamentous growth." [GOC:mcc, PMID:9728395] synonym: "MAPKKK cascade (pseudohyphal growth)" RELATED [] synonym: "signal transduction during filamentous growth" RELATED [GOC:dph, GOC:tb] is_a: GO:0007165 ! signal transduction relationship: part_of GO:0030447 ! filamentous growth [Term] id: GO:0001403 name: invasive growth in response to glucose limitation namespace: biological_process def: "A growth pattern exhibited by budding haploid cells under certain growth conditions, in which cells retain the typical axial budding pattern of haploids, but become elongated and fail to separate after division; during growth on a solid substrate, this results in penetration of cells into the agar medium. An example of this process is found in Saccharomyces cerevisiae." [GOC:mcc, PMID:9728395] comment: Note that this term should not be used to describe the invasion of host tissues by pathogenic organisms, which is described by the biological process term 'invasive growth', nor should it be used to describe growth of diseased cells of an organism into the surrounding normal tissue, which is outside of the scope of GO. synonym: "colony morphology" RELATED [] is_a: GO:0070783 ! growth of unicellular organism as a thread of attached cells [Term] id: GO:0001404 name: invasive growth namespace: biological_process def: "OBSOLETE. Growth of a pathogenic organism that results in penetration into cells or tissues of the host organism. This often (but not necessarily) includes a filamentous growth form, and also can include secretion of proteases and lipases to break down host tissue." [GOC:mcc, PMID:9728395] comment: This term was made obsolete because more appropriate terms were created. synonym: "tissue invasion" EXACT [] is_obsolete: true consider: GO:0044409 [Term] id: GO:0001405 name: presequence translocase-associated import motor namespace: cellular_component def: "Protein complex located on the matrix side of the mitochondrial inner membrane and associated with the presequence translocase complex; hydrolyzes ATP to provide the force to drive import of proteins into the mitochondrial matrix." [GOC:mcc, PMID:14517234, PMID:14638855] synonym: "mitochondrial import motor" EXACT [] synonym: "PAM complex" EXACT [] synonym: "pre-sequence translocase-associated import motor" EXACT [] is_a: GO:0043234 ! protein complex is_a: GO:0044455 ! mitochondrial membrane part relationship: part_of GO:0005744 ! mitochondrial inner membrane presequence translocase complex [Term] id: GO:0001406 name: glycerophosphodiester transmembrane transporter activity namespace: molecular_function def: "Catalysis of the transfer of glycerophosphodiesters from one side of a membrane to the other. Glycerophosphodiesters are small molecules composed of glycerol-3-phosphate and an alcohol, for example, glycerophosphoinositol." [GOC:mcc, PMID:12912892] is_a: GO:0015605 ! organophosphate ester transmembrane transporter activity relationship: part_of GO:0001407 ! glycerophosphodiester transport [Term] id: GO:0001407 name: glycerophosphodiester transport namespace: biological_process def: "The directed movement of glycerophosphodiesters into, out of, within or between cells by means of some external agent such as a transporter or pore. Glycerophosphodiesters are small molecules composed of glycerol-3-phosphate and an alcohol, for example, glycerophosphoinositol." [GOC:mcc, PMID:12912892] is_a: GO:0015748 ! organophosphate ester transport [Term] id: GO:0001408 name: guanine nucleotide transport namespace: biological_process def: "The directed movement of guanine nucleotides, GTP, GDP, and/or GMP, into, out of, within or between cells by means of some external agent such as a transporter or pore." [GOC:mcc] is_a: GO:0015865 ! purine nucleotide transport [Term] id: GO:0001409 name: guanine nucleotide transmembrane transporter activity namespace: molecular_function def: "Catalysis of the transfer of guanine nucleotides (GMP, GDP, and GTP) from one side of the membrane to the other." [GOC:mcc] is_a: GO:0015216 ! purine nucleotide transmembrane transporter activity relationship: part_of GO:0001408 ! guanine nucleotide transport [Term] id: GO:0001410 name: chlamydospore formation namespace: biological_process alt_id: GO:0055027 def: "The process whose specific outcome is the progression of the chlamydospore over time, from its formation to the mature structure. A chlamydospores is a mitotic (asexual) one-celled spore, produced primarily for survival, not dispersal, originating endogenously and singly within part of a pre-existing cell and possessing an inner secondary and often thickened cell wall. An example of this is found in Candida albicans." [GOC:mcc, GOC:mtg_sensu, ISBN:085199377X, PMID:14663094] synonym: "chlamydospore development" EXACT [] is_a: GO:0043936 ! asexual sporulation resulting in formation of a cellular spore is_a: GO:0048468 ! cell development [Term] id: GO:0001411 name: hyphal tip namespace: cellular_component def: "The end, or tip, of a fungal hypha, where polarized growth occurs during hyphal elongation." [GOC:mcc] subset: goslim_candida is_a: GO:0030427 ! site of polarized growth [Term] id: GO:0001501 name: skeletal system development namespace: biological_process def: "The process whose specific outcome is the progression of the skeleton over time, from its formation to the mature structure. The skeleton is the bony framework of the body in vertebrates (endoskeleton) or the hard outer envelope of insects (exoskeleton or dermoskeleton)." [GOC:dph, GOC:jid, GOC:tb, http://www.stedmans.com/] synonym: "skeletal development" EXACT [] is_a: GO:0048731 ! system development [Term] id: GO:0001502 name: cartilage condensation namespace: biological_process def: "The condensation of mesenchymal cells that have been committed to differentiate into chondrocytes." [ISBN:0878932437] is_a: GO:0016337 ! cell-cell adhesion relationship: part_of GO:0048705 ! skeletal system morphogenesis relationship: part_of GO:0051216 ! cartilage development [Term] id: GO:0001503 name: ossification namespace: biological_process def: "The formation of bone or of a bony substance, or the conversion of fibrous tissue or of cartilage into bone or a bony substance." [GOC:mtg_mpo, http://cancerweb.ncl.ac.uk/] synonym: "bone biosynthesis" EXACT [] synonym: "bone formation" EXACT [] synonym: "osteogenesis" EXACT [] xref: Wikipedia:Ossification is_a: GO:0032502 ! developmental process relationship: part_of GO:0060348 ! bone development [Term] id: GO:0001504 name: neurotransmitter uptake namespace: biological_process def: "The directed movement of neurotransmitters into neurons or glial cells. This process leads to inactivation and recycling of neurotransmitters. It does not occur during cholinergic synaptic transmission. Instead, acetylcholine is enzymatically degraded in the synaptic cleft." [ISBN:0123668387] synonym: "neurotransmitter import" EXACT [GOC:dph, GOC:tb] synonym: "neurotransmitter import into glial cell" NARROW [] synonym: "neurotransmitter import into neuron" NARROW [] synonym: "neurotransmitter recycling" BROAD [] synonym: "neurotransmitter reuptake" EXACT [] xref: Reactome:112313 "Neurotransmitter uptake and Metabolism In Glial Cells" xref: Reactome:563219 "Neurotransmitter uptake and Metabolism In Glial Cells" xref: Reactome:588824 "Neurotransmitter uptake and Metabolism In Glial Cells" xref: Reactome:609549 "Neurotransmitter uptake and Metabolism In Glial Cells" xref: Reactome:634255 "Neurotransmitter uptake and Metabolism In Glial Cells" xref: Reactome:645736 "Neurotransmitter uptake and Metabolism In Glial Cells" xref: Reactome:656063 "Neurotransmitter uptake and Metabolism In Glial Cells" xref: Reactome:661243 "Neurotransmitter uptake and Metabolism In Glial Cells" xref: Reactome:667014 "Neurotransmitter uptake and Metabolism In Glial Cells" xref: Reactome:673159 "Neurotransmitter uptake and Metabolism In Glial Cells" xref: Reactome:678858 "Neurotransmitter uptake and Metabolism In Glial Cells" xref: Reactome:683787 "Neurotransmitter uptake and Metabolism In Glial Cells" xref: Reactome:690013 "Neurotransmitter uptake and Metabolism In Glial Cells" xref: Reactome:701782 "Neurotransmitter uptake and Metabolism In Glial Cells" xref: Reactome:716357 "Neurotransmitter uptake and Metabolism In Glial Cells" xref: Reactome:720840 "Neurotransmitter uptake and Metabolism In Glial Cells" xref: Reactome:735656 "Neurotransmitter uptake and Metabolism In Glial Cells" xref: Reactome:738572 "Neurotransmitter uptake and Metabolism In Glial Cells" is_a: GO:0001505 ! regulation of neurotransmitter levels is_a: GO:0006836 ! neurotransmitter transport [Term] id: GO:0001505 name: regulation of neurotransmitter levels namespace: biological_process def: "Any process that modulates levels of neurotransmitter." [GOC:jl] is_a: GO:0065008 ! regulation of biological quality relationship: part_of GO:0007268 ! synaptic transmission [Term] id: GO:0001506 name: neurotransmitter biosynthetic process and storage namespace: biological_process def: "OBSOLETE. The chemical reactions and pathways resulting in the formation of neurotransmitters and the storage of the synthesized molecules." [GOC:go_curators, ISBN:0123668387] comment: This term was made obsolete because it is an amalgamation of its two children. synonym: "neurotransmitter anabolism and storage" EXACT [] synonym: "neurotransmitter formation and storage" EXACT [] synonym: "neurotransmitter synthesis and storage" EXACT [] is_obsolete: true consider: GO:0042136 consider: GO:0042137 [Term] id: GO:0001507 name: acetylcholine catabolic process in synaptic cleft namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of acetylcholine that occurs in the synaptic cleft during synaptic transmission." [GOC:ai] synonym: "acetylcholine breakdown in synaptic cleft" EXACT [] synonym: "acetylcholine degradation in synaptic cleft" EXACT [] is_a: GO:0006581 ! acetylcholine catabolic process relationship: part_of GO:0007271 ! synaptic transmission, cholinergic [Term] id: GO:0001508 name: regulation of action potential namespace: biological_process def: "Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination. An action potential is a spike of membrane depolarization and repolarization that travels along the membrane of a cell." [GOC:dph, GOC:go_curators, GOC:tb] is_a: GO:0042391 ! regulation of membrane potential [Term] id: GO:0001509 name: legumain activity namespace: molecular_function def: "OBSOLETE. Catalysis of the hydrolysis of proteins and small-molecule substrates at Asn-Xaa bonds." [EC:3.4.22.34] comment: This term was made obsolete because it represents a gene product. synonym: "asparaginyl endopeptidase activity" RELATED [EC:3.4.22.34] synonym: "bean endopeptidase activity" RELATED [EC:3.4.22.34] synonym: "citvac" RELATED [EC:3.4.22.34] synonym: "hemoglobinase activity" RELATED [EC:3.4.22.34] synonym: "phaseolin activity" RELATED [EC:3.4.22.34] synonym: "proteinase B" RELATED [EC:3.4.22.34] synonym: "PRSC1 gene product (Homo sapiens)" RELATED [EC:3.4.22.34] synonym: "vicilin peptidohydrolase activity" RELATED [EC:3.4.22.34] xref: EC:3.4.22.34 xref: MetaCyc:3.4.22.34-RXN is_obsolete: true replaced_by: GO:0004197 [Term] id: GO:0001510 name: RNA methylation namespace: biological_process def: "Posttranscriptional addition of a methyl group to either a nucleotide or 2'-O ribose in a polyribonucleotide. Usually uses S-adenosylmethionine as a cofactor." [GOC:hjd] subset: gosubset_prok is_a: GO:0009451 ! RNA modification is_a: GO:0043414 ! macromolecule methylation [Term] id: GO:0001511 name: fibrillin namespace: molecular_function def: "OBSOLETE. Large glycoprotein that is a calcium binding component of connective tissue microfibrils containing 34 six-cysteine (EGF-like) repeats and five eight-cysteine (TGFbeta-1 binding protein-like) repeats. Defects associated with Marfan syndrome." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] comment: This term was made obsolete because it represents a gene product. is_obsolete: true consider: GO:0001527 consider: GO:0005509 [Term] id: GO:0001512 name: dihydronicotinamide riboside quinone reductase activity namespace: molecular_function def: "Catalysis of the reaction: 1-(beta-D-ribofuranosyl)-1,4-dihydronicotinamide + a quinone = 1-(beta-D-ribofuranosyl)nicotinamide + a hydroquinone." [EC:1.10.99.2] synonym: "1-(beta-D-ribofuranosyl)-1,4-dihydronicotinamide:quinone oxidoreductase activity" EXACT [EC:1.10.99.2] synonym: "N-ribosyldihydronicotinamide dehydrogenase (quinone) activity" EXACT [EC:1.10.99.2] synonym: "NAD(P)H:quinone oxidoreductase 2 activity" EXACT [EC:1.10.99.2] synonym: "NAD(P)H:quinone oxidoreductase-2" RELATED [EC:1.10.99.2] synonym: "NAD(P)H:quinone oxidoreductase2" RELATED [EC:1.10.99.2] synonym: "NQO(2) activity" EXACT [EC:1.10.99.2] synonym: "NQO2" RELATED [EC:1.10.99.2] synonym: "NRH:quinone oxidoreductase 2 activity" NARROW [EC:1.10.99.2] synonym: "QR2 activity" RELATED [EC:1.10.99.2] synonym: "quinone reductase 2 activity" RELATED [EC:1.10.99.2] synonym: "ribosyldihydronicotinamide dehydrogenase (quinone) activity" EXACT [] xref: EC:1.10.99.2 xref: MetaCyc:1.10.99.2-RXN is_a: GO:0016491 ! oxidoreductase activity [Term] id: GO:0001514 name: selenocysteine incorporation namespace: biological_process def: "The incorporation of selenocysteine into a peptide; uses a special tRNA that recognizes the UGA codon as selenocysteine, rather than as a termination codon. Selenocysteine is synthesized from serine before its incorporation; it is not a posttranslational modification of peptidyl-cysteine." [RESID:AA0022] subset: gosubset_prok xref: RESID:AA0022 is_a: GO:0006451 ! translational readthrough [Term] id: GO:0001515 name: opioid peptide activity namespace: molecular_function def: "Naturally occurring peptide that is an opioid (any non-alkaloid having an opiate-like effect that can be reversed by naloxone or other recognized morphine antagonist). These include Leu- and Met-enkephalin, dynorphin and neoendorphin, alpha, beta, gamma and delta endorphins formed from beta-lipotropin, various pronase-resistant peptides such as beta casamorphin, and other peptides whose opiate-like action seems to be indirect." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] is_a: GO:0005102 ! receptor binding [Term] id: GO:0001516 name: prostaglandin biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of prostaglandins, any of a group of biologically active metabolites which contain a cyclopentane ring." [GOC:ai] subset: gosubset_prok synonym: "prostaglandin anabolism" EXACT [] synonym: "prostaglandin biosynthesis" EXACT [] synonym: "prostaglandin formation" EXACT [] synonym: "prostaglandin synthesis" EXACT [] is_a: GO:0006693 ! prostaglandin metabolic process is_a: GO:0046457 ! prostanoid biosynthetic process [Term] id: GO:0001517 name: N-acetylglucosamine 6-O-sulfotransferase activity namespace: molecular_function def: "Catalysis of the reaction: 3'-phosphoadenosine 5'-phosphosulfate + N-acetyl-D-glucosamine = adenosine 3',5'-bisphosphate + N-acetyl-D-glucosamine 6-sulfate." [GOC:ai, GOC:hjd] synonym: "N-acetylglucosamine 6-O-sulphotransferase activity" EXACT [] xref: EC:2.8.2.- is_a: GO:0008146 ! sulfotransferase activity [Term] id: GO:0001518 name: voltage-gated sodium channel complex namespace: cellular_component def: "A sodium channel in a cell membrane whose opening is governed by the membrane potential." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] synonym: "voltage gated sodium channel complex" EXACT [] synonym: "voltage-dependent sodium channel complex" EXACT [] synonym: "voltage-sensitive sodium channel complex" EXACT [] xref: NIF_Subcellular:sao785001660 is_a: GO:0034706 ! sodium channel complex is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0005887 ! integral to plasma membrane [Term] id: GO:0001519 name: peptide amidation namespace: biological_process def: "The posttranslational conversion of C-terminal glycine-extended peptides to C-terminal alpha-amidated peptides. Occurs to over half of all peptide hormones to give bioactive peptides. This is a two step process catalyzed by a peptidyl-glycine alpha-hydroxylating monooxygenase and a peptidyl-alpha-hydroxyglycine alpha-amidating lyase. In some organisms, this process is catalyzed by two separate enzymes, whereas in higher organisms, one polypeptide catalyzes both reactions." [PMID:11028916] subset: gosubset_prok is_a: GO:0031179 ! peptide modification [Term] id: GO:0001520 name: outer dense fiber namespace: cellular_component def: "Structure or material found in the flagella of mammalian sperm that surrounds each of the nine microtubule doublets, giving a 9 + 9 + 2 arrangement rather than the 9 + 2 pattern usually seen. These dense fibers are stiff and noncontractile." [ISBN:0824072820] synonym: "outer dense fibre" EXACT [] is_a: GO:0044447 ! axoneme part [Term] id: GO:0001522 name: pseudouridine synthesis namespace: biological_process def: "The intramolecular conversion of uridine to pseudouridine within an RNA molecule. This posttranscriptional base modification occurs in tRNA, rRNA, and snRNAs." [GOC:hjd, GOC:mah] subset: gosubset_prok synonym: "pseudouridylation" EXACT [] xref: Wikipedia:Pseudouridine xref: Wikipedia:Pseudouridylation is_a: GO:0009451 ! RNA modification [Term] id: GO:0001523 name: retinoid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving retinoids, any member of a class of isoprenoids that contain or are derived from four prenyl groups linked head-to-tail. Retinoids include retinol and retinal and structurally similar natural derivatives or synthetic compounds, but need not have vitamin A activity." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] subset: gosubset_prok synonym: "retinoid metabolism" EXACT [] is_a: GO:0016101 ! diterpenoid metabolic process [Term] id: GO:0001524 name: globin namespace: molecular_function def: "OBSOLETE. The colorless and basic protein moiety of hemoglobin and myoglobins." [GOC:ai, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] comment: This term was made obsolete because it represents a gene product. is_obsolete: true replaced_by: GO:0005344 [Term] id: GO:0001525 name: angiogenesis namespace: biological_process def: "Blood vessel formation when new vessels emerge from the proliferation of pre-existing blood vessels." [ISBN:0878932453] synonym: "blood vessel formation from pre-existing blood vessels" EXACT systematic_synonym [] xref: Wikipedia:Angiogenesis is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis relationship: part_of GO:0048514 ! blood vessel morphogenesis [Term] id: GO:0001526 name: proteoglycan sulfate transfer namespace: biological_process def: "OBSOLETE. Transfer of sulfate to a proteoglycan (a glycoprotein whose carbohydrate units are glycosaminoglycans) using 3'-phosphoadenyl sulfate." [GOC:hjd] comment: This term was made obsolete because it represents a group of molecular functions. synonym: "proteoglycan sulphate transfer" EXACT [] is_obsolete: true consider: GO:0006029 consider: GO:0006790 consider: GO:0050698 [Term] id: GO:0001527 name: microfibril namespace: cellular_component def: "Extracellular matrix components occurring independently or along with elastin. Thought to have force-bearing functions in tendon. In addition to fibrillins, microfibrils may contain other associated proteins." [http://www.xrefer.com/entry/490235] synonym: "extended fibrils" EXACT [] synonym: "fibrillin" RELATED [] is_a: GO:0043205 ! fibril [Term] id: GO:0001528 name: elastin namespace: molecular_function def: "OBSOLETE. A major structural protein of mammalian connective tissues; composed of one third glycine, and also rich in proline, alanine, and valine. Chains are cross-linked together via lysine residues." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] comment: This term was made obsolete because it represents a gene product. is_obsolete: true replaced_by: GO:0030023 [Term] id: GO:0001529 name: elastin namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product. is_obsolete: true replaced_by: GO:0030023 [Term] id: GO:0001530 name: lipopolysaccharide binding namespace: molecular_function def: "Interacting selectively and non-covalently with lipopolysaccharide." [PMID:11079463] synonym: "endotoxin binding" BROAD [] synonym: "LPS binding" EXACT [] is_a: GO:0005488 ! binding [Term] id: GO:0001531 name: interleukin-21 receptor binding namespace: molecular_function def: "Interacting selectively and non-covalently with the interleukin-21 receptor." [GOC:ai] synonym: "IL-21" NARROW [] synonym: "interleukin-21 receptor ligand" NARROW [] is_a: GO:0005126 ! cytokine receptor binding [Term] id: GO:0001532 name: interleukin-21 receptor activity namespace: molecular_function def: "Combining with interleukin-21 to initiate a change in cell activity." [GOC:jl] synonym: "IL-21 receptor activity" EXACT [GOC:mah] synonym: "IL-21R" EXACT [] is_a: GO:0004896 ! cytokine receptor activity is_a: GO:0019977 ! interleukin-21 binding [Term] id: GO:0001533 name: cornified envelope namespace: cellular_component def: "An insoluble protein structure formed under the plasma membrane of cornifying epithelial cells." [PMID:11112355] is_a: GO:0005856 ! cytoskeleton [Term] id: GO:0001534 name: radial spoke namespace: cellular_component def: "Protein complex that links the outer microtubule doublet of the ciliary or flagellum axoneme with the sheath that surrounds the central pair of microtubules. Composed of a stalk that attaches to each doublet microtubule and a globular structure (spoke head) that projects toward the central pair of microtubules." [ISBN:0124325653, PMID:9450971] subset: goslim_pir xref: Wikipedia:Radial_spoke is_a: GO:0043234 ! protein complex is_a: GO:0044447 ! axoneme part [Term] id: GO:0001535 name: radial spokehead namespace: cellular_component def: "Protein complex forming part of eukaryotic flagellar apparatus." [GOC:hjd] is_a: GO:0043234 ! protein complex is_a: GO:0044447 ! axoneme part relationship: part_of GO:0001534 ! radial spoke [Term] id: GO:0001536 name: radial spoke stalk namespace: cellular_component def: "Globular portion of the radial spoke that projects towards the central pair of microtubules." [GOC:hjd] is_a: GO:0043234 ! protein complex is_a: GO:0044447 ! axoneme part relationship: part_of GO:0001534 ! radial spoke [Term] id: GO:0001537 name: N-acetylgalactosamine 4-O-sulfotransferase activity namespace: molecular_function def: "Catalysis of the reaction: 3'-phosphoadenosine 5'-phosphosulfate + N-acetyl-D-galactosamine = adenosine 3',5'-bisphosphate + N-acetyl-D-galactosamine 4-sulfate." [EC:2.8.2.-, GOC:ai] synonym: "N-acetylgalactosamine 4-O-sulphotransferase activity" EXACT [] xref: EC:2.8.2.- is_a: GO:0008146 ! sulfotransferase activity [Term] id: GO:0001539 name: ciliary or flagellar motility namespace: biological_process def: "Cell motility due to movement of cilia or flagella." [GOC:hjd] subset: gosubset_prok synonym: "ciliary/flagellar motility" EXACT [] is_a: GO:0048870 ! cell motility [Term] id: GO:0001540 name: beta-amyloid binding namespace: molecular_function def: "Interacting selectively and non-covalently with beta-amyloid peptide/protein and/or its precursor." [GOC:hjd] is_a: GO:0005515 ! protein binding [Term] id: GO:0001541 name: ovarian follicle development namespace: biological_process def: "The process whose specific outcome is the progression of the ovarian follicle over time, from its formation to the mature structure." [GOC:go_curators] synonym: "follicular phase" RELATED [] is_a: GO:0022602 ! ovulation cycle process relationship: part_of GO:0008585 ! female gonad development [Term] id: GO:0001542 name: ovulation from ovarian follicle namespace: biological_process def: "The process leading to the rupture of the follicle, releasing the centrally located oocyte into the oviduct. An example of this is found in Mus musculus." [GOC:mtg_sensu, http://ovary.stanford.edu] is_a: GO:0022602 ! ovulation cycle process is_a: GO:0030728 ! ovulation relationship: part_of GO:0008585 ! female gonad development [Term] id: GO:0001543 name: ovarian follicle rupture namespace: biological_process def: "Disruption of theca cell layer releasing follicular fluid and/or the oocyte." [http://ovary.stanford.edu] is_a: GO:0022602 ! ovulation cycle process relationship: part_of GO:0001542 ! ovulation from ovarian follicle [Term] id: GO:0001544 name: initiation of primordial ovarian follicle growth namespace: biological_process def: "Increase in size of primordial follicles including proliferation and shape changes of granulosa and/or theca cells until oocyte is surrounded by one layer of cuboidal shaped granulosa cells (primary follicle)." [http://ovary.stanford.edu] is_a: GO:0022602 ! ovulation cycle process relationship: part_of GO:0001541 ! ovarian follicle development [Term] id: GO:0001545 name: primary ovarian follicle growth namespace: biological_process def: "Increase in size of primary follicles including oocyte growth and granulosa and/or theca cell proliferation until more than one layer of granulosa cells is present (preantral follicle)." [GOC:mtg_mpo, http://ovary.stanford.edu] is_a: GO:0022602 ! ovulation cycle process relationship: part_of GO:0001541 ! ovarian follicle development [Term] id: GO:0001546 name: preantral ovarian follicle growth namespace: biological_process def: "Increase in size of follicles surrounded by two or more layers of granulosa cells up to the onset of antrum formation." [http://ovary.stanford.edu] is_a: GO:0022602 ! ovulation cycle process relationship: part_of GO:0001541 ! ovarian follicle development relationship: part_of GO:0048162 ! multi-layer follicle stage [Term] id: GO:0001547 name: antral ovarian follicle growth namespace: biological_process def: "Increase in size of antral follicles due to cell proliferation and/or growth of the antral cavity." [http://ovary.stanford.edu] is_a: GO:0003006 ! reproductive developmental process is_a: GO:0022602 ! ovulation cycle process is_a: GO:0048589 ! developmental growth relationship: part_of GO:0001541 ! ovarian follicle development [Term] id: GO:0001548 name: follicular fluid formation in ovarian follicle antrum namespace: biological_process def: "The menstrual cycle process by which one central cavity separating the oocyte/cumulus complex from mural granulosa and theca cells is formed during the various stages of oogenesis." [GOC:dph, GOC:tb, http://ovary.stanford.edu] synonym: "ovarian follicle antrum/follicular fluid biosynthesis" EXACT [] synonym: "ovarian follicle antrum/follicular fluid formation" EXACT [] is_a: GO:0022602 ! ovulation cycle process relationship: part_of GO:0001547 ! antral ovarian follicle growth [Term] id: GO:0001549 name: cumulus cell differentiation namespace: biological_process def: "The process whereby a subpopulation of granulosa cells surrounding the oocyte acquires the specialized features of an ovarian cumulus cell." [http://ovary.stanford.edu] synonym: "ovarian cumulus cell differentiation" EXACT [] is_a: GO:0003006 ! reproductive developmental process is_a: GO:0030154 ! cell differentiation is_a: GO:0048610 ! reproductive cellular process relationship: part_of GO:0001547 ! antral ovarian follicle growth relationship: part_of GO:0048165 ! fused antrum stage [Term] id: GO:0001550 name: ovarian cumulus expansion namespace: biological_process def: "Increase in size of the cumulus surrounding the oocyte including change in morphology due to proliferation and dispersion of cumulus cells." [http://ovary.stanford.edu] synonym: "ovarian cumulus growth" RELATED [] is_a: GO:0022602 ! ovulation cycle process relationship: part_of GO:0001547 ! antral ovarian follicle growth relationship: part_of GO:0048165 ! fused antrum stage [Term] id: GO:0001551 name: ovarian follicle endowment namespace: biological_process def: "Association of oocytes with supporting epithelial granulosa cells to form primordial follicles." [http://ovary.stanford.edu] is_a: GO:0022602 ! ovulation cycle process relationship: part_of GO:0001541 ! ovarian follicle development [Term] id: GO:0001552 name: ovarian follicle atresia namespace: biological_process def: "Ovarian follicle demise mediated by apoptosis." [http://ovary.stanford.edu] is_a: GO:0006915 ! apoptosis is_a: GO:0048610 ! reproductive cellular process relationship: part_of GO:0008585 ! female gonad development [Term] id: GO:0001553 name: luteinization namespace: biological_process def: "The set of processes resulting in differentiation of theca and granulosa cells into luteal cells and in the formation of a corpus luteum after ovulation." [http://ovary.stanford.edu] synonym: "luteal phase" RELATED [] xref: Wikipedia:Luteal_phase xref: Wikipedia:Luteinization is_a: GO:0022602 ! ovulation cycle process relationship: part_of GO:0008585 ! female gonad development [Term] id: GO:0001554 name: luteolysis namespace: biological_process def: "Regression of ovarian corpora lutea." [http://ovary.stanford.edu] xref: Wikipedia:Luteolysis is_a: GO:0022602 ! ovulation cycle process relationship: part_of GO:0008585 ! female gonad development [Term] id: GO:0001555 name: oocyte growth namespace: biological_process def: "The process by which an oocyte irreversibly increases in size over time by accretion and biosynthetic production of matter similar to that already present." [http://ovary.stanford.edu] is_a: GO:0003006 ! reproductive developmental process is_a: GO:0048588 ! developmental cell growth is_a: GO:0048610 ! reproductive cellular process relationship: part_of GO:0048601 ! oocyte morphogenesis [Term] id: GO:0001556 name: oocyte maturation namespace: biological_process def: "A developmental process, independent of morphogenetic (shape) change, that is required for an oocyte to attain its fully functional state. Oocyte maturation commences after reinitiation of meiosis commonly starting with germinal vesicle breakdown, and continues up to the second meiotic arrest prior to fertilization." [GOC:devbiol, http://ovary.stanford.edu] xref: Wikipedia:Oocyte_maturation is_a: GO:0003006 ! reproductive developmental process is_a: GO:0048469 ! cell maturation is_a: GO:0048610 ! reproductive cellular process relationship: part_of GO:0048599 ! oocyte development [Term] id: GO:0001557 name: metabolic process resulting in cell growth namespace: biological_process def: "OBSOLETE. The chemical reactions that occur in living organisms that result in an increase in the mass (size) of a cell." [GOC:dph] comment: This term was made obsolete as part of the metabolism rearrangements, because it is redundant with other terms. is_obsolete: true replaced_by: GO:0008152 replaced_by: GO:0016049 [Term] id: GO:0001558 name: regulation of cell growth namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell growth." [GOC:go_curators] subset: gosubset_prok xref: Reactome:110498 "DTOR is positively regulated by DRheb-GTP" is_a: GO:0040008 ! regulation of growth is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0016049 ! cell growth relationship: regulates GO:0016049 ! cell growth [Term] id: GO:0001559 name: regulation of cell growth by detection of nuclear:cytoplasmic ratio namespace: biological_process def: "Any process whereby the size of the nucleus with respect to the cytoplasm modulates the frequency, rate or extent of cell growth, the irreversible increase in size of a cell over time." [GOC:dph] synonym: "detection of nuclear:cytoplasmic ratio to regulate cell growth" EXACT [] synonym: "interpretation of nuclear:cytoplasmic ratio to regulate cell growth" EXACT [] synonym: "regulation of cell growth by nuclear:cytoplasmic ratio" EXACT [] synonym: "regulation of cell growth by sensing of nuclear:cytoplasmic ratio" EXACT [] is_a: GO:0001558 ! regulation of cell growth is_a: GO:0016475 ! detection of nuclear:cytoplasmic ratio [Term] id: GO:0001560 name: regulation of cell growth by extracellular stimulus namespace: biological_process def: "Any process whereby external signals modulate the frequency, rate or extent of cell growth, the irreversible increase in size of a cell over time." [GOC:dph] synonym: "interpretation of external signals that regulate cell growth" EXACT [] synonym: "regulation of cell growth by detection of exogenous stimulus" EXACT [] synonym: "regulation of cell growth by sensing of exogenous stimulus" EXACT [] synonym: "regulation of growth by exogenous signal" EXACT [] synonym: "regulation of growth by exogenous stimuli" EXACT [] synonym: "regulation of growth by exogenous stimulus" EXACT [] synonym: "regulation of growth by external signal" EXACT [] synonym: "regulation of growth by external stimuli" EXACT [] synonym: "regulation of growth by external stimulus" EXACT [] is_a: GO:0001558 ! regulation of cell growth relationship: part_of GO:0031668 ! cellular response to extracellular stimulus [Term] id: GO:0001561 name: fatty acid alpha-oxidation namespace: biological_process def: "A metabolic pathway by which 3-methyl branched fatty acids are degraded. These compounds are not degraded by the normal peroxisomal beta-oxidation pathway, because the 3-methyl blocks the dehydrogenation of the hydroxyl group by hydroxyacyl-CoA dehydrogenase. The 3-methyl branched fatty acid is converted in several steps to pristenic acid, which can then feed into the beta-oxidative pathway." [http://www.peroxisome.org/Scientist/Biochemistry/alpha-oxidation.html] subset: gosubset_prok xref: MetaCyc:PWY-2501 xref: Reactome:389599 "Alpha-oxidation of phytanate" xref: Reactome:562594 "Alpha-oxidation of phytanate" xref: Reactome:588220 "Alpha-oxidation of phytanate" xref: Reactome:608981 "Alpha-oxidation of phytanate" xref: Reactome:633663 "Alpha-oxidation of phytanate" xref: Reactome:645283 "Alpha-oxidation of phytanate" xref: Reactome:655660 "Alpha-oxidation of phytanate" xref: Reactome:660942 "Alpha-oxidation of phytanate" xref: Reactome:666716 "Alpha-oxidation of phytanate" xref: Reactome:672813 "Alpha-oxidation of phytanate" xref: Reactome:678536 "Alpha-oxidation of phytanate" xref: Reactome:683492 "Alpha-oxidation of phytanate" xref: Reactome:689695 "Alpha-oxidation of phytanate" xref: Reactome:701432 "Alpha-oxidation of phytanate" xref: Reactome:716003 "Alpha-oxidation of phytanate" xref: Reactome:727952 "Alpha-oxidation of phytanate" xref: Reactome:731134 "Alpha-oxidation of phytanate" xref: Reactome:732999 "Alpha-oxidation of phytanate" xref: Reactome:733844 "Alpha-oxidation of phytanate" xref: Reactome:735562 "Alpha-oxidation of phytanate" xref: Reactome:736533 "Alpha-oxidation of phytanate" xref: Reactome:738471 "Alpha-oxidation of phytanate" is_a: GO:0009062 ! fatty acid catabolic process is_a: GO:0019395 ! fatty acid oxidation [Term] id: GO:0001562 name: response to protozoan namespace: biological_process alt_id: GO:0042833 def: "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 stimulus from a protozoan." [GOC:ai] synonym: "resistance to pathogenic protozoa" RELATED [] synonym: "response to protozoa" EXACT [] synonym: "response to protozoon" EXACT [] is_a: GO:0051707 ! response to other organism [Term] id: GO:0001563 name: detection of protozoan namespace: biological_process def: "The series of events in which a stimulus from a protozoan is received and converted into a molecular signal." [GOC:ai] synonym: "detection of protozoa" EXACT [] synonym: "detection of protozoon" EXACT [] synonym: "perception of protozoa" RELATED [] is_a: GO:0001562 ! response to protozoan is_a: GO:0009581 ! detection of external stimulus is_a: GO:0009595 ! detection of biotic stimulus [Term] id: GO:0001564 name: resistance to pathogenic protozoa namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because 'resistance' implies a phenotype rather than a biological process. is_obsolete: true replaced_by: GO:0001562 [Term] id: GO:0001565 name: phorbol ester receptor activity namespace: molecular_function def: "Combining with a phorbol ester to initiate a change in cell activity." [GOC:ai, PMID:10506570] is_a: GO:0004872 ! receptor activity [Term] id: GO:0001566 name: non-kinase phorbol ester receptor activity namespace: molecular_function def: "Phorbol ester/diacylglycerol binding proteins that do not have intrinsic kinase activity." [PMID:10506570] is_a: GO:0001565 ! phorbol ester receptor activity [Term] id: GO:0001567 name: cholesterol 25-hydroxylase activity namespace: molecular_function def: "Catalysis of the reaction: cholesterol + AH2 + O2 = 25-hydroxycholesterol + A + H2O." [EC:1.14.99.38] synonym: "cholesterol 25-monooxygenase activity" EXACT [EC:1.14.99.38] synonym: "cholesterol,hydrogen-donor:oxygen oxidoreductase (25-hydroxylating) activity" EXACT [EC:1.14.99.38] xref: EC:1.14.99.38 xref: MetaCyc:1.14.99.38-RXN is_a: GO:0008395 ! steroid hydroxylase activity is_a: GO:0016705 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen [Term] id: GO:0001568 name: blood vessel development namespace: biological_process def: "The process whose specific outcome is the progression of a blood vessel over time, from its formation to the mature structure. The blood vessel is the vasculature carrying blood." [GOC:hjd] is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0001944 ! vasculature development [Term] id: GO:0001569 name: patterning of blood vessels namespace: biological_process def: "The process that regulates the coordinated growth and sprouting of blood vessels giving rise to the organized vascular system." [GOC:dph] synonym: "branching involved in blood vessel morphogenesis" EXACT [GOC:dph] is_a: GO:0007389 ! pattern specification process is_a: GO:0048754 ! branching morphogenesis of a tube is_a: GO:0061138 ! morphogenesis of a branching epithelium relationship: part_of GO:0001525 ! angiogenesis [Term] id: GO:0001570 name: vasculogenesis namespace: biological_process def: "The differentiation of endothelial cells from progenitor cells during blood vessel development, and the de novo formation of blood vessels and tubes." [PMID:8999798] synonym: "vascular morphogenesis" EXACT [] xref: Wikipedia:Vasculogenesis is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0048514 ! blood vessel morphogenesis [Term] id: GO:0001571 name: non-tyrosine kinase fibroblast growth factor receptor activity namespace: molecular_function def: "A receptor belonging to the FGFR family but lacking the tyrosine kinase domain." [PMID:11418238] synonym: "non-tyrosine kinase FGF receptor activity" EXACT [] synonym: "non-tyrosine kinase FGFR activity" EXACT [] is_a: GO:0004888 ! transmembrane receptor activity [Term] id: GO:0001572 name: lactosylceramide biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of lactosylceramides, Gal beta(1,4)Glc beta(1,1') ceramides, any compound formed by the replacement of the glycosidic C1 hydroxyl group of lactose by a ceramide group. They are the precursors of both gangliosides and globosides." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology", ISBN:0471586501] subset: gosubset_prok synonym: "lactosylceramide anabolism" EXACT [] synonym: "lactosylceramide biosynthesis" EXACT [] synonym: "lactosylceramide formation" EXACT [] synonym: "lactosylceramide synthesis" EXACT [] is_a: GO:0006688 ! glycosphingolipid biosynthetic process is_a: GO:0046476 ! glycosylceramide biosynthetic process is_a: GO:0046478 ! lactosylceramide metabolic process [Term] id: GO:0001573 name: ganglioside metabolic process namespace: biological_process def: "The chemical reactions and pathways involving ceramide oligosaccharides carrying in addition to other sugar residues, one or more sialic acid residues." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] subset: gosubset_prok synonym: "ganglioside metabolism" EXACT [] is_a: GO:0006672 ! ceramide metabolic process is_a: GO:0006687 ! glycosphingolipid metabolic process [Term] id: GO:0001574 name: ganglioside biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of ceramide oligosaccharides carrying in addition to other sugar residues, one or more sialic acid residues." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] subset: gosubset_prok synonym: "ganglioside anabolism" EXACT [] synonym: "ganglioside biosynthesis" EXACT [] synonym: "ganglioside formation" EXACT [] synonym: "ganglioside synthesis" EXACT [] is_a: GO:0001573 ! ganglioside metabolic process is_a: GO:0006688 ! glycosphingolipid biosynthetic process [Term] id: GO:0001575 name: globoside metabolic process namespace: biological_process def: "The chemical reactions and pathways involving globosides, globotetraosylceramides, ceramides containing a core structure of GalNAc-beta-(1,3)-Gal-alpha(1,4)Glc(I). Globosides are the major neutral glycosphingolipid in normal kidneys and erythrocytes." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] subset: gosubset_prok synonym: "globoside metabolism" EXACT [] is_a: GO:0006672 ! ceramide metabolic process is_a: GO:0006687 ! glycosphingolipid metabolic process [Term] id: GO:0001576 name: globoside biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a ceramide with a core structure of GalNAc-beta-(1,3)-Gal-alpha(1,4)Glc(I)." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] subset: gosubset_prok synonym: "globoside anabolism" EXACT [] synonym: "globoside biosynthesis" EXACT [] synonym: "globoside formation" EXACT [] synonym: "globoside synthesis" EXACT [] is_a: GO:0001575 ! globoside metabolic process is_a: GO:0006688 ! glycosphingolipid biosynthetic process [Term] id: GO:0001577 name: galectin namespace: molecular_function def: "OBSOLETE. A lectin that exhibits calcium independent binding of beta-galactoside sugars." [PMID:9786891] comment: This term was made obsolete because it refers to a class of gene products. synonym: "S-type lectin" EXACT [] is_obsolete: true consider: GO:0007157 consider: GO:0016936 [Term] id: GO:0001578 name: microtubule bundle formation namespace: biological_process def: "A process that results in a parallel arrangement of microtubules." [GOC:dph] synonym: "microtubule bundling" EXACT [] is_a: GO:0000226 ! microtubule cytoskeleton organization [Term] id: GO:0001579 name: medium-chain fatty acid transport namespace: biological_process def: "The directed movement of medium-chain fatty acids into, out of, within or between cells by means of some external agent such as a transporter or pore. Medium-chain fatty acids are fatty acids with a chain length of between 8 and 12 carbons." [GOC:ai] is_a: GO:0015908 ! fatty acid transport [Term] id: GO:0001580 name: detection of chemical stimulus involved in sensory perception of bitter taste namespace: biological_process def: "The series of events required for a bitter taste stimulus to be received and converted to a molecular signal." [GOC:go_curators] synonym: "bitter taste detection" EXACT [] synonym: "perception of bitter taste, detection of chemical stimulus" EXACT [] synonym: "perception of bitter taste, sensory transduction of chemical stimulus" EXACT [] synonym: "sensory detection of bitter taste" EXACT [] synonym: "sensory detection of chemical stimulus during perception of bitter taste" EXACT [] synonym: "sensory transduction of bitter taste" EXACT [] synonym: "sensory transduction of chemical stimulus during perception of bitter taste" EXACT [] is_a: GO:0050912 ! detection of chemical stimulus involved in sensory perception of taste relationship: part_of GO:0050913 ! sensory perception of bitter taste [Term] id: GO:0001581 name: detection of chemical stimulus involved in sensory perception of sour taste namespace: biological_process def: "The series of events required for a sour taste stimulus to be received and converted to a molecular signal." [GOC:go_curators] synonym: "perception of sour taste, detection of chemical stimulus" EXACT [] synonym: "perception of sour taste, sensory transduction of chemical stimulus" EXACT [] synonym: "sensory detection of chemical stimulus during perception of sour taste" EXACT [] synonym: "sensory detection of sour taste" EXACT [] synonym: "sensory transduction of chemical stimulus during perception of sour taste" EXACT [] synonym: "sensory transduction of sour taste" EXACT [] synonym: "sour taste detection" EXACT [] is_a: GO:0050912 ! detection of chemical stimulus involved in sensory perception of taste relationship: part_of GO:0050915 ! sensory perception of sour taste [Term] id: GO:0001582 name: detection of chemical stimulus involved in sensory perception of sweet taste namespace: biological_process def: "The series of events required for a sweet taste stimulus to be received and converted to a molecular signal." [GOC:go_curators] synonym: "perception of sweet taste, detection of chemical stimulus" EXACT [] synonym: "perception of sweet taste, sensory transduction of chemical stimulus" EXACT [] synonym: "sensory detection of chemical stimulus during perception of sweet taste" EXACT [] synonym: "sensory detection of sweet taste" EXACT [] synonym: "sensory transduction of chemical stimulus during perception of sweet taste" EXACT [] synonym: "sensory transduction of sweet taste" EXACT [] synonym: "sweet taste detection" EXACT [] is_a: GO:0050912 ! detection of chemical stimulus involved in sensory perception of taste relationship: part_of GO:0050916 ! sensory perception of sweet taste [Term] id: GO:0001583 name: detection of chemical stimulus involved in sensory perception of salty taste namespace: biological_process def: "The series of events required for a salty taste stimulus to be received and converted to a molecular signal." [GOC:go_curators] synonym: "perception of salty taste, detection of chemical stimulus" EXACT [] synonym: "perception of salty taste, sensory transduction of chemical stimulus" EXACT [] synonym: "salty taste detection" EXACT [] synonym: "sensory detection of chemical stimulus during perception of salty taste" EXACT [] synonym: "sensory detection of salty taste" EXACT [] synonym: "sensory transduction of chemical stimulus during perception of salty taste" EXACT [] synonym: "sensory transduction of salty taste" EXACT [] is_a: GO:0050912 ! detection of chemical stimulus involved in sensory perception of taste relationship: part_of GO:0050914 ! sensory perception of salty taste [Term] id: GO:0001584 name: rhodopsin-like receptor activity namespace: molecular_function alt_id: GO:0001620 def: "OBSOLETE. A G-protein coupled receptor that is structurally/functionally related to the rhodopsin receptor." [GOC:dph, GOC:mah, GOC:tb, IUPHAR_GPCR:1505] comment: This term was made obsolete because it represents a gene product and is named based on protein features. subset: gosubset_prok synonym: "Class A G protein coupled receptor" EXACT [] synonym: "Class A G-protein coupled receptor" EXACT [] synonym: "Class A GPCR" EXACT [] synonym: "class A orphan receptor activity" EXACT [] is_obsolete: true [Term] id: GO:0001586 name: 5-HT1 receptor activity namespace: molecular_function is_a: GO:0004993 ! serotonin receptor activity [Term] id: GO:0001587 name: 5-HT2 receptor activity namespace: molecular_function is_a: GO:0004993 ! serotonin receptor activity [Term] id: GO:0001588 name: dopamine receptor activity, coupled via Gs namespace: molecular_function def: "Combining with the neurotransmitter dopamine and activating adenylate cyclase via coupling to Gs to initiate a change in cell activity." [GOC:mah, ISBN:0953351033] is_a: GO:0004952 ! dopamine receptor activity [Term] id: GO:0001589 name: dopamine D5 receptor activity namespace: molecular_function def: "A G-protein coupled receptor that binds dopamine and has the pharmacological characteristics of classic D5 receptors." [IUPHAR_RECEPTOR:2260] is_a: GO:0001588 ! dopamine receptor activity, coupled via Gs [Term] id: GO:0001590 name: dopamine D1 receptor activity namespace: molecular_function def: "A G-protein coupled receptor that binds dopamine and has the pharmacological characteristics of classic D1 receptors." [IUPHAR_RECEPTOR:2252] is_a: GO:0001588 ! dopamine receptor activity, coupled via Gs [Term] id: GO:0001591 name: dopamine receptor activity, coupled via Gi/Go namespace: molecular_function def: "Combining with the neurotransmitter dopamine and activating adenylate cyclase via coupling to Gi/Go to initiate a change in cell activity." [GOC:mah, ISBN:0953351033] is_a: GO:0004952 ! dopamine receptor activity [Term] id: GO:0001592 name: dopamine D3 receptor activity namespace: molecular_function def: "A G-protein coupled receptor that binds dopamine and has the pharmacological characteristics of classic D3 receptors." [IUPHAR_RECEPTOR:2256] is_a: GO:0001591 ! dopamine receptor activity, coupled via Gi/Go [Term] id: GO:0001593 name: dopamine D4 receptor activity namespace: molecular_function def: "A G-protein coupled receptor that binds dopamine and has the pharmacological characteristics of classic D4 receptors." [IUPHAR_RECEPTOR:2258] is_a: GO:0001591 ! dopamine receptor activity, coupled via Gi/Go [Term] id: GO:0001594 name: trace-amine receptor activity namespace: molecular_function is_a: GO:0008227 ! G-protein coupled amine receptor activity [Term] id: GO:0001595 name: angiotensin receptor activity namespace: molecular_function def: "Combining with angiotensin to initiate a change in cell activity." [GOC:ai] is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0001596 name: angiotensin type I receptor activity namespace: molecular_function is_a: GO:0001595 ! angiotensin receptor activity [Term] id: GO:0001597 name: apelin-like receptor namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because the function it represents does not exist. synonym: "APJ-like receptor" EXACT [] is_obsolete: true consider: GO:0031704 [Term] id: GO:0001598 name: chemokine receptor-like receptor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product, was not defined, and is named based on protein features. is_obsolete: true [Term] id: GO:0001599 name: endothelin-A receptor activity namespace: molecular_function def: "A G-protein coupled receptor that preferentially binds endothelin 1." [IUPHAR_RECEPTOR:2263, PMID:8582288] is_a: GO:0004962 ! endothelin receptor activity [Term] id: GO:0001600 name: endothelin-B receptor activity namespace: molecular_function def: "A G-protein coupled receptor that binds all endothelin molecules with approximately equal affinity." [IUPHAR_RECEPTOR:2265, PMID:8582288] is_a: GO:0004962 ! endothelin receptor activity [Term] id: GO:0001601 name: peptide YY receptor activity namespace: molecular_function def: "Combining with gut peptide YY to initiate a change in cell activity." [PMID:9315606] is_a: GO:0004983 ! neuropeptide Y receptor activity [Term] id: GO:0001602 name: pancreatic polypeptide receptor activity namespace: molecular_function def: "Combining with pancreatic polypeptide PP to initiate a change in cell activity." [PMID:9315606] is_a: GO:0004983 ! neuropeptide Y receptor activity [Term] id: GO:0001603 name: vasopressin-like receptor activity namespace: molecular_function is_obsolete: true [Term] id: GO:0001604 name: urotensin II receptor activity namespace: molecular_function is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0001605 name: adrenomedullin receptor activity namespace: molecular_function def: "Combining with adrenomedullin to initiate a change in cell activity." [GOC:ai] synonym: "G10D receptor" NARROW [] is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0001606 name: GPR37/endothelin B-like receptor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product, was not defined, and is named based on protein features. is_obsolete: true [Term] id: GO:0001607 name: neuromedin U receptor activity namespace: molecular_function def: "Combining with neuromedin U to initiate a change in cell activity." [GOC:ai] synonym: "NMUR activity" EXACT [] is_a: GO:0008188 ! neuropeptide receptor activity is_a: GO:0042924 ! neuromedin U binding [Term] id: GO:0001608 name: nucleotide receptor activity, G-protein coupled namespace: molecular_function def: "A GPCR that binds a nucleotide or nucleotide derivative as its ligand." [GOC:dph, IUPHAR_GPCR:1294] synonym: "G protein coupled nucleotide receptor activity" EXACT [] synonym: "G-protein-coupled nucleotide receptor activity" EXACT [] synonym: "nucleotide receptor activity, G protein coupled" EXACT [] is_a: GO:0004930 ! G-protein coupled receptor activity [Term] id: GO:0001609 name: adenosine receptor activity, G-protein coupled namespace: molecular_function alt_id: GO:0001610 alt_id: GO:0001611 alt_id: GO:0001612 alt_id: GO:0001613 alt_id: GO:0008501 def: "Combining with adenosine and transmitting the signal to a heterotrimeric G-protein complex to initiate a change in cell activity." [GOC:mah, PMID:9755289] synonym: "A1 adenosine receptor activity, G protein coupled" NARROW [] synonym: "A1 adenosine receptor activity, G-protein coupled" NARROW [] synonym: "A2A adenosine receptor activity, G protein coupled" NARROW [] synonym: "A2A adenosine receptor activity, G-protein coupled" NARROW [] synonym: "A2B adenosine receptor activity, G protein coupled" NARROW [] synonym: "A2B adenosine receptor activity, G-protein coupled" NARROW [] synonym: "A3 adenosine receptor activity, G protein coupled" NARROW [] synonym: "A3 adenosine receptor activity, G-protein coupled" NARROW [] synonym: "adenosine nucleotide receptor" BROAD [] synonym: "adenosine receptor activity, G protein coupled" EXACT [] synonym: "G protein coupled A1 adenosine receptor activity" NARROW [] synonym: "G protein coupled A2A adenosine receptor activity" NARROW [] synonym: "G protein coupled A2B adenosine receptor activity" NARROW [] synonym: "G protein coupled A3 adenosine receptor activity" NARROW [] synonym: "G protein coupled adenosine receptor activity" EXACT [] synonym: "G-protein-coupled A1 adenosine receptor activity" NARROW [] synonym: "G-protein-coupled A2A adenosine receptor activity" NARROW [] synonym: "G-protein-coupled A2B adenosine receptor activity" NARROW [] synonym: "G-protein-coupled A3 adenosine receptor activity" NARROW [] synonym: "G-protein-coupled adenosine receptor activity" EXACT [] xref: Reactome:71 "adenosine receptor activity, G-protein coupled" is_a: GO:0045028 ! purinergic nucleotide receptor activity, G-protein coupled [Term] id: GO:0001614 name: purinergic nucleotide receptor activity namespace: molecular_function def: "Combining with a purine nucleotide to initiate a change in cell activity." [GOC:mah] synonym: "P2Y receptor" NARROW [] synonym: "purinoceptor" BROAD [] synonym: "purinoreceptor" BROAD [] is_a: GO:0016502 ! nucleotide receptor activity [Term] id: GO:0001615 name: thyrotropin releasing hormone and secretagogue-like receptors activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product, was not defined, and is named based on protein features. is_obsolete: true [Term] id: GO:0001616 name: growth hormone secretagogue receptor activity namespace: molecular_function is_a: GO:0004930 ! G-protein coupled receptor activity [Term] id: GO:0001617 name: growth hormone secretagogue-like receptor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product, was not defined, and is named based on protein features. is_obsolete: true [Term] id: GO:0001618 name: viral receptor activity namespace: molecular_function def: "Combining with a virus component to initiate a change in cell activity." [GOC:dph] is_a: GO:0004872 ! receptor activity [Term] id: GO:0001619 name: lysosphingolipid and lysophosphatidic acid receptor activity namespace: molecular_function def: "Combining with lysosphingolipid or lysophosphatidic acid to initiate a change in cell activity." [GOC:dph] is_a: GO:0045125 ! bioactive lipid receptor activity [Term] id: GO:0001621 name: platelet ADP receptor activity namespace: molecular_function synonym: "K101 receptor" NARROW [] is_a: GO:0004930 ! G-protein coupled receptor activity [Term] id: GO:0001622 name: super conserved receptor expressed in brain receptor activity namespace: molecular_function synonym: "SREB receptor" EXACT [] is_a: GO:0004930 ! G-protein coupled receptor activity [Term] id: GO:0001623 name: Mas proto-oncogene receptor activity namespace: molecular_function is_a: GO:0004930 ! G-protein coupled receptor activity [Term] id: GO:0001624 name: RDC1 receptor activity namespace: molecular_function is_a: GO:0004930 ! G-protein coupled receptor activity [Term] id: GO:0001625 name: Epstein-Barr Virus-induced receptor activity namespace: molecular_function synonym: "EBV-induced receptor" EXACT [] is_a: GO:0004930 ! G-protein coupled receptor activity [Term] id: GO:0001626 name: nociceptin/orphanin-FQ receptor activity namespace: molecular_function synonym: "ORPH receptor" EXACT [] is_a: GO:0004930 ! G-protein coupled receptor activity [Term] id: GO:0001627 name: leucine-rich G-protein receptor-like receptor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product, was not defined, and is named based on protein features. synonym: "leucine-rich G protein receptor-like receptor activity" EXACT [] synonym: "LGR-like receptor" EXACT [] is_obsolete: true [Term] id: GO:0001628 name: gastropyloric receptor activity namespace: molecular_function synonym: "GPR receptor" EXACT [] is_a: GO:0004930 ! G-protein coupled receptor activity [Term] id: GO:0001629 name: G-protein receptor 45-like receptor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product, was not defined, and is named based on protein features. synonym: "G protein receptor 45-like receptor activity" EXACT [] synonym: "GPR45-like receptor" EXACT [] is_obsolete: true [Term] id: GO:0001630 name: GP40-like receptor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product, was not defined, and is named based on protein features. is_obsolete: true [Term] id: GO:0001631 name: cysteinyl leukotriene receptor activity namespace: molecular_function def: "Combining with a cysteinyl leukotriene to initiate a change in cell activity. Cysteinyl leukotrienes are leukotrienes that contain a peptide moiety based on cysteine." [GOC:ai, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] synonym: "CysLT receptor" EXACT [] is_a: GO:0004974 ! leukotriene receptor activity [Term] id: GO:0001632 name: leukotriene B4 receptor activity namespace: molecular_function def: "Combining with leukotriene B4, LTB4, to initiate a change in cell activity. Leukotriene B4 is also known as (6Z, 8E, 10E, 14Z)-(5S, 12R)-5,12-dihydroxyicosa-6,8,10,14-tetraen-1-oate." [GOC:ai, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] synonym: "BLT receptor" NARROW [] is_a: GO:0004974 ! leukotriene receptor activity [Term] id: GO:0001633 name: secretin-like receptor activity namespace: molecular_function alt_id: GO:0001638 def: "OBSOLETE. A G-protein coupled receptor that is structurally/functionally related to the secretin receptor." [GOC:mah, IUPHAR_GPCR:1506] comment: This term was made obsolete because it represents a gene product and is named based on protein features. synonym: "class B G protein coupled receptor" EXACT [] synonym: "class B G-protein coupled receptor" EXACT [] synonym: "class B GPCR" EXACT [] synonym: "class B orphan receptor activity" EXACT [] is_obsolete: true [Term] id: GO:0001634 name: pituitary adenylate cyclase-activating polypeptide receptor activity namespace: molecular_function alt_id: GO:0016522 def: "A G-protein coupled receptor that interacts with pituitary adenylate cyclase-activating polypeptide." [GOC:dph, GOC:tb] synonym: "PACAP receptor" EXACT [] synonym: "pituitary adenylate cyclase activating polypeptide receptor" EXACT [] synonym: "pituitary adenylate cyclase activating protein receptor activity" EXACT [GOC:dph, GOC:tb] synonym: "pituitary adenylate cyclase-activating peptide receptor activity" RELATED [] synonym: "pituitary adenylate cyclase-activating polypeptide receptor activity" RELATED [] synonym: "pituitary adenylyl cyclase activating protein receptor activity" EXACT [] xref: Reactome:272 "pituitary adenylate cyclase-activating polypeptide receptor activity" is_a: GO:0004930 ! G-protein coupled receptor activity [Term] id: GO:0001635 name: calcitonin gene-related polypeptide receptor activity namespace: molecular_function synonym: "CGRP receptor" EXACT [] xref: Wikipedia:CALCRL is_a: GO:0004930 ! G-protein coupled receptor activity [Term] id: GO:0001636 name: corticotrophin-releasing factor gastric inhibitory peptide-like receptor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product, was not defined, and is named based on protein features. is_obsolete: true [Term] id: GO:0001637 name: G-protein chemoattractant receptor activity namespace: molecular_function synonym: "G protein chemoattractant receptor activity" EXACT [] is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0001639 name: PLC activating metabotropic glutamate receptor activity namespace: molecular_function def: "A G-protein coupled receptor that binds glutamate and is linked to the inositol 1,4,5-trisphosphate/calcium signaling system." [PMID:9016303] synonym: "Group I metabotropic glutamate receptor" RELATED [] synonym: "group I metabotropic glutamate receptor activity" RELATED [] synonym: "phospholipase C activating metabotropic glutamate receptor activity" EXACT [] is_a: GO:0008066 ! glutamate receptor activity [Term] id: GO:0001640 name: adenylate cyclase inhibiting metabotropic glutamate receptor activity namespace: molecular_function def: "A G-protein coupled receptor that binds glutamate and inhibits adenylate cyclase activity." [GOC:dph] synonym: "adenylyl cyclase inhibiting metabotropic glutamate receptor activity" EXACT [] is_a: GO:0004930 ! G-protein coupled receptor activity is_a: GO:0008066 ! glutamate receptor activity relationship: part_of GO:0007196 ! inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway [Term] id: GO:0001641 name: group II metabotropic glutamate receptor activity namespace: molecular_function def: "A G-protein coupled receptor that is activated by trans-1-aminocyclopentane-1,3-dicarboxylic acid (t-ACPD) and inhibits adenylate cyclase activity." [GOC:dph] is_a: GO:0001640 ! adenylate cyclase inhibiting metabotropic glutamate receptor activity [Term] id: GO:0001642 name: group III metabotropic glutamate receptor activity namespace: molecular_function def: "A G-protein coupled receptor that is activated by L-AP-4 and inhibits adenylate cyclase activity." [PMID:9016303] is_a: GO:0001640 ! adenylate cyclase inhibiting metabotropic glutamate receptor activity [Term] id: GO:0001646 name: cAMP receptor activity namespace: molecular_function alt_id: GO:0001644 def: "Combining with cAMP (cyclic AMP, adenosine 3',5'-cyclophosphate) to initiate a change in cell activity." [GOC:pg] synonym: "3',5' cAMP receptor activity" EXACT [] synonym: "3',5'-cAMP receptor activity" EXACT [] synonym: "adenosine 3',5'-cyclophosphate receptor activity" EXACT [] synonym: "class E G protein coupled receptor" BROAD [] synonym: "class E G-protein coupled receptor" BROAD [] synonym: "class E GPCR" BROAD [] synonym: "cyclic AMP receptor activity" EXACT [] is_a: GO:0016502 ! nucleotide receptor activity is_a: GO:0030552 ! cAMP binding [Term] id: GO:0001647 name: G-protein coupled cytokinin receptor activity namespace: molecular_function def: "Combining with a cytokinin to initiate a change in cell activity. The receptor is G-protein coupled." [GOC:dph] synonym: "G protein coupled cytokinin receptor activity" EXACT [] synonym: "G-protein-coupled cytokinin receptor activity" EXACT [] is_a: GO:0004930 ! G-protein coupled receptor activity is_a: GO:0009884 ! cytokinin receptor activity [Term] id: GO:0001648 name: proteinase activated receptor activity namespace: molecular_function is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0001649 name: osteoblast differentiation namespace: biological_process def: "The process whereby a relatively unspecialized cell acquires the specialized features of an osteoblast, the mesodermal cell that gives rise to bone." [GOC:jid, http://cancerweb.ncl.ac.uk] synonym: "osteoblast cell differentiation" EXACT [] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0001503 ! ossification [Term] id: GO:0001650 name: fibrillar center namespace: cellular_component def: "A structure found most metazoan nucleoli, but not usually found in lower eukaryotes; surrounded by the dense fibrillar component; the zone of transcription from multiple copies of the pre-rRNA genes is in the border region between these two structures." [PMID:10754561] synonym: "fibrillar centre" EXACT [] is_a: GO:0044452 ! nucleolar part [Term] id: GO:0001651 name: dense fibrillar component namespace: cellular_component def: "A structure found in the nucleolus, which contains newly synthesized preribosomal RNA (pre-rRNA) and a collection of proteins." [PMID:10754561] is_a: GO:0044452 ! nucleolar part [Term] id: GO:0001652 name: granular component namespace: cellular_component def: "A structure found in the nucleolus, which contains nearly completed preribosomal particles destined for the cytoplasm." [PMID:10754561] is_a: GO:0044452 ! nucleolar part [Term] id: GO:0001653 name: peptide receptor activity namespace: molecular_function def: "Combining with an extracellular or intracellular peptide to initiate a change in cell activity." [GOC:jl] synonym: "endogenous peptide receptor activity" NARROW [] synonym: "exogenous peptide receptor activity" NARROW [] is_a: GO:0004872 ! receptor activity is_a: GO:0042277 ! peptide binding [Term] id: GO:0001654 name: eye development namespace: biological_process alt_id: GO:0042460 def: "The process whose specific outcome is the progression of the eye over time, from its formation to the mature structure. The eye is the organ of sight." [GOC:jid, GOC:jl] xref: Wikipedia:Eye_development is_a: GO:0007423 ! sensory organ development [Term] id: GO:0001655 name: urogenital system development namespace: biological_process def: "The process whose specific outcome is the progression of the urogenital system over time, from its formation to the mature structure." [GOC:go_curators] is_a: GO:0048731 ! system development [Term] id: GO:0001656 name: metanephros development namespace: biological_process def: "The process whose specific outcome is the progression of the metanephros over time, from its formation to the mature structure. In mammals, the metanephros is the excretory organ of the fetus, which develops into the mature kidney and is formed from the rear portion of the nephrogenic cord. The metanephros is an endocrine and metabolic organ that filters the blood and excretes the end products of body metabolism in the form of urine." [GOC:bf, ISBN:0192800752] is_a: GO:0001822 ! kidney development [Term] id: GO:0001657 name: ureteric bud development namespace: biological_process def: "The process whose specific outcome is the progression of the ureteric bud over time, from its formation to the mature structure." [GOC:go_curators] is_a: GO:0035295 ! tube development [Term] id: GO:0001658 name: branching involved in ureteric bud morphogenesis namespace: biological_process def: "The process by which the branching structure of the ureteric bud is generated and organized. The ureteric bud is an epithelial tube that grows out from the metanephric duct. The bud elongates and branches to give rise to the ureter and kidney collecting tubules." [GOC:dph, PMID:16916378] synonym: "ureteric bud branching" EXACT [GOC:dph] is_a: GO:0048754 ! branching morphogenesis of a tube is_a: GO:0061138 ! morphogenesis of a branching epithelium relationship: part_of GO:0060675 ! ureteric bud morphogenesis [Term] id: GO:0001659 name: temperature homeostasis namespace: biological_process def: "A homeostatic process by which an organism modulates its internal body temperature." [GOC:jl] synonym: "thermoregulation" EXACT [GOC:dph, GOC:tb] xref: Wikipedia:Thermoregulation is_a: GO:0048871 ! multicellular organismal homeostasis [Term] id: GO:0001660 name: fever namespace: biological_process def: "A rise in body temperature above the normal, often as a response to infection." [GOC:jl] synonym: "pyrexia" BROAD [] xref: Wikipedia:Fever is_a: GO:0006953 ! acute-phase response is_a: GO:0031649 ! heat generation [Term] id: GO:0001661 name: conditioned taste aversion namespace: biological_process def: "A conditioned aversion to a specific chemical compound as a result of that compound being coupled with a noxious stimulus." [GOC:dph, PMID:9920659] xref: Wikipedia:Conditioned_taste_aversion xref: Wikipedia:Taste_aversion is_a: GO:0007631 ! feeding behavior is_a: GO:0008306 ! associative learning [Term] id: GO:0001662 name: behavioral fear response namespace: biological_process def: "An acute behavioral change resulting from a perceived external threat." [GOC:dph, PMID:9920659] synonym: "behavioural fear response" EXACT [] is_a: GO:0002209 ! behavioral defense response is_a: GO:0042596 ! fear response [Term] id: GO:0001664 name: G-protein-coupled receptor binding namespace: molecular_function def: "Interacting selectively and non-covalently with a G-protein-coupled receptor." [GOC:ceb, GOC:dph] synonym: "G protein coupled receptor binding" EXACT [] synonym: "G protein coupled receptor ligand" NARROW [] synonym: "G-protein-coupled receptor ligand" NARROW [] xref: Reactome:260 "G-protein-coupled receptor binding" is_a: GO:0005102 ! receptor binding [Term] id: GO:0001665 name: alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: CMP-N-acetylneuraminate + glycano-1,3-(N-acetyl-alpha-D-galactosaminyl)-glycoprotein = CMP + glycano-(2,6-alpha-N-acetylneuraminyl)-(N-acetyl-D-galactosaminyl)-glycoprotein." [EC:2.4.99.3] synonym: "CMP-N-acetylneuraminate:glycano-1,3-(N-acetyl-alpha-D-galactosaminyl)-glycoprotein alpha-2,6-N-acetylneuraminyltransferase activity" EXACT [EC:2.4.99.3] synonym: "GalNAc alpha-2,6-sialyltransferase I activity" EXACT [EC:2.4.99.3] xref: EC:2.4.99.3 xref: MetaCyc:2.4.99.3-RXN is_a: GO:0008373 ! sialyltransferase activity [Term] id: GO:0001666 name: response to hypoxia namespace: biological_process def: "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 stimulus indicating lowered oxygen tension. Hypoxia, defined as a decline in O2 levels below normoxic levels of 20.8 - 20.95%, results in metabolic adaptation at both the cellular and organismal level." [GOC:hjd] comment: Note that this term should not be confused with 'response to anoxia ; GO:0034059'. Note that in laboratory studies, hypoxia is typically studied at O2 concentrations ranging from 0.1 - 5%. synonym: "response to hypoxic stress" EXACT [] synonym: "response to lowered oxygen tension" EXACT [] is_a: GO:0006950 ! response to stress is_a: GO:0070482 ! response to oxygen levels [Term] id: GO:0001667 name: ameboidal cell migration namespace: biological_process def: "Cell migration that is accomplished by extension and retraction of a pseudopodium." [GOC:dph] synonym: "ameboid cell migration" EXACT [] synonym: "amoeboid cell migration" EXACT [] synonym: "amoeboidal cell migration" EXACT [] is_a: GO:0016477 ! cell migration [Term] id: GO:0001669 name: acrosomal vesicle namespace: cellular_component def: "A structure in the head of a spermatozoon that contains acid hydrolases, and is concerned with the breakdown of the outer membrane of the ovum during fertilization. It lies just beneath the plasma membrane and is derived from the lysosome." [ISBN:0124325653, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] synonym: "acrosome" RELATED [GOC:dph] xref: Wikipedia:Acrosome is_a: GO:0030141 ! stored secretory granule [Term] id: GO:0001670 name: dopamine D2 receptor activity namespace: molecular_function def: "A G-protein coupled receptor that binds dopamine and has the pharmacological characteristics of classic D2 receptors." [IUPHAR_RECEPTOR:2254] is_a: GO:0001591 ! dopamine receptor activity, coupled via Gi/Go [Term] id: GO:0001671 name: ATPase activator activity namespace: molecular_function def: "Functions to increase the rate of ATP hydrolysis." [GOC:ajp] synonym: "ATPase stimulator activity" EXACT [] is_a: GO:0008047 ! enzyme activator activity is_a: GO:0060590 ! ATPase regulator activity relationship: positively_regulates GO:0016887 ! ATPase activity [Term] id: GO:0001672 name: regulation of chromatin assembly or disassembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of chromatin assembly or disassembly." [GOC:go_curators] synonym: "regulation of chromatin assembly/disassembly" EXACT [] is_a: GO:0033044 ! regulation of chromosome organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006333 ! chromatin assembly or disassembly relationship: regulates GO:0006333 ! chromatin assembly or disassembly [Term] id: GO:0001673 name: male germ cell nucleus namespace: cellular_component alt_id: GO:0043081 def: "The nucleus of a male germ cell, a reproductive cell in males." [GOC:hjd, GOC:mtg_sensu, http://cancerweb.ncl.ac.uk] synonym: "male germ-cell nucleus" EXACT [] is_a: GO:0043073 ! germ cell nucleus [Term] id: GO:0001674 name: female germ cell nucleus namespace: cellular_component alt_id: GO:0043080 def: "The nucleus of the female germ cell, a reproductive cell in females." [GOC:hjd, http://cancerweb.ncl.ac.uk] synonym: "female germ-cell nucleus" EXACT [] is_a: GO:0043073 ! germ cell nucleus [Term] id: GO:0001675 name: acrosome assembly namespace: biological_process def: "The formation of the acrosome from the spermatid Golgi." [GOC:dph, GOC:hjd, GOC:tb] synonym: "acrosome formation" EXACT [GOC:dph, GOC:tb] is_a: GO:0003006 ! reproductive developmental process is_a: GO:0010927 ! cellular component assembly involved in morphogenesis relationship: part_of GO:0007286 ! spermatid development [Term] id: GO:0001676 name: long-chain fatty acid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving long-chain fatty acids, aliphatic compounds having a terminal carboxyl group and with a chain length of C12-18." [GOC:ajp] subset: gosubset_prok synonym: "long-chain fatty acid metabolism" EXACT [] is_a: GO:0006631 ! fatty acid metabolic process [Term] id: GO:0001677 name: formation of translation initiation ternary complex namespace: biological_process def: "Formation of a complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2 (either eIF2 in eukaryotes, or IF2 in prokaryotes). In prokaryotes, fMet-tRNA (initiator) is used rather than Met-tRNA (initiator)." [GOC:hjd] subset: gosubset_prok synonym: "translation initiation ternary complex assembly" EXACT [] is_a: GO:0022618 ! ribonucleoprotein complex assembly relationship: part_of GO:0006413 ! translational initiation [Term] id: GO:0001678 name: cellular glucose homeostasis namespace: biological_process def: "A cellular homeostatic process involved in the maintenance of an internal steady-state of glucose within a cell or between a cell and its external environment." [GOC:dph, GOC:go_curators, GOC:tb] subset: gosubset_prok synonym: "cell glucose homeostasis" EXACT [GOC:dph, GOC:tb] is_a: GO:0042593 ! glucose homeostasis is_a: GO:0055082 ! cellular chemical homeostasis [Term] id: GO:0001680 name: tRNA 3'-terminal CCA addition namespace: biological_process def: "Post-transcriptional addition of the terminal 3' CCA sequence to a tRNA which does not encode this sequence within the primary transcript." [GOC:go_curators] subset: gosubset_prok is_a: GO:0042780 ! tRNA 3'-end processing [Term] id: GO:0001681 name: sialate O-acetylesterase activity namespace: molecular_function def: "Catalysis of the reaction: N-acetyl-O-acetylneuraminate (free or glycosidically bound) + H2O = N-acetylneuraminate + acetate." [EC:3.1.1.53, PMID:1991039] subset: gosubset_prok synonym: "N-acetylneuraminate acetyltransferase activity" EXACT [EC:3.1.1.53] synonym: "N-acyl-O-acetylneuraminate O-acetylhydrolase activity" EXACT [EC:3.1.1.53] synonym: "sialate 9(4)-O-acetylesterase activity" EXACT [] xref: EC:3.1.1.53 xref: MetaCyc:SIALATE-O-ACETYLESTERASE-RXN is_a: GO:0008126 ! acetylesterase activity [Term] id: GO:0001682 name: tRNA 5'-leader removal namespace: biological_process def: "Generation of the mature 5'-end of the tRNA, usually via an endonucleolytic cleavage by RNase P." [PMID:11592395] subset: gosubset_prok synonym: "tRNA 5' leader removal" EXACT [] is_a: GO:0008033 ! tRNA processing [Term] id: GO:0001683 name: axonemal dynein heavy chain namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. is_obsolete: true replaced_by: GO:0005858 [Term] id: GO:0001684 name: axonemal dynein intermediate chain namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. is_obsolete: true replaced_by: GO:0005858 [Term] id: GO:0001685 name: axonemal dynein intermediate light chain namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. is_obsolete: true replaced_by: GO:0005858 [Term] id: GO:0001686 name: axonemal dynein light chain namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. is_obsolete: true replaced_by: GO:0005858 [Term] id: GO:0001687 name: cytoplasmic dynein heavy chain namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. is_obsolete: true replaced_by: GO:0005868 [Term] id: GO:0001688 name: cytoplasmic dynein intermediate chain namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. is_obsolete: true replaced_by: GO:0005868 [Term] id: GO:0001689 name: cytoplasmic dynein intermediate light chain namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. is_obsolete: true replaced_by: GO:0005868 [Term] id: GO:0001690 name: cytoplasmic dynein light chain namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. is_obsolete: true replaced_by: GO:0005868 [Term] id: GO:0001691 name: pseudophosphatase activity namespace: molecular_function def: "Maintains the phosphorylation state of certain molecules by associating with them and preventing them from associating with active phosphatases, and thus inhibiting the enzyme activity without interacting with the enzyme. Often pertains to proteins belonging to dual-specificity phosphatase family but lacking critical active site residues." [GOC:ajp] is_a: GO:0019212 ! phosphatase inhibitor activity [Term] id: GO:0001692 name: histamine metabolic process namespace: biological_process def: "The chemical reactions and pathways involving histamine, a physiologically active amine, found in plant and animal tissue and released from mast cells as part of an allergic reaction in humans." [GOC:jl, ISBN:0395825172] synonym: "histamine metabolism" EXACT [] is_a: GO:0006576 ! cellular biogenic amine metabolic process is_a: GO:0046483 ! heterocycle metabolic process [Term] id: GO:0001694 name: histamine biosynthetic process namespace: biological_process alt_id: GO:0001693 def: "The chemical reactions and pathways resulting in the formation of histamine, a physiologically active amine, found in plant and animal tissue and released from mast cells as part of an allergic reaction in humans." [GOC:jl, ISBN:0395825172] synonym: "histamine anabolism" EXACT [] synonym: "histamine biosynthesis" EXACT [] synonym: "histamine formation" EXACT [] synonym: "histamine synthesis" EXACT [] is_a: GO:0001692 ! histamine metabolic process is_a: GO:0018130 ! heterocycle biosynthetic process is_a: GO:0042401 ! cellular biogenic amine biosynthetic process [Term] id: GO:0001695 name: histamine catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of histamine, a physiologically active amine, found in plant and animal tissue and released from mast cells as part of an allergic reaction in humans." [GOC:jl, ISBN:0395825172] synonym: "histamine breakdown" EXACT [] synonym: "histamine catabolism" EXACT [] synonym: "histamine degradation" EXACT [] is_a: GO:0001692 ! histamine metabolic process is_a: GO:0042135 ! neurotransmitter catabolic process is_a: GO:0042402 ! cellular biogenic amine catabolic process is_a: GO:0046700 ! heterocycle catabolic process [Term] id: GO:0001696 name: gastric acid secretion namespace: biological_process def: "The regulated release of gastric acid (hydrochloric acid) by parietal or oxyntic cells during digestion." [GOC:hjd] synonym: "hydrochloric acid secretion" NARROW [] is_a: GO:0022600 ! digestive system process is_a: GO:0046717 ! acid secretion [Term] id: GO:0001697 name: histamine-induced gastric acid secretion namespace: biological_process def: "The regulated release of gastric acid induced by the interaction of histamine with H2 type receptor receptors with subsequent activation of adenylate cyclase and elevation of intracellular cyclic AMP." [GOC:hjd] is_a: GO:0001696 ! gastric acid secretion [Term] id: GO:0001698 name: gastrin-induced gastric acid secretion namespace: biological_process def: "The regulated release of gastric acid induced by the interaction of gastrin with its receptor." [GOC:hjd] is_a: GO:0001696 ! gastric acid secretion [Term] id: GO:0001699 name: acetylcholine-induced gastric acid secretion namespace: biological_process def: "The regulated release of gastric acid by parietal cells in response to acetylcholine." [GOC:hjd] is_a: GO:0001696 ! gastric acid secretion [Term] id: GO:0001700 name: embryonic development via the syncytial blastoderm namespace: biological_process def: "The process whose specific outcome is the progression of the embryo over time, from zygote formation through syncytial blastoderm to the hatching of the first instar larva. An example of this process is found in Drosophila melanogaster." [GOC:go_curators, GOC:mtg_sensu] is_a: GO:0009792 ! embryo development ending in birth or egg hatching [Term] id: GO:0001701 name: in utero embryonic development namespace: biological_process def: "The process whose specific outcome is the progression of the embryo in the uterus over time, from formation of the zygote in the oviduct, to birth. An example of this process is found in Mus musculus." [GOC:go_curators, GOC:mtg_sensu] is_a: GO:0043009 ! chordate embryonic development [Term] id: GO:0001702 name: gastrulation with mouth forming second namespace: biological_process alt_id: GO:0010003 alt_id: GO:0048276 def: "A gastrulation process in which the initial invagination becomes the anus and the mouth forms second." [GOC:go_curators, GOC:mtg_sensu] synonym: "deuterostomic gastrulation" EXACT [GOC:dph] is_a: GO:0007369 ! gastrulation [Term] id: GO:0001703 name: gastrulation with mouth forming first namespace: biological_process def: "A gastrulation process in which the initial invagination becomes the mouth and the anus forms second." [GOC:go_curators, GOC:mtg_sensu] synonym: "protostomic gastrulation" EXACT [GOC:dph] is_a: GO:0007369 ! gastrulation [Term] id: GO:0001704 name: formation of primary germ layer namespace: biological_process def: "The formation of the ectoderm, mesoderm and endoderm during gastrulation." [GOC:go_curators] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis relationship: part_of GO:0007369 ! gastrulation [Term] id: GO:0001705 name: ectoderm formation namespace: biological_process def: "The formation of ectoderm during gastrulation." [GOC:go_curators] is_a: GO:0001704 ! formation of primary germ layer relationship: part_of GO:0007398 ! ectoderm development [Term] id: GO:0001706 name: endoderm formation namespace: biological_process def: "The formation of the endoderm during gastrulation." [GOC:go_curators] synonym: "endoblast formation" NARROW [GOC:dph, GOC:sdb_2009, GOC:tb] is_a: GO:0001704 ! formation of primary germ layer relationship: part_of GO:0007492 ! endoderm development [Term] id: GO:0001707 name: mesoderm formation namespace: biological_process def: "The process that gives rise to the mesoderm. This process pertains to the initial formation of the structure from unspecified parts." [GOC:go_curators] is_a: GO:0001704 ! formation of primary germ layer relationship: part_of GO:0048332 ! mesoderm morphogenesis [Term] id: GO:0001708 name: cell fate specification namespace: biological_process def: "The process involved in the specification of cell identity. Once specification has taken place, a cell will be committed to differentiate down a specific pathway if left in its normal environment." [GOC:go_curators] is_a: GO:0048869 ! cellular developmental process relationship: part_of GO:0045165 ! cell fate commitment [Term] id: GO:0001709 name: cell fate determination namespace: biological_process def: "Process involved in cell fate commitment. Once determination has taken place, a cell becomes committed to differentiate down a particular pathway regardless of its environment." [ISBN:0878932437] xref: Wikipedia:Cell_fate_determination is_a: GO:0048869 ! cellular developmental process relationship: part_of GO:0045165 ! cell fate commitment [Term] id: GO:0001710 name: mesodermal cell fate commitment namespace: biological_process def: "The process by which a cell becomes committed to become part of the mesoderm." [GOC:go_curators, ISBN:0878932437] synonym: "mesoderm cell fate commitment" EXACT [] is_a: GO:0060795 ! cell fate commitment involved in the formation of primary germ layers relationship: part_of GO:0048333 ! mesodermal cell differentiation [Term] id: GO:0001711 name: endodermal cell fate commitment namespace: biological_process def: "The process by which a cell becomes committed to become part of the endoderm." [GOC:go_curators, ISBN:0878932437] synonym: "endoderm cell fate commitment" EXACT [] is_a: GO:0060795 ! cell fate commitment involved in the formation of primary germ layers relationship: part_of GO:0001706 ! endoderm formation [Term] id: GO:0001712 name: ectodermal cell fate commitment namespace: biological_process def: "The process by which a cell becomes committed to become part of the ectoderm." [GOC:go_curators, ISBN:0878932437] synonym: "ectoderm cell fate commitment" EXACT [] is_a: GO:0060795 ! cell fate commitment involved in the formation of primary germ layers relationship: part_of GO:0001705 ! ectoderm formation relationship: part_of GO:0010668 ! ectodermal cell differentiation [Term] id: GO:0001713 name: ectodermal cell fate determination namespace: biological_process def: "Process by which a cell becomes capable of differentiating autonomously into an ectoderm cell regardless of its environment; upon determination, the cell fate cannot be reversed." [GOC:go_curators, ISBN:0878932437] synonym: "ectoderm cell fate determination" EXACT [] is_a: GO:0001709 ! cell fate determination relationship: part_of GO:0001712 ! ectodermal cell fate commitment [Term] id: GO:0001714 name: endodermal cell fate specification namespace: biological_process def: "Process by which a cell becomes capable of differentiating autonomously into an endoderm cell in an environment that is neutral with respect to the developmental pathway; upon specification, the cell fate can be reversed." [GOC:go_curators] synonym: "endoderm cell fate specification" EXACT [] is_a: GO:0001708 ! cell fate specification relationship: part_of GO:0001711 ! endodermal cell fate commitment [Term] id: GO:0001715 name: ectodermal cell fate specification namespace: biological_process def: "Process by which a cell becomes capable of differentiating autonomously into an ectoderm cell in an environment that is neutral with respect to the developmental pathway; upon specification, the cell fate can be reversed." [GOC:go_curators] synonym: "ectoderm cell fate specification" EXACT [] is_a: GO:0001708 ! cell fate specification relationship: part_of GO:0001712 ! ectodermal cell fate commitment [Term] id: GO:0001716 name: L-amino-acid oxidase activity namespace: molecular_function def: "Catalysis of the reaction: a L-amino acid + H2O + O2 = a 2-oxo acid + NH3 + H2O2." [EC:1.4.3.2] subset: gosubset_prok synonym: "L-amino-acid:oxygen oxidoreductase (deaminating)" EXACT [EC:1.4.3.2] synonym: "ophio-amino-acid oxidase activity" EXACT [EC:1.4.3.2] xref: EC:1.4.3.2 xref: MetaCyc:L-AMINO-ACID-OXIDASE-RXN is_a: GO:0016641 ! oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor [Term] id: GO:0001717 name: conversion of seryl-tRNAsec to selenocys-tRNAsec namespace: biological_process def: "Process whereby serine carried by a specialized tRNA(ser) (which can read a UGA anticodon) is converted to selenocysteine." [ISBN:155581073X] subset: gosubset_prok is_a: GO:0019988 ! charged-tRNA amino acid modification [Term] id: GO:0001720 name: conversion of lysyl-tRNA to pyrrolysyl-tRNA namespace: biological_process def: "Process whereby lysine carried by a specialized lysine-accepting tRNA (possessing a CUA anticodon) is converted to pyrrolysine (a lysine with an amide linkage to a (4R,5R)-4-substituted pyrroline-5-carboxylate)." [PMID:12029131, PMID:12029132, PMID:12121639] subset: gosubset_prok is_a: GO:0019988 ! charged-tRNA amino acid modification [Term] id: GO:0001721 name: intermediate filament associated protein namespace: cellular_component def: "OBSOLETE. Proteins that associate with intermediate filaments and function in the supramolecular organization of cellular intermediate filament networks." [GOC:ajp, PMID:9484600] comment: This term was made obsolete because it represents a single gene product and not a complex. synonym: "IFAP" EXACT [] is_obsolete: true replaced_by: GO:0005882 [Term] id: GO:0001722 name: type I intermediate filament associated protein namespace: cellular_component def: "OBSOLETE. Low molecular weight (10-45 kDa) proteins that associate with intermediate filaments by lateral binding of the filaments and have the effect of creating tight macrofilament aggregates." [GOC:ajp, PMID:9484600] comment: This term was made obsolete because it represents a single gene product and not a complex. is_obsolete: true replaced_by: GO:0005882 [Term] id: GO:0001723 name: type II intermediate filament associated protein namespace: cellular_component def: "OBSOLETE. High molecular weight (100-300 kDa) proteins that associate with intermediate filaments to cross-link them into loose networks." [GOC:ajp, PMID:9484600] comment: This term was made obsolete because it represents a single gene product and not a complex. is_obsolete: true replaced_by: GO:0005882 [Term] id: GO:0001724 name: type III intermediate filament associated protein namespace: cellular_component def: "OBSOLETE. Proteins that associate with the ends of intermediate filaments and couple the intermediate filaments to the plasma membrane." [GOC:ajp, PMID:9484600] comment: This term was made obsolete because it represents a single gene product and not a complex. is_obsolete: true replaced_by: GO:0045098 [Term] id: GO:0001725 name: stress fiber namespace: cellular_component def: "A contractile actin filament bundle that consists of short actin filaments with alternating polarity, cross-linked by alpha-actinin and possibly other actin bundling proteins, and with myosin present in a periodic distribution along the fiber." [PMID:16651381] synonym: "actin cable" RELATED [GOC:mah] synonym: "stress fibre" EXACT [] is_a: GO:0032432 ! actin filament bundle is_a: GO:0042641 ! actomyosin [Term] id: GO:0001726 name: ruffle namespace: cellular_component def: "Projection at the leading edge of a crawling cell; the protrusions are supported by a microfilament meshwork." [ISBN:0124325653] synonym: "membrane ruffle" RELATED [] is_a: GO:0042995 ! cell projection relationship: part_of GO:0031252 ! cell leading edge [Term] id: GO:0001727 name: lipid kinase activity namespace: molecular_function def: "Catalysis of the phosphorylation of a simple or complex lipid." [GOC:hjd] subset: gosubset_prok is_a: GO:0016301 ! kinase activity relationship: part_of GO:0046834 ! lipid phosphorylation [Term] id: GO:0001729 name: ceramide kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + ceramide = ADP + ceramide 1-phosphate." [EC:2.7.1.138] synonym: "acylsphingosine kinase activity" EXACT [EC:2.7.1.138] synonym: "ATP:ceramide 1-phosphotransferase activity" EXACT [EC:2.7.1.138] xref: EC:2.7.1.138 xref: MetaCyc:CERAMIDE-KINASE-RXN is_a: GO:0001727 ! lipid kinase activity [Term] id: GO:0001730 name: 2'-5'-oligoadenylate synthetase activity namespace: molecular_function def: "Catalysis of the reaction: ATP = pppA(2'p5'A)n oligomers. Requires binding of double-stranded RNA." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] synonym: "(2-5')oligo(A) synthetase activity" EXACT [] synonym: "2'-5' oligoadenylate synthetase activity" EXACT [] synonym: "2-5A synthetase activity" EXACT [] synonym: "oligo-2',5'-adenylate synthetase activity" EXACT [] is_a: GO:0070566 ! adenylyltransferase activity [Term] id: GO:0001731 name: formation of translation preinitiation complex namespace: biological_process def: "The joining of the small ribosomal subunit, ternary complex, and mRNA." [GOC:hjd] comment: See also the cellular component terms 'eukaryotic 43S preinitiation complex ; GO:0016282', 'eukaryotic 48S initiation complex ; GO:0033290', and their children. subset: gosubset_prok synonym: "formation of translation pre-initiation complex" EXACT [] synonym: "translation preinitiation complex assembly" EXACT [] is_a: GO:0022618 ! ribonucleoprotein complex assembly relationship: part_of GO:0006413 ! translational initiation [Term] id: GO:0001732 name: formation of translation initiation complex namespace: biological_process def: "Joining of the large subunit, with release of IF2/eIF2 and IF3/eIF3. This leaves the functional ribosome at the AUG, with the methionyl/formyl-methionyl-tRNA positioned at the P site." [GOC:hjd] subset: gosubset_prok synonym: "translation initiation complex assembly" EXACT [] is_a: GO:0022618 ! ribonucleoprotein complex assembly relationship: part_of GO:0006413 ! translational initiation [Term] id: GO:0001733 name: galactosylceramide sulfotransferase activity namespace: molecular_function def: "Catalysis of the reaction: 3'-phosphoadenosine 5'-phosphosulfate + a galactosylceramide = adenosine 3',5'-bisphosphate + a galactosylceramidesulfate." [EC:2.8.2.11, PMID:10727929] synonym: "3'-phosphoadenosine-5'-phosphosulfate-cerebroside sulfotransferase activity" EXACT [EC:2.8.2.11] synonym: "3'-phosphoadenylyl-sulfate:galactosylceramide 3'-sulfotransferase activity" EXACT [EC:2.8.2.11] synonym: "cerebroside sulfotransferase activity" EXACT [] synonym: "galactocerebroside sulfotransferase activity" EXACT [EC:2.8.2.11] synonym: "galactolipid sulfotransferase activity" EXACT [EC:2.8.2.11] synonym: "galactosylceramide sulphotransferase activity" EXACT [] synonym: "glycolipid sulfotransferase activity" EXACT [EC:2.8.2.11] synonym: "glycosphingolipid sulfotransferase activity" EXACT [EC:2.8.2.11] synonym: "GSase" EXACT [EC:2.8.2.11] xref: EC:2.8.2.11 xref: MetaCyc:GALACTOSYLCERAMIDE-SULFOTRANSFERASE-RXN is_a: GO:0050694 ! galactose 3-O-sulfotransferase activity [Term] id: GO:0001734 name: mRNA (N6-adenosine)-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + RRACH = S-adenosyl-L-homocysteine + RRm6ACH; R = purine, and H = C, A, or U." [GOC:hjd] xref: Reactome:2399 "mRNA (N6-adenosine)-methyltransferase activity" is_a: GO:0008174 ! mRNA methyltransferase activity [Term] id: GO:0001735 name: prenylcysteine oxidase activity namespace: molecular_function def: "Catalysis of the reaction: S-prenyl-L-cysteine + O2 + H20 = a prenal + L-cysteine + H202." [GOC:hjd] synonym: "prenylcysteine lyase activity" EXACT [EC:1.8.3.5] synonym: "S-prenyl-L-cysteine:oxygen oxidoreductase activity" EXACT [EC:1.8.3.5] xref: EC:1.8.3.5 xref: MetaCyc:1.8.3.5-RXN is_a: GO:0016670 ! oxidoreductase activity, acting on sulfur group of donors, oxygen as acceptor [Term] id: GO:0001736 name: establishment of planar polarity namespace: biological_process def: "Coordinated organization of groups of cells in the plane of an epithelium, such that they all orient to similar coordinates." [GOC:dph] synonym: "establishment of planar cell polarity" NARROW [] is_a: GO:0007164 ! establishment of tissue polarity relationship: part_of GO:0001738 ! morphogenesis of a polarized epithelium [Term] id: GO:0001737 name: establishment of imaginal disc-derived wing hair orientation namespace: biological_process def: "Orientation of hairs in the imaginal disc-derived wing along a proximal-distal axis, such that each cell of the wing produces one wing hair which points in a distal direction." [GOC:ascb_2009, GOC:dph, GOC:mtg_sensu, GOC:tb, PMID:11239465] synonym: "establishment of wing hair orientation" EXACT [] is_a: GO:0001736 ! establishment of planar polarity is_a: GO:0009886 ! post-embryonic morphogenesis relationship: part_of GO:0035317 ! imaginal disc-derived wing hair organization [Term] id: GO:0001738 name: morphogenesis of a polarized epithelium namespace: biological_process def: "The process by which the anatomical structures of a polarized epithelium are generated and organized. Morphogenesis pertains to the creation of form. A polarized epithelium is an epithelium where the epithelial sheet is oriented with respect to the planar axis." [GOC:dph] synonym: "epithelial polarization" EXACT [GOC:dph] is_a: GO:0002009 ! morphogenesis of an epithelium [Term] id: GO:0001739 name: sex chromatin namespace: cellular_component def: "A condensed mass of compacted chromatin that represents an inactivated X chromosome." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] is_a: GO:0005720 ! nuclear heterochromatin intersection_of: GO:0005720 ! nuclear heterochromatin intersection_of: part_of GO:0000803 ! sex chromosome relationship: part_of GO:0000803 ! sex chromosome [Term] id: GO:0001740 name: Barr body namespace: cellular_component def: "A structure found in a female mammalian cell containing an unpaired X chromosome that has become densely heterochromatic, silenced and localized at the nuclear periphery." [GOC:hjd] xref: Wikipedia:Barr_body is_a: GO:0000228 ! nuclear chromosome is_a: GO:0000805 ! X chromosome is_a: GO:0001739 ! sex chromatin [Term] id: GO:0001741 name: XY body namespace: cellular_component def: "A structure found in a male mammalian spermatocyte containing an unpaired X chromosome that has become densely heterochromatic, silenced and localized at the nuclear periphery." [GOC:hjd] is_a: GO:0001739 ! sex chromatin [Term] id: GO:0001742 name: oenocyte differentiation namespace: biological_process def: "The process whereby a relatively unspecialized cell acquires the specialized features of an oenocyte. Oenocytes are large secretory cells found in clusters underlying the epidermis of larval abdominal segments." [GOC:go_curators] synonym: "oenocyte cell differentiation" EXACT [] is_a: GO:0030154 ! cell differentiation [Term] id: GO:0001743 name: optic placode formation namespace: biological_process def: "The initial developmental process that will lead to the formation of an eye." [GOC:dph] is_a: GO:0060788 ! ectodermal placode formation relationship: part_of GO:0048598 ! embryonic morphogenesis [Term] id: GO:0001744 name: optic lobe placode formation namespace: biological_process alt_id: GO:0007457 def: "Establishment of the optic placode, a thickened area of densely packed ectoderm cells directly overlying the optic vesicle in the early embryo. In Drosophila, for example, the placode appears in the dorsolateral region of the head in late stage 11 embryos and is the precursor to the larval visual system." [GOC:mtg_sensu, PMID:8402833] synonym: "optic lobe and Bolwig's organ precursor formation" EXACT [] is_a: GO:0001743 ! optic placode formation relationship: part_of GO:0001748 ! optic lobe placode development [Term] id: GO:0001745 name: compound eye morphogenesis namespace: biological_process def: "The process by which the anatomical structures of the compound eye are generated and organized. Morphogenesis pertains to the creation of form. The adult compound eye is a precise assembly of 700-800 ommatidia. Each ommatidium is composed of 20 cells, identified by cell type and position. An example of compound eye morphogenesis is found in Drosophila melanogaster." [GOC:dph, GOC:mtg_sensu] synonym: "insect-type retina morphogenesis" EXACT [PMID:11735386] is_a: GO:0048592 ! eye morphogenesis relationship: part_of GO:0048749 ! compound eye development [Term] id: GO:0001746 name: Bolwig's organ morphogenesis namespace: biological_process def: "The process by which the anatomical structures of the larval eye in Drosophila are generated and organized. Morphogenesis pertains to the creation of form. The larval eye in Drosophila is a relatively simple sensory system composed of Bolwig's organs: two clusters, each composed of 12 photoreceptor cells from which axons extend in a single fascicle to the brain." [http://sdb.bio.purdue.edu/fly/torstoll/tailess.htm#bolwigs, PMID:6185380] is_a: GO:0048592 ! eye morphogenesis relationship: part_of GO:0055034 ! Bolwig's organ development [Term] id: GO:0001748 name: optic lobe placode development namespace: biological_process alt_id: GO:0048049 def: "The process whose specific outcome is the progression of the optic placode over time, from its formation to the mature structure. During embryonic stage 12 the placode starts to invaginate, forming a pouch. Cells that will form Bolwig's organ segregate from the ventral lip of this pouch, remaining in the head epidermis. The remainder of the invagination loses contact with the outer surface and becomes the optic lobe. An example of this process is found in Drosophila melanogaster." [GOC:mtg_sensu, PMID:8402833] synonym: "optic lobe and Bolwig's organ precursor development" EXACT [] synonym: "optic placode development" BROAD [] is_a: GO:0048856 ! anatomical structure development [Term] id: GO:0001750 name: photoreceptor outer segment namespace: cellular_component def: "The outer segment of a vertebrate photoreceptor that contains discs of photoreceptive membranes." [ISBN:0824072820] is_a: GO:0031513 ! nonmotile primary cilium [Term] id: GO:0001751 name: compound eye photoreceptor cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized cell acquires the specialized features of an eye photoreceptor cell." [GOC:go_curators] is_a: GO:0001754 ! eye photoreceptor cell differentiation relationship: part_of GO:0001745 ! compound eye morphogenesis [Term] id: GO:0001752 name: compound eye photoreceptor fate commitment namespace: biological_process alt_id: GO:0007459 def: "The process whereby the developmental fate of a cell becomes restricted such that it will develop into a compound eye photoreceptor cell. A photoreceptor cell is a cell that responds to incident electromagnetic radiation. Different classes of photoreceptor have different spectral sensitivities and express different photosensitive pigments." [GOC:mtg_sensu] is_a: GO:0042706 ! eye photoreceptor cell fate commitment relationship: part_of GO:0001751 ! compound eye photoreceptor cell differentiation [Term] id: GO:0001753 name: adult eye photoreceptor development (sensu Drosophila) namespace: biological_process def: "OBSOLETE. Development of a photoreceptor, a receptor that responds to light, in the adult Drosophila eye." [GOC:go_curators] comment: This term was made obsolete because eye photoreceptors have completed their development by the time the adult phase begins. is_obsolete: true consider: GO:0042051 [Term] id: GO:0001754 name: eye photoreceptor cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized cell acquires the specialized features of a photoreceptor cell, as found in the eye, the primary visual organ of most organisms." [GOC:go_curators] is_a: GO:0046530 ! photoreceptor cell differentiation relationship: part_of GO:0048592 ! eye morphogenesis [Term] id: GO:0001755 name: neural crest cell migration namespace: biological_process def: "The characteristic movement of cells from the dorsal ridge of the neural tube to a variety of locations in a vertebrate embryo." [GOC:ascb_2009, GOC:dph, GOC:tb, ISBN:0878932437] is_a: GO:0001667 ! ameboidal cell migration relationship: part_of GO:0014032 ! neural crest cell development [Term] id: GO:0001756 name: somitogenesis namespace: biological_process def: "The formation of mesodermal clusters that are arranged segmentally along the anterior posterior axis of an embryo." [ISBN:0721662544 "Dorland's Illustrated Medical Dictionary"] synonym: "formation of mesodermal clusters" EXACT systematic_synonym [] xref: Wikipedia:Somitogenesis is_a: GO:0009952 ! anterior/posterior pattern formation is_a: GO:0035282 ! segmentation is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis relationship: part_of GO:0043009 ! chordate embryonic development relationship: part_of GO:0061053 ! somite development [Term] id: GO:0001757 name: somite specification namespace: biological_process def: "The process by which individual somites establish identity during embryogenesis." [GOC:dph] is_a: GO:0007379 ! segment specification is_a: GO:0009880 ! embryonic pattern specification relationship: part_of GO:0001756 ! somitogenesis [Term] id: GO:0001758 name: retinal dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: retinal + NAD+ + H2O = retinoate + NADH. Acts on both 11-trans and 13-cis forms of retinal." [EC:1.2.1.36] synonym: "cytosolic retinal dehydrogenase activity" EXACT [EC:1.2.1.36] synonym: "retinal:NAD+ oxidoreductase activity" EXACT [EC:1.2.1.36] xref: EC:1.2.1.36 xref: MetaCyc:RETINAL-DEHYDROGENASE-RXN is_a: GO:0016620 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor [Term] id: GO:0001759 name: induction of an organ namespace: biological_process def: "The interaction of two or more cells or tissues that causes them to change their fates and specify the development of an organ." [ISBN:0878932437] is_a: GO:0003156 ! regulation of organ formation is_a: GO:0031128 ! developmental induction is_a: GO:0051094 ! positive regulation of developmental process relationship: positively_regulates GO:0010092 ! specification of organ identity [Term] id: GO:0001760 name: aminocarboxymuconate-semialdehyde decarboxylase activity namespace: molecular_function def: "Catalysis of the reaction: 2-amino-3-(3-oxoprop-2-enyl)-but-2-enedioate = 2-aminomuconate semialdehyde + CO2." [EC:4.1.1.45] subset: gosubset_prok synonym: "2-amino-3-(3-oxoprop-1-en-1-yl)but-2-enedioate carboxy-lyase (2-aminomuconate-semialdehyde-forming)" EXACT [EC:4.1.1.45] synonym: "2-amino-3-(3-oxoprop-1-en-1-yl)but-2-enedioate carboxy-lyase activity" EXACT [EC:4.1.1.45] synonym: "2-amino-3-(3-oxoprop-2-enyl)but-2-enedioate carboxy-lyase activity" EXACT [EC:4.1.1.45] synonym: "alpha-amino-beta-carboxymuconate-epsilon-semialdehade decarboxylase activity" EXACT [EC:4.1.1.45] synonym: "alpha-amino-beta-carboxymuconate-epsilon-semialdehyde beta-decarboxylase activity" EXACT [EC:4.1.1.45] synonym: "picolinic acid carboxylase activity" EXACT [EC:4.1.1.45] synonym: "picolinic acid decarboxylase activity" EXACT [EC:4.1.1.45] xref: EC:4.1.1.45 xref: MetaCyc:AMINO-CARBOXYMUCONATE-SEMIALDEHYDE-RXN is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0001761 name: beta-alanine transmembrane transporter activity namespace: molecular_function def: "Catalysis of the transfer of beta-alanine from one side of a membrane to the other. Beta-alanine is 3-aminopropanoic acid." [GOC:hjd] synonym: "beta-alanine transporter activity" BROAD [] is_a: GO:0015175 ! neutral amino acid transmembrane transporter activity relationship: part_of GO:0001762 ! beta-alanine transport [Term] id: GO:0001762 name: beta-alanine transport namespace: biological_process def: "The directed movement of beta-alanine, 3-aminopropanoic acid, into, out of, within or between cells by means of some external agent such as a transporter or pore." [GOC:hjd] is_a: GO:0015804 ! neutral amino acid transport [Term] id: GO:0001763 name: morphogenesis of a branching structure namespace: biological_process def: "The process by which the anatomical structures of branches are generated and organized. Morphogenesis pertains to the creation of form. A branch is a division or offshoot from a main stem. Examples in animals would include blood vessels, nerves, lymphatics and other endothelial or epithelial tubes." [ISBN:0721662544 "Dorland's Illustrated Medical Dictionary"] synonym: "branching morphogenesis" EXACT [GOC:dph] is_a: GO:0009653 ! anatomical structure morphogenesis is_a: GO:0032501 ! multicellular organismal process [Term] id: GO:0001764 name: neuron migration namespace: biological_process def: "The characteristic movement of an immature neuron from germinal zones to specific positions where they will reside as they mature." [GOC:go_curators] synonym: "neuron chemotaxis" EXACT [GOC:curators] synonym: "neuron guidance" RELATED [GOC:curators] synonym: "neuronal migration" EXACT [] xref: Wikipedia:Neural_development#Neuron_migration xref: Wikipedia:Neuron_migration is_a: GO:0016477 ! cell migration relationship: part_of GO:0048699 ! generation of neurons [Term] id: GO:0001765 name: membrane raft assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form a membrane raft, a small (10-200 nm), heterogeneous, highly dynamic, sterol- and sphingolipid-enriched membrane domains that compartmentalizes cellular processes." [PMID:12648772, PMID:12803918, PMID:16645198] synonym: "lipid raft assembly" EXACT [GOC:mah] synonym: "lipid raft formation" RELATED [] synonym: "membrane raft formation" RELATED [GOC:mah] is_a: GO:0022607 ! cellular component assembly is_a: GO:0031579 ! membrane raft organization [Term] id: GO:0001766 name: membrane raft polarization namespace: biological_process def: "The clustering and aggregation of membrane rafts at a single cellular pole during activation of particular cell types, such as lymphocytes." [PMID:12615889] synonym: "lipid raft polarization" EXACT [] is_a: GO:0031580 ! membrane raft distribution [Term] id: GO:0001767 name: establishment of lymphocyte polarity namespace: biological_process def: "The directed orientation of lymphocyte signaling molecules and associated membrane rafts towards a chemokine gradient or a contact point with an appropriate activating cell." [GOC:mgi_curators, PMID:11244041, PMID:12615889] synonym: "lymphocyte polarization" EXACT [] is_a: GO:0030010 ! establishment of cell polarity relationship: part_of GO:0046649 ! lymphocyte activation [Term] id: GO:0001768 name: establishment of T cell polarity namespace: biological_process def: "The directed orientation of T cell signaling molecules and associated membrane rafts towards a chemokine gradient or a contact point with antigen presenting cell." [GOC:mgi_curators, PMID:11244041, PMID:12615889] synonym: "establishment of T lymphocyte polarity" EXACT [] synonym: "establishment of T-cell polarity" EXACT [] synonym: "establishment of T-lymphocyte polarity" EXACT [] synonym: "T cell polarization" EXACT [] synonym: "T lymphocyte polarization" EXACT [] synonym: "T-cell polarization" EXACT [] is_a: GO:0001767 ! establishment of lymphocyte polarity relationship: part_of GO:0042110 ! T cell activation [Term] id: GO:0001769 name: establishment of B cell polarity namespace: biological_process def: "The directed orientation of B cell signaling molecules and associated membrane rafts towards a chemokine gradient of a contact point with an antigen displaying cell." [GOC:mgi_curators, PMID:12615889, PMID:9692889] comment: Note that 'antigen displaying cell' in this term encompasses cell types such as follicular dendritic cells which display the unprocessed antigens of a B cell, leading to activation of the B cells and antigen uptake and processing by the B cells. synonym: "B cell polarization" EXACT [] synonym: "B lymphocyte polarization" EXACT [] synonym: "B-cell polarization" EXACT [] synonym: "establishment of B lymphocyte polarity" EXACT [] synonym: "establishment of B-cell polarity" EXACT [] synonym: "establishment of B-lymphocyte polarity" EXACT [] is_a: GO:0001767 ! establishment of lymphocyte polarity relationship: part_of GO:0042113 ! B cell activation [Term] id: GO:0001770 name: establishment of natural killer cell polarity namespace: biological_process def: "The directed orientation of natural killer cell signaling molecules and associated membrane rafts towards a chemokine gradient or a contact point with a cell displaying natural killer cell activating ligands." [GOC:mgi_curators, PMID:12615886, PMID:9759849] synonym: "establishment of NK cell polarity" EXACT [] synonym: "natural killer cell polarization" EXACT [] synonym: "NK cell polarization" EXACT [] is_a: GO:0001767 ! establishment of lymphocyte polarity relationship: part_of GO:0030101 ! natural killer cell activation [Term] id: GO:0001771 name: formation of immunological synapse namespace: biological_process def: "The formation of an area of close contact between a lymphocyte (T-, B-, or natural killer cell) and a target cell through the clustering of particular signaling and adhesion molecules and their associated membrane rafts on both the lymphocyte and target cell, which facilitates activation of the lymphocyte, transfer of membrane from the target cell to the lymphocyte, and in some situations killing of the target cell through release of secretory granules and/or death-pathway ligand-receptor interaction." [GOC:mgi_curators, PMID:11244041, PMID:11376330] is_a: GO:0009988 ! cell-cell recognition relationship: part_of GO:0046649 ! lymphocyte activation [Term] id: GO:0001772 name: immunological synapse namespace: cellular_component def: "An area of close contact between a lymphocyte (T-, B-, or natural killer cell) and a target cell formed through the clustering of particular signaling and adhesion molecules and their associated membrane rafts on both the lymphocyte and the target cell and facilitating activation of the lymphocyte, transfer of membrane from the target cell to the lymphocyte, and in some situations killing of the target cell through release of secretory granules and/or death-pathway ligand-receptor interaction." [GOC:mgi_curators, PMID:11244041, PMID:11376300] synonym: "c-SMAC" NARROW [PMID:14724296] synonym: "supramolecular activation cluster" EXACT [PMID:14724296] xref: Wikipedia:Immunological_synapse is_a: GO:0044459 ! plasma membrane part [Term] id: GO:0001773 name: myeloid dendritic cell activation namespace: biological_process def: "The change in morphology and behavior of a dendritic cell resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor." [GOC:mgi_curators, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002274 ! myeloid leukocyte activation [Term] id: GO:0001774 name: microglial cell activation namespace: biological_process def: "The change in morphology and behavior of a microglial cell resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor." [GOC:mgi_curators, PMID:10626665, PMID:10695728, PMID:12580336, PMID:9893949] is_a: GO:0042116 ! macrophage activation [Term] id: GO:0001775 name: cell activation namespace: biological_process def: "A change in the morphology or behavior of a cell resulting from exposure to an activating factor such as a cellular or soluble ligand." [GOC:mgi_curators] subset: goslim_pir is_a: GO:0009987 ! cellular process [Term] id: GO:0001776 name: leukocyte homeostasis namespace: biological_process def: "The process of regulating the proliferation and elimination of cells of the immune system such that the total number of cells of a particular cell type within a whole or part of an organism is stable over time in the absence of an outside stimulus." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that this term represents the return of immune system cell levels to stable numbers following an immune response as well as the proliferation and elimination of cells of the immune system required to maintain stable numbers in the absence of an outside stimulus. synonym: "immune cell homeostasis" EXACT [] synonym: "leucocyte homeostasis" EXACT [] is_a: GO:0002376 ! immune system process is_a: GO:0048872 ! homeostasis of number of cells [Term] id: GO:0001777 name: T cell homeostatic proliferation namespace: biological_process def: "The non-specific expansion of T cell populations within a whole or part of an organism to reach to a total number of T cells which will then remain stable over time in the absence of an external stimulus." [GOC:mgi_curators, ISBN:0781735149 "Fundamental Immunology"] synonym: "resting T cell proliferation" EXACT [] synonym: "resting T-cell proliferation" EXACT [] synonym: "T lymphocyte homeostatic proliferation" EXACT [] synonym: "T-cell homeostatic proliferation" EXACT [] synonym: "T-lymphocyte homeostatic proliferation" EXACT [] is_a: GO:0042098 ! T cell proliferation relationship: part_of GO:0043029 ! T cell homeostasis [Term] id: GO:0001778 name: plasma membrane repair namespace: biological_process def: "The resealing of a cell plasma membrane after cellular wounding due to, for instance, mechanical stress." [GOC:add, PMID:12925704] is_a: GO:0007009 ! plasma membrane organization relationship: part_of GO:0042060 ! wound healing [Term] id: GO:0001779 name: natural killer cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized cell acquires the specialized features of a natural killer cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "NK cell differentiation" EXACT [] is_a: GO:0030098 ! lymphocyte differentiation is_a: GO:0030101 ! natural killer cell activation [Term] id: GO:0001780 name: neutrophil homeostasis namespace: biological_process def: "The process of regulating the proliferation and elimination of neutrophils such that the total number of neutrophils within a whole or part of an organism is stable over time in the absence of an outside stimulus." [GOC:add, PMID:12752675, PMID:12960266] comment: Note that this term represents the return of neutrophil levels to stable numbers following an immune response as well as the proliferation and elimination of neutrophils required to maintain stable numbers in the absence of an outside stimulus. is_a: GO:0002262 ! myeloid cell homeostasis [Term] id: GO:0001781 name: neutrophil apoptosis namespace: biological_process def: "The process of apoptosis in neutrophils." [GOC:add, PMID:12752675, PMID:12960266] synonym: "apoptosis of neutrophils" EXACT [] synonym: "neutrophil programmed cell death by apoptosis" EXACT [] synonym: "programmed cell death of neutrophils by apoptosis" EXACT [] synonym: "programmed cell death, neutrophils" EXACT [] is_a: GO:0033028 ! myeloid cell apoptosis relationship: part_of GO:0001780 ! neutrophil homeostasis [Term] id: GO:0001782 name: B cell homeostasis namespace: biological_process def: "The process of regulating the proliferation and elimination of B cells such that the total number of B cells within a whole or part of an organism is stable over time in the absence of an outside stimulus." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:12956429] comment: Note that this term represents the return of B cell levels to stable numbers following an immune response as well as the proliferation and elimination of B cells required to maintain stable numbers in the absence of an outside stimulus. synonym: "B lymphocyte homeostasis" EXACT [] synonym: "B-cell homeostasis" EXACT [] synonym: "B-lymphocyte homeostasis" EXACT [] is_a: GO:0002260 ! lymphocyte homeostasis [Term] id: GO:0001783 name: B cell apoptosis namespace: biological_process def: "The process of apoptosis in B cells." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "apoptosis of B cells" EXACT [] synonym: "apoptosis of B lymphocytes" EXACT [] synonym: "apoptosis of B-cells" EXACT [] synonym: "apoptosis of B-lymphocytes" EXACT [] synonym: "B cell programmed cell death by apoptosis" EXACT [] synonym: "B lymphocyte apoptosis" EXACT [] synonym: "B lymphocyte programmed cell death by apoptosis" EXACT [] synonym: "B-cell apoptosis" EXACT [] synonym: "B-cell programmed cell death by apoptosis" EXACT [] synonym: "B-lymphocyte apoptosis" EXACT [] synonym: "B-lymphocyte programmed cell death by apoptosis" EXACT [] synonym: "programmed cell death of B cells by apoptosis" EXACT [] synonym: "programmed cell death of B lymphocytes by apoptosis" EXACT [] synonym: "programmed cell death of B-cells by apoptosis" EXACT [] synonym: "programmed cell death of B-lymphocytes by apoptosis" EXACT [] synonym: "programmed cell death, B cells" EXACT [] synonym: "programmed cell death, B lymphocytes" EXACT [] synonym: "programmed cell death, B-cells" EXACT [] synonym: "programmed cell death, B-lymphocytes" EXACT [] is_a: GO:0070227 ! lymphocyte apoptosis [Term] id: GO:0001784 name: phosphotyrosine binding namespace: molecular_function def: "Interacting selectively and non-covalently with a phosphorylated tyrosine residue within a protein." [PMID:14636584] is_a: GO:0045309 ! protein phosphorylated amino acid binding [Term] id: GO:0001785 name: prostaglandin J receptor activity namespace: molecular_function def: "Combining with prostaglandin J (PGJ(2)), a metabolite of prostaglandin D (PGD(2)) to initiate a change in cell activity." [PMID:12878180] synonym: "PGJ receptor activity" RELATED [] synonym: "PGJ(2) receptor activity" EXACT [] is_a: GO:0004955 ! prostaglandin receptor activity [Term] id: GO:0001786 name: phosphatidylserine binding namespace: molecular_function def: "Interacting selectively and non-covalently with phosphatidylserine, a class of glycophospholipids in which a phosphatidyl group is esterified to the hydroxyl group of L-serine." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology", PMID:12000961] is_a: GO:0005543 ! phospholipid binding [Term] id: GO:0001787 name: natural killer cell proliferation namespace: biological_process def: "The expansion of a natural killer cell population by cell division." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "NK cell proliferation" EXACT [] is_a: GO:0030101 ! natural killer cell activation is_a: GO:0046651 ! lymphocyte proliferation [Term] id: GO:0001788 name: antibody-dependent cellular cytotoxicity namespace: biological_process def: "Cytolysis of target cells by natural killer cells, eosinophils, neutrophils, monocytes, or macrophages following engagement of antibodies bound to the target cells by Fc receptors on the effector cells." [ISBN:0781735149 "Fundamental Immunology", PMID:11677095, PMID:9581795] synonym: "ADCC" EXACT [] synonym: "antibody dependent cell death" EXACT [] synonym: "antibody dependent cell killing" EXACT [] synonym: "antibody-dependent cell death" EXACT [] synonym: "antibody-dependent cell killing" EXACT [] synonym: "type VI hypersensitivity" EXACT [] xref: Wikipedia:Antibody-dependent_cell-mediated_cytotoxicity xref: Wikipedia:Antibody-dependent_cellular_cytotoxicity is_a: GO:0001794 ! type IIa hypersensitivity is_a: GO:0001909 ! leukocyte mediated cytotoxicity is_a: GO:0006917 ! induction of apoptosis [Term] id: GO:0001789 name: G-protein signaling, coupled to S1P second messenger (sphingosine kinase activating) namespace: biological_process def: "A G-protein coupled signaling pathway that results in the activation of sphingosine kinase, causing an increase in cellular levels of sphingosine-1-phosphate." [GOC:dph, PMID:14592418] synonym: "G protein signaling, coupled to S1P second messenger (sphingosine kinase activating)" EXACT [] synonym: "G protein signalling, coupled to S1P second messenger (sphingosine kinase activating)" EXACT [] synonym: "G-protein signalling, coupled to S1P second messenger (sphingosine kinase activating)" EXACT [] is_a: GO:0007186 ! G-protein coupled receptor protein signaling pathway [Term] id: GO:0001790 name: polymeric immunoglobulin binding namespace: molecular_function def: "Interacting selectively and non-covalently with a J-chain-containing polymeric immunoglobulin of the IgA or IgM isotypes." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0019865 ! immunoglobulin binding [Term] id: GO:0001791 name: IgM binding namespace: molecular_function def: "Interacting selectively and non-covalently with an immunoglobulin of the IgM isotype." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0019865 ! immunoglobulin binding [Term] id: GO:0001792 name: polymeric immunoglobulin receptor activity namespace: molecular_function def: "Combining with a J-chain-containing polymeric immunoglobulin of the IgA or IgM isotypes via the Fc region to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001790 ! polymeric immunoglobulin binding is_a: GO:0019763 ! immunoglobulin receptor activity [Term] id: GO:0001793 name: IgM receptor activity namespace: molecular_function def: "Combining with an immunoglobulin of the IgM isotype via the Fc region to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001791 ! IgM binding is_a: GO:0019763 ! immunoglobulin receptor activity [Term] id: GO:0001794 name: type IIa hypersensitivity namespace: biological_process def: "An inflammatory response resulting in cell death mediated by activation of the classical complement pathway or induction of effector cell phagocytosis or cytolysis mechanisms via complement or Fc receptors following the binding of antibodies to cell surface antigens on a target cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that some type IIb hypersensitivity responses (GO:0001795) are referred to simply as type II hypersensitivity in the earlier literature, but are mechanistically distinct from type IIa hypersensitivity. is_a: GO:0002445 ! type II hypersensitivity [Term] id: GO:0001795 name: type IIb hypersensitivity namespace: biological_process def: "An inflammatory response resulting in cell death or dysfunction mediated by the direct binding of antibody to cellular receptors." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that some type IIa hypersensitivity response (GO:0001794) are referred to simply as type II hypersensitivity in the earlier literature, but are mechanistically distinct from type IIb hypersensitivity. synonym: "type V hypersensitivity" EXACT [] is_a: GO:0002445 ! type II hypersensitivity [Term] id: GO:0001796 name: regulation of type IIa hypersensitivity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of type IIa hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002892 ! regulation of type II hypersensitivity intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001794 ! type IIa hypersensitivity relationship: regulates GO:0001794 ! type IIa hypersensitivity [Term] id: GO:0001797 name: negative regulation of type IIa hypersensitivity namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of type IIa hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "down regulation of type IIa hypersensitivity" EXACT [] synonym: "down-regulation of type IIa hypersensitivity" EXACT [] synonym: "downregulation of type IIa hypersensitivity" EXACT [] synonym: "inhibition of type IIa hypersensitivity" NARROW [] is_a: GO:0001796 ! regulation of type IIa hypersensitivity is_a: GO:0002893 ! negative regulation of type II hypersensitivity intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001794 ! type IIa hypersensitivity relationship: negatively_regulates GO:0001794 ! type IIa hypersensitivity [Term] id: GO:0001798 name: positive regulation of type IIa hypersensitivity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of type IIa hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "activation of type IIa hypersensitivity" NARROW [] synonym: "stimulation of type IIa hypersensitivity" NARROW [] synonym: "up regulation of type IIa hypersensitivity" EXACT [] synonym: "up-regulation of type IIa hypersensitivity" EXACT [] synonym: "upregulation of type IIa hypersensitivity" EXACT [] is_a: GO:0001796 ! regulation of type IIa hypersensitivity is_a: GO:0002894 ! positive regulation of type II hypersensitivity intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001794 ! type IIa hypersensitivity relationship: positively_regulates GO:0001794 ! type IIa hypersensitivity [Term] id: GO:0001799 name: regulation of type IIb hypersensitivity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of type IIb hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002892 ! regulation of type II hypersensitivity intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001795 ! type IIb hypersensitivity relationship: regulates GO:0001795 ! type IIb hypersensitivity [Term] id: GO:0001800 name: negative regulation of type IIb hypersensitivity namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of type IIb hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "down regulation of type IIb hypersensitivity" EXACT [] synonym: "down-regulation of type IIb hypersensitivity" EXACT [] synonym: "downregulation of type IIb hypersensitivity" EXACT [] synonym: "inhibition of type IIb hypersensitivity" NARROW [] is_a: GO:0001799 ! regulation of type IIb hypersensitivity is_a: GO:0002893 ! negative regulation of type II hypersensitivity intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001795 ! type IIb hypersensitivity relationship: negatively_regulates GO:0001795 ! type IIb hypersensitivity [Term] id: GO:0001801 name: positive regulation of type IIb hypersensitivity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of type IIb hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "activation of type IIb hypersensitivity" NARROW [] synonym: "stimulation of type IIb hypersensitivity" NARROW [] synonym: "up regulation of type IIb hypersensitivity" EXACT [] synonym: "up-regulation of type IIb hypersensitivity" EXACT [] synonym: "upregulation of type IIb hypersensitivity" EXACT [] is_a: GO:0001799 ! regulation of type IIb hypersensitivity is_a: GO:0002894 ! positive regulation of type II hypersensitivity intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001795 ! type IIb hypersensitivity relationship: positively_regulates GO:0001795 ! type IIb hypersensitivity [Term] id: GO:0001802 name: type III hypersensitivity namespace: biological_process def: "An inflammatory response resulting from recognition of immune complexes via complement or Fc receptors on effector cells leading to activation of neutrophils and other leukocytes and damage to bystander tissue." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that the Arthus reaction is an example of type III hypersensitivity. xref: Wikipedia:Type_III_hypersensitivity is_a: GO:0002444 ! myeloid leukocyte mediated immunity is_a: GO:0002524 ! hypersensitivity is_a: GO:0016064 ! immunoglobulin mediated immune response [Term] id: GO:0001803 name: regulation of type III hypersensitivity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of type III hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002883 ! regulation of hypersensitivity is_a: GO:0002886 ! regulation of myeloid leukocyte mediated immunity is_a: GO:0002889 ! regulation of immunoglobulin mediated immune response intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001802 ! type III hypersensitivity relationship: regulates GO:0001802 ! type III hypersensitivity [Term] id: GO:0001804 name: negative regulation of type III hypersensitivity namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of type III hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "down regulation of type III hypersensitivity" EXACT [] synonym: "down-regulation of type III hypersensitivity" EXACT [] synonym: "downregulation of type III hypersensitivity" EXACT [] synonym: "inhibition of type III hypersensitivity" NARROW [] is_a: GO:0001803 ! regulation of type III hypersensitivity is_a: GO:0002884 ! negative regulation of hypersensitivity is_a: GO:0002887 ! negative regulation of myeloid leukocyte mediated immunity is_a: GO:0002890 ! negative regulation of immunoglobulin mediated immune response intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001802 ! type III hypersensitivity relationship: negatively_regulates GO:0001802 ! type III hypersensitivity [Term] id: GO:0001805 name: positive regulation of type III hypersensitivity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of type III hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "activation of type III hypersensitivity" NARROW [] synonym: "stimulation of type III hypersensitivity" NARROW [] synonym: "up regulation of type III hypersensitivity" EXACT [] synonym: "up-regulation of type III hypersensitivity" EXACT [] synonym: "upregulation of type III hypersensitivity" EXACT [] is_a: GO:0001803 ! regulation of type III hypersensitivity is_a: GO:0002885 ! positive regulation of hypersensitivity is_a: GO:0002888 ! positive regulation of myeloid leukocyte mediated immunity is_a: GO:0002891 ! positive regulation of immunoglobulin mediated immune response intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001802 ! type III hypersensitivity relationship: positively_regulates GO:0001802 ! type III hypersensitivity [Term] id: GO:0001806 name: type IV hypersensitivity namespace: biological_process alt_id: GO:0016069 def: "An inflammatory response driven by T cell recognition of processed soluble or cell-associated antigens leading to cytokine release and leukocyte activation." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "delayed hypersensitivity response" EXACT [] synonym: "delayed-type hypersensitivity" EXACT [] xref: Wikipedia:Type_IV_hypersensitivity is_a: GO:0002456 ! T cell mediated immunity is_a: GO:0002524 ! hypersensitivity [Term] id: GO:0001807 name: regulation of type IV hypersensitivity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of type IV hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002709 ! regulation of T cell mediated immunity is_a: GO:0002883 ! regulation of hypersensitivity intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001806 ! type IV hypersensitivity relationship: regulates GO:0001806 ! type IV hypersensitivity [Term] id: GO:0001808 name: negative regulation of type IV hypersensitivity namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of type IV hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "down regulation of type IV hypersensitivity" EXACT [] synonym: "down-regulation of type IV hypersensitivity" EXACT [] synonym: "downregulation of type IV hypersensitivity" EXACT [] synonym: "inhibition of type IV hypersensitivity" NARROW [] is_a: GO:0001807 ! regulation of type IV hypersensitivity is_a: GO:0002710 ! negative regulation of T cell mediated immunity is_a: GO:0002884 ! negative regulation of hypersensitivity intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001806 ! type IV hypersensitivity relationship: negatively_regulates GO:0001806 ! type IV hypersensitivity [Term] id: GO:0001809 name: positive regulation of type IV hypersensitivity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of type IV hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "activation of type IV hypersensitivity" NARROW [] synonym: "stimulation of type IV hypersensitivity" NARROW [] synonym: "up regulation of type IV hypersensitivity" EXACT [] synonym: "up-regulation of type IV hypersensitivity" EXACT [] synonym: "upregulation of type IV hypersensitivity" EXACT [] is_a: GO:0001807 ! regulation of type IV hypersensitivity is_a: GO:0002711 ! positive regulation of T cell mediated immunity is_a: GO:0002885 ! positive regulation of hypersensitivity intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001806 ! type IV hypersensitivity relationship: positively_regulates GO:0001806 ! type IV hypersensitivity [Term] id: GO:0001810 name: regulation of type I hypersensitivity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of type I hypersensitivity, a type of inflammatory response." [ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002883 ! regulation of hypersensitivity is_a: GO:0002889 ! regulation of immunoglobulin mediated immune response intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0016068 ! type I hypersensitivity relationship: regulates GO:0016068 ! type I hypersensitivity [Term] id: GO:0001811 name: negative regulation of type I hypersensitivity namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of type I hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "down regulation of type I hypersensitivity" EXACT [] synonym: "down-regulation of type I hypersensitivity" EXACT [] synonym: "downregulation of type I hypersensitivity" EXACT [] synonym: "inhibition of type I hypersensitivity" NARROW [] is_a: GO:0001810 ! regulation of type I hypersensitivity is_a: GO:0002884 ! negative regulation of hypersensitivity is_a: GO:0002890 ! negative regulation of immunoglobulin mediated immune response intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0016068 ! type I hypersensitivity relationship: negatively_regulates GO:0016068 ! type I hypersensitivity [Term] id: GO:0001812 name: positive regulation of type I hypersensitivity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of type I hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "activation of type I hypersensitivity" NARROW [] synonym: "stimulation of type I hypersensitivity" NARROW [] synonym: "up regulation of type I hypersensitivity" EXACT [] synonym: "up-regulation of type I hypersensitivity" EXACT [] synonym: "upregulation of type I hypersensitivity" EXACT [] is_a: GO:0001810 ! regulation of type I hypersensitivity is_a: GO:0002885 ! positive regulation of hypersensitivity is_a: GO:0002891 ! positive regulation of immunoglobulin mediated immune response intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0016068 ! type I hypersensitivity relationship: positively_regulates GO:0016068 ! type I hypersensitivity [Term] id: GO:0001813 name: regulation of antibody-dependent cellular cytotoxicity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antibody-dependent cellular cytotoxicity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "regulation of antibody dependent cell death" EXACT [] synonym: "regulation of antibody dependent cell killing" EXACT [] synonym: "regulation of antibody-dependent cell death" EXACT [] synonym: "regulation of antibody-dependent cell killing" EXACT [] is_a: GO:0001796 ! regulation of type IIa hypersensitivity is_a: GO:0001910 ! regulation of leukocyte mediated cytotoxicity intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001788 ! antibody-dependent cellular cytotoxicity relationship: regulates GO:0001788 ! antibody-dependent cellular cytotoxicity [Term] id: GO:0001814 name: negative regulation of antibody-dependent cellular cytotoxicity namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of antibody-dependent cellular cytotoxicity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "down regulation of antibody-dependent cellular cytotoxicity" EXACT [] synonym: "down-regulation of antibody-dependent cellular cytotoxicity" EXACT [] synonym: "downregulation of antibody-dependent cellular cytotoxicity" EXACT [] synonym: "inhibition of antibody-dependent cellular cytotoxicity" NARROW [] synonym: "negative regulation of antibody dependent cell death" EXACT [] synonym: "negative regulation of antibody dependent cell killing" EXACT [] synonym: "negative regulation of antibody-dependent cell death" EXACT [] synonym: "negative regulation of antibody-dependent cell killing" EXACT [] is_a: GO:0001797 ! negative regulation of type IIa hypersensitivity is_a: GO:0001813 ! regulation of antibody-dependent cellular cytotoxicity is_a: GO:0001911 ! negative regulation of leukocyte mediated cytotoxicity intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001788 ! antibody-dependent cellular cytotoxicity relationship: negatively_regulates GO:0001788 ! antibody-dependent cellular cytotoxicity [Term] id: GO:0001815 name: positive regulation of antibody-dependent cellular cytotoxicity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of antibody-dependent cellular cytotoxicity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "activation of antibody-dependent cellular cytotoxicity" NARROW [] synonym: "positive regulation of antibody dependent cell death" EXACT [] synonym: "positive regulation of antibody dependent cell killing" EXACT [] synonym: "positive regulation of antibody-dependent cell death" EXACT [] synonym: "positive regulation of antibody-dependent cell killing" EXACT [] synonym: "stimulation of antibody-dependent cellular cytotoxicity" NARROW [] synonym: "up regulation of antibody-dependent cellular cytotoxicity" EXACT [] synonym: "up-regulation of antibody-dependent cellular cytotoxicity" EXACT [] synonym: "upregulation of antibody-dependent cellular cytotoxicity" EXACT [] is_a: GO:0001798 ! positive regulation of type IIa hypersensitivity is_a: GO:0001813 ! regulation of antibody-dependent cellular cytotoxicity is_a: GO:0001912 ! positive regulation of leukocyte mediated cytotoxicity intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001788 ! antibody-dependent cellular cytotoxicity relationship: positively_regulates GO:0001788 ! antibody-dependent cellular cytotoxicity [Term] id: GO:0001816 name: cytokine production namespace: biological_process def: "The appearance of a cytokine due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that this term is intended for use when a gene product is seen to cause apparent increases in intracellular or extracellular cytokine levels, without specific regard as to whether the increase is due to increased biosynthesis, increased secretion of preexisting cytokine molecules, or increased conversion from precursor molecules. subset: goslim_pir is_a: GO:0032501 ! multicellular organismal process [Term] id: GO:0001817 name: regulation of cytokine production namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of production of a cytokine." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001816 ! cytokine production relationship: regulates GO:0001816 ! cytokine production [Term] id: GO:0001818 name: negative regulation of cytokine production namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of production of a cytokine." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "down regulation of cytokine production" EXACT [] synonym: "down-regulation of cytokine production" EXACT [] synonym: "downregulation of cytokine production" EXACT [] synonym: "inhibition of cytokine production" NARROW [] is_a: GO:0001817 ! regulation of cytokine production is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001816 ! cytokine production relationship: negatively_regulates GO:0001816 ! cytokine production [Term] id: GO:0001819 name: positive regulation of cytokine production namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of production of a cytokine." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "activation of cytokine production" NARROW [] synonym: "stimulation of cytokine production" NARROW [] synonym: "up regulation of cytokine production" EXACT [] synonym: "up-regulation of cytokine production" EXACT [] synonym: "upregulation of cytokine production" EXACT [] is_a: GO:0001817 ! regulation of cytokine production is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001816 ! cytokine production relationship: positively_regulates GO:0001816 ! cytokine production [Term] id: GO:0001820 name: serotonin secretion namespace: biological_process def: "The regulated release of serotonin by a cell or group of cells. Serotonin (5-hydroxytryptamine, or 5-HT) is a monoamine synthesised in serotonergic neurons in the central nervous system, enterochromaffin cells in the gastrointestinal tract and some immune system cells." [GOC:ef, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology", ISBN:0781735149 "Fundamental Immunology"] synonym: "5-HT secretion" EXACT [] synonym: "5-hydroxytryptamine secretion" EXACT [] is_a: GO:0006837 ! serotonin transport is_a: GO:0023061 ! signal release is_a: GO:0032940 ! secretion by cell [Term] id: GO:0001821 name: histamine secretion namespace: biological_process def: "The regulated release of histamine by a cell or group of cells. It is formed by decarboxylation of histidine and it acts through receptors in smooth muscle and in secretory systems." [GOC:mah, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology", ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0046903 ! secretion is_a: GO:0051608 ! histamine transport [Term] id: GO:0001822 name: kidney development namespace: biological_process def: "The process whose specific outcome is the progression of the kidney over time, from its formation to the mature structure. The kidney is an organ that filters the blood and/or excretes the end products of body metabolism in the form of urine." [GOC:dph, GOC:mtg_kidney_jan10, ISBN:0124020607, ISBN:0721662544 "Dorland's Illustrated Medical Dictionary"] synonym: "nephrogenesis" RELATED [GOC:dph, GOC:tb] xref: Wikipedia:Kidney_development is_a: GO:0048513 ! organ development relationship: part_of GO:0072001 ! renal system development [Term] id: GO:0001823 name: mesonephros development namespace: biological_process def: "The process whose specific outcome is the progression of the mesonephros over time, from its formation to the mature structure. In mammals, the mesonephros is the second of the three embryonic kidneys to be established and exists only transiently. In lower vertebrates such as fish and amphibia, the mesonephros will form the mature kidney." [GOC:dph, ISBN:0124020607, ISBN:0721662544 "Dorland's Illustrated Medical Dictionary", PMID:10535314] is_a: GO:0001822 ! kidney development [Term] id: GO:0001824 name: blastocyst development namespace: biological_process def: "The process whose specific outcome is the progression of the blastocyst over time, from its formation to the mature structure. The mammalian blastocyst is a hollow ball of cells containing two cell types, the inner cell mass and the trophectoderm." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS5, embryo ; EMAP:23', 'TS5, inner cell mass ; EMAP:24' and 'TS5, trophectoderm; EMAP:28'. is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0001701 ! in utero embryonic development [Term] id: GO:0001825 name: blastocyst formation namespace: biological_process def: "The initial formation of a blastocyst from a solid ball of cells known as a morula." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology term 'TS3, compacted morula ; EMAP:9'. is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis relationship: part_of GO:0001824 ! blastocyst development [Term] id: GO:0001826 name: inner cell mass cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized cell acquires specialized features of an inner cell mass cell." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, inner cell mass ; EMAP:14'. is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0001825 ! blastocyst formation [Term] id: GO:0001827 name: inner cell mass cell fate commitment namespace: biological_process def: "The cell fate commitment of precursor cells that will become inner cell mass cells." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, compacted morula ; EMAP:13' and 'TS4, inner cell mass ; EMAP:14'. is_a: GO:0045165 ! cell fate commitment relationship: part_of GO:0001826 ! inner cell mass cell differentiation [Term] id: GO:0001828 name: inner cell mass cellular morphogenesis namespace: biological_process def: "The morphogenesis of cells in the inner cell mass." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, inner cell mass ; EMAP:14' and 'TS5, inner cell mass ; EMAP:24'. is_a: GO:0000904 ! cell morphogenesis involved in differentiation is_a: GO:0048598 ! embryonic morphogenesis relationship: part_of GO:0001826 ! inner cell mass cell differentiation [Term] id: GO:0001829 name: trophectodermal cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized cell acquires the specialized features of a trophectoderm cell." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, trophectoderm ; EMAP:19'. synonym: "trophectoderm cell differentiation" EXACT [] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0001825 ! blastocyst formation [Term] id: GO:0001830 name: trophectodermal cell fate commitment namespace: biological_process def: "The cell fate commitment of precursor cells that will become trophectoderm cells." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, trophectoderm ; EMAP:19'. synonym: "trophectoderm cell fate commitment" EXACT [] is_a: GO:0045165 ! cell fate commitment relationship: part_of GO:0001829 ! trophectodermal cell differentiation [Term] id: GO:0001831 name: trophectodermal cellular morphogenesis namespace: biological_process def: "The morphogenesis of trophectoderm cells." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, trophectoderm ; EMAP:19', 'TS5, trophectoderm ; EMAP:28' and 'TS6, trophectoderm ; EMAP:39'. synonym: "trophectoderm cellular morphogenesis" EXACT [] is_a: GO:0000904 ! cell morphogenesis involved in differentiation is_a: GO:0048598 ! embryonic morphogenesis relationship: part_of GO:0001829 ! trophectodermal cell differentiation [Term] id: GO:0001832 name: blastocyst growth namespace: biological_process def: "An increase in size of a blastocyst due to expansion of the blastocoelic cavity cell shape changes and cell proliferation." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, blastocoelic cavity ; EMAP:17', 'TS5, blastocoelic cavity ; EMAP:27' and 'TS6, blastocoelic cavity ; EMAP:36'. is_a: GO:0048589 ! developmental growth relationship: part_of GO:0001824 ! blastocyst development [Term] id: GO:0001833 name: inner cell mass cell proliferation namespace: biological_process def: "The proliferation of cells in the inner cell mass." [GOC:dph, GOC:isa_complete, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, inner cell mass ; EMAP:14' and 'TS5, inner cell mass ; EMAP:24'. is_a: GO:0008283 ! cell proliferation relationship: part_of GO:0001832 ! blastocyst growth [Term] id: GO:0001834 name: trophectodermal cell proliferation namespace: biological_process def: "The proliferation of cells in the trophectoderm." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, trophectoderm ; EMAP:19', 'TS5, trophectoderm ; EMAP:28' and 'TS6, trophectoderm ; EMAP:39'. synonym: "trophectoderm cell proliferation" EXACT [] is_a: GO:0008283 ! cell proliferation relationship: part_of GO:0001832 ! blastocyst growth [Term] id: GO:0001835 name: blastocyst hatching namespace: biological_process def: "The hatching of the cellular blastocyst from the zona pellucida." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, zona pellucida ; EMAP:22' and 'TS5, embryo ; EMAP:23'. is_a: GO:0035188 ! hatching relationship: part_of GO:0001824 ! blastocyst development [Term] id: GO:0001836 name: release of cytochrome c from mitochondria namespace: biological_process def: "The process by which cytochrome c is enabled to move from the mitochondrial intermembrane space into the cytosol, which is an early step in apoptosis and leads to caspase activation." [GOC:add, GOC:mah, ISBN:0721639976, PMID:12925707, PMID:9560217] is_a: GO:0008637 ! apoptotic mitochondrial changes [Term] id: GO:0001837 name: epithelial to mesenchymal transition namespace: biological_process def: "A transition where an epithelial cell loses apical/basolateral polarity, severs intercellular adhesive junctions, degrades basement membrane components and becomes a migratory mesenchymal cell." [GOC:dph, PMID:14701881] synonym: "EMT" EXACT [] synonym: "epithelial-mesenchymal transition" EXACT [] is_a: GO:0000904 ! cell morphogenesis involved in differentiation relationship: part_of GO:0014031 ! mesenchymal cell development [Term] id: GO:0001838 name: embryonic epithelial tube formation namespace: biological_process def: "The morphogenesis of an embryonic epithelium into a tube-shaped structure." [GOC:dph, ISBN:0824072820] is_a: GO:0016331 ! morphogenesis of embryonic epithelium is_a: GO:0072175 ! epithelial tube formation [Term] id: GO:0001839 name: neural plate morphogenesis namespace: biological_process def: "The process by which the anatomical structures of the neural plate are generated and organized. Morphogenesis pertains to the creation of form. The neural plate is a specialized region of columnar epithelial cells in the dorsal ectoderm that will give rise to nervous system tissue." [GOC:dph, ISBN:0878932437] is_a: GO:0016331 ! morphogenesis of embryonic epithelium relationship: part_of GO:0001840 ! neural plate development [Term] id: GO:0001840 name: neural plate development namespace: biological_process def: "The process whose specific outcome is the progression of the neural plate over time, from its formation to the mature structure. The neural plate is a flat, thickened layer of ectodermal cells. The underlying dorsal mesoderm signals the ectodermal cells above it to elongate into columnar neural plate cells. The neural plate subsequently develops into the neural tube, which gives rise to the central nervous system." [GOC:dph, GOC:ef, ISBN:0878932437, ISBN:0878932585] is_a: GO:0016331 ! morphogenesis of embryonic epithelium relationship: part_of GO:0043009 ! chordate embryonic development [Term] id: GO:0001841 name: neural tube formation namespace: biological_process alt_id: GO:0001679 def: "The formation of a tube from the flat layer of ectodermal cells known as the neural plate. This will give rise to the central nervous system." [GOC:dph, ISBN:0878932437] synonym: "neural tube morphogenesis" EXACT [GOC:dph] synonym: "neurulation" EXACT [] xref: Wikipedia:Neurulation is_a: GO:0001838 ! embryonic epithelial tube formation relationship: part_of GO:0021915 ! neural tube development [Term] id: GO:0001842 name: neural fold formation namespace: biological_process def: "The process by which the edges of the neural plate thicken and move up to form a U-shaped structure called the neural groove." [GOC:dph, ISBN:0878932437] is_a: GO:0016331 ! morphogenesis of embryonic epithelium is_a: GO:0060571 ! morphogenesis of an epithelial fold relationship: part_of GO:0001839 ! neural plate morphogenesis relationship: part_of GO:0014020 ! primary neural tube formation [Term] id: GO:0001843 name: neural tube closure namespace: biological_process def: "The last step in the formation of the neural tube, where the paired neural folds are brought together and fuse at the dorsal midline." [GOC:dph, ISBN:0878932437] is_a: GO:0016331 ! morphogenesis of embryonic epithelium is_a: GO:0060606 ! tube closure relationship: part_of GO:0014020 ! primary neural tube formation [Term] id: GO:0001844 name: protein insertion into mitochondrial membrane involved in induction of apoptosis namespace: biological_process def: "The process by which a protein is incorporated into a mitochondrial membrane that contributes to the induction of apoptosis." [GOC:add, PMID:12952892] comment: Note that this term is intended to cover the insertion of pro-apoptotic proteins such as Bax or its homologs into mitochondrial membranes which occurs as an early step in the apoptotic program. synonym: "insertion of proteins into mitochondrial membranes during the induction of apoptosis" EXACT [] synonym: "protein insertion into mitochondrial membrane during induction of apoptosis" RELATED [GOC:dph, GOC:tb] synonym: "protein insertion into mitochondrion membrane during induction of apoptosis" EXACT [] xref: Reactome:114264 "Translocation of activated BAX to the mitochondria" xref: Reactome:139905 "Translocation of activated BAD protein to mitochondria" xref: Reactome:139909 "Translocation of BMF to mitochondria" xref: Reactome:139914 "Translocation of PUMA protein to mitochondria" xref: Reactome:139919 "Translocation of BIM to mitochondria" xref: Reactome:140216 "Translocation of NOXA to mitochondria" xref: Reactome:561740 "Translocation of activated BAD protein to mitochondria" xref: Reactome:561741 "Translocation of activated BAX to the mitochondria" xref: Reactome:561747 "Translocation of BIM to mitochondria" xref: Reactome:561749 "Translocation of BMF to mitochondria" xref: Reactome:561807 "Translocation of PUMA protein to mitochondria" xref: Reactome:587357 "Translocation of activated BAD protein to mitochondria" xref: Reactome:587358 "Translocation of activated BAX to the mitochondria" xref: Reactome:587364 "Translocation of BIM to mitochondria" xref: Reactome:587366 "Translocation of BMF to mitochondria" xref: Reactome:608350 "Translocation of BMF to mitochondria" xref: Reactome:632851 "Translocation of activated BAD protein to mitochondria" xref: Reactome:632853 "Translocation of activated BAX to the mitochondria" is_a: GO:0008637 ! apoptotic mitochondrial changes is_a: GO:0051204 ! protein insertion into mitochondrial membrane relationship: part_of GO:0006917 ! induction of apoptosis [Term] id: GO:0001845 name: phagolysosome assembly namespace: biological_process def: "The process by which a phagosome, a vesicle formed by phagocytosis, fuses with a lysosome." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "late phagosome biosynthesis" RELATED [] synonym: "late phagosome formation" RELATED [] synonym: "phagolysosome formation" RELATED [GOC:mah] is_a: GO:0006906 ! vesicle fusion is_a: GO:0006909 ! phagocytosis is_a: GO:0070925 ! organelle assembly [Term] id: GO:0001846 name: opsonin binding namespace: molecular_function def: "Interacting selectively and non-covalently with an opsonin, such as a complement component or antibody, deposited on the surface of a bacteria, virus, immune complex, or other particulate material." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that an opsonin is a blood serum protein or fragment which when deposited on the surface of a bacteria, virus, immune complex, or other particulate material acts a signal for phagocytosis to cells bearing the appropriate receptors. Not all complement components or fragments and not all antibodies have opsonic properties. is_a: GO:0005515 ! protein binding [Term] id: GO:0001847 name: opsonin receptor activity namespace: molecular_function def: "Combining with an opsonin to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001846 ! opsonin binding is_a: GO:0004888 ! transmembrane receptor activity [Term] id: GO:0001848 name: complement binding namespace: molecular_function def: "Interacting selectively and non-covalently with any component or product of the complement cascade." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that the complement cascade includes all of the components involved in the classical complement pathway, the alternative complement pathway, and the lectin complement pathway, as well as the common components of all three pathways. is_a: GO:0005515 ! protein binding [Term] id: GO:0001849 name: complement component C1q binding namespace: molecular_function def: "Interacting selectively and non-covalently with the C1q component of the classical complement cascade." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001846 ! opsonin binding is_a: GO:0001848 ! complement binding [Term] id: GO:0001850 name: complement component C3a binding namespace: molecular_function def: "Interacting selectively and non-covalently with the C3a product of the complement cascade." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001848 ! complement binding [Term] id: GO:0001851 name: complement component C3b binding namespace: molecular_function def: "Interacting selectively and non-covalently with the C3b product of the complement cascade." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001846 ! opsonin binding is_a: GO:0001848 ! complement binding [Term] id: GO:0001852 name: complement component iC3b binding namespace: molecular_function def: "Interacting selectively and non-covalently with the iC3b product of the complement cascade." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001846 ! opsonin binding is_a: GO:0001848 ! complement binding [Term] id: GO:0001853 name: complement component C3dg binding namespace: molecular_function def: "Interacting selectively and non-covalently with the C3dg product of the complement cascade." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001848 ! complement binding [Term] id: GO:0001854 name: complement component C3d binding namespace: molecular_function def: "Interacting selectively and non-covalently with the C3d product of the complement cascade." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001848 ! complement binding [Term] id: GO:0001855 name: complement component C4b binding namespace: molecular_function def: "Interacting selectively and non-covalently with the C4b product of the classical complement cascade." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001846 ! opsonin binding is_a: GO:0001848 ! complement binding [Term] id: GO:0001856 name: complement component C5a binding namespace: molecular_function def: "Interacting selectively and non-covalently with the C5a product of the complement cascade." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001848 ! complement binding [Term] id: GO:0001857 name: complement component C1q receptor activity namespace: molecular_function def: "Combining with the C1q component of the classical complement cascade to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001847 ! opsonin receptor activity is_a: GO:0001849 ! complement component C1q binding is_a: GO:0004875 ! complement receptor activity [Term] id: GO:0001858 name: complement component iC3b receptor activity namespace: molecular_function def: "Combining with the iC3b product of the complement cascade to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001847 ! opsonin receptor activity is_a: GO:0001852 ! complement component iC3b binding is_a: GO:0004875 ! complement receptor activity [Term] id: GO:0001859 name: complement component C3dg receptor activity namespace: molecular_function def: "Combining with the C3dg product of the complement cascade to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0004875 ! complement receptor activity [Term] id: GO:0001860 name: complement component C3d receptor activity namespace: molecular_function def: "Combining with the C3d product of the complement cascade to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0004875 ! complement receptor activity [Term] id: GO:0001861 name: complement component C4b receptor activity namespace: molecular_function def: "Combining with the C4b product of the classical complement cascade to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001847 ! opsonin receptor activity is_a: GO:0001855 ! complement component C4b binding is_a: GO:0004875 ! complement receptor activity [Term] id: GO:0001862 name: collectin binding namespace: molecular_function def: "Interacting selectively and non-covalently with a collectin, a member of a group of structurally related pattern recognition molecules characterized by having a carbohydrate recognition domain of the C-type lectin family at the C-terminus and a collagenous domain at the N-terminus." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that collectins include such proteins as mannose-binding lectins (MBL) and surfactant proteins A and D (SP-A and SP-D). is_a: GO:0001846 ! opsonin binding [Term] id: GO:0001863 name: collectin receptor activity namespace: molecular_function def: "Combining with a collectin to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that collectins include such proteins as mannose-binding lectin (MBL) and surfactant proteins A and D (SP-A and SP-D). is_a: GO:0001847 ! opsonin receptor activity [Term] id: GO:0001864 name: pentraxin binding namespace: molecular_function def: "Interacting selectively and non-covalently with a pentraxin, a member of a family of inflammatory proteins with a radially symmetric arrangement of five identical, noncovalently linked chains in a pentagonal array." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that pentraxins include such proteins as serum amyloid P component (SAP) and C-reactive protein (CRP). is_a: GO:0001846 ! opsonin binding [Term] id: GO:0001865 name: NK T cell differentiation namespace: biological_process def: "The process whereby a precursor cell type acquires the specialized features of a NK T cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:10704459] comment: Note that NK T cells are a distinct lineage of T cells expressing natural killer cell markers and having T cell receptors characterized by the usage of a restricted repertoire of variable region gene segments. synonym: "natural killer T cell differentiation" EXACT [] synonym: "natural T cell differentiation" EXACT [] synonym: "NK T lymphocyte differentiation" EXACT [] synonym: "NK T-cell differentiation" EXACT [] synonym: "NK T-lymphocyte differentiation" EXACT [] synonym: "NKT cell differentiation" EXACT [] synonym: "NT cell differentiation" EXACT [] is_a: GO:0046632 ! alpha-beta T cell differentiation [Term] id: GO:0001866 name: NK T cell proliferation namespace: biological_process def: "The expansion of a NK T cell population by cell division." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:10704459] comment: Note that NK T cells are a distinct lineage of T cells expressing natural killer cell markers and having T cell receptors characterized by the usage of a restricted repertoire of variable region gene segments. synonym: "natural killer T cell proliferation" EXACT [] synonym: "natural T cell proliferation" EXACT [] synonym: "NK T lymphocyte proliferation" EXACT [] synonym: "NK T-cell proliferation" EXACT [] synonym: "NK T-lymphocyte proliferation" EXACT [] synonym: "NKT cell proliferation" EXACT [] synonym: "NT cell proliferation" EXACT [] is_a: GO:0046633 ! alpha-beta T cell proliferation [Term] id: GO:0001867 name: complement activation, lectin pathway namespace: biological_process def: "Any process involved in the activation of any of the steps of the lectin pathway of the complement cascade which allows for the direct killing of microbes and the regulation of other immune processes." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that proteins such as mannose-binding lectin (MBL) and certain serum ficolins can activate the lectin complement pathway. xref: Reactome:166662 "Lectin pathway of complement activation" xref: Reactome:562783 "Lectin pathway of complement activation" xref: Reactome:588399 "Lectin pathway of complement activation" xref: Reactome:609136 "Lectin pathway of complement activation" is_a: GO:0006956 ! complement activation is_a: GO:0045087 ! innate immune response [Term] id: GO:0001868 name: regulation of complement activation, lectin pathway namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the lectin pathway of complement activation." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0030449 ! regulation of complement activation is_a: GO:0045088 ! regulation of innate immune response intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001867 ! complement activation, lectin pathway relationship: regulates GO:0001867 ! complement activation, lectin pathway [Term] id: GO:0001869 name: negative regulation of complement activation, lectin pathway namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of complement activation by the lectin pathway." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "down regulation of complement activation, lectin pathway" EXACT [] synonym: "down-regulation of complement activation, lectin pathway" EXACT [] synonym: "downregulation of complement activation, lectin pathway" EXACT [] synonym: "inhibition of complement activation, lectin pathway" NARROW [] is_a: GO:0001868 ! regulation of complement activation, lectin pathway is_a: GO:0045824 ! negative regulation of innate immune response is_a: GO:0045916 ! negative regulation of complement activation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001867 ! complement activation, lectin pathway relationship: negatively_regulates GO:0001867 ! complement activation, lectin pathway [Term] id: GO:0001870 name: positive regulation of complement activation, lectin pathway namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of complement activation by the lectin pathway." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "activation of complement activation, lectin pathway" NARROW [] synonym: "stimulation of complement activation, lectin pathway" NARROW [] synonym: "up regulation of complement activation, lectin pathway" EXACT [] synonym: "up-regulation of complement activation, lectin pathway" EXACT [] synonym: "upregulation of complement activation, lectin pathway" EXACT [] is_a: GO:0001868 ! regulation of complement activation, lectin pathway is_a: GO:0045089 ! positive regulation of innate immune response is_a: GO:0045917 ! positive regulation of complement activation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001867 ! complement activation, lectin pathway relationship: positively_regulates GO:0001867 ! complement activation, lectin pathway [Term] id: GO:0001871 name: pattern binding namespace: molecular_function def: "Interacting selectively and non-covalently with a repeating or polymeric structure, such as a polysaccharide or peptidoglycan." [PMID:12072369, PMID:12225919, PMID:12507420, PMID:12925128, PMID:14523544] comment: Note that this term and its child terms are intended for annotation of gene products which function to recognize (bind) the repeating structural units such as polysaccharides or peptidoglycans commonly found in microbial cell walls and virions. If such binding is coupled to signal transduction, use 'pattern recognition receptor activity ; GO:0008329' instead. subset: goslim_pir subset: gosubset_prok synonym: "pattern recognition activity" BROAD [] is_a: GO:0005488 ! binding [Term] id: GO:0001872 name: zymosan binding namespace: molecular_function def: "Interacting selectively and non-covalently with zymosan." [PMID:14707091] is_a: GO:0030247 ! polysaccharide binding [Term] id: GO:0001873 name: polysaccharide receptor activity namespace: molecular_function def: "Combining with a polysaccharide to initiate a change in cell activity." [PMID:14707091] is_a: GO:0008329 ! pattern recognition receptor activity is_a: GO:0030247 ! polysaccharide binding [Term] id: GO:0001874 name: zymosan receptor activity namespace: molecular_function def: "Combining with zymosan to initiate a change in cell activity." [PMID:14707091] is_a: GO:0001872 ! zymosan binding is_a: GO:0001873 ! polysaccharide receptor activity [Term] id: GO:0001875 name: lipopolysaccharide receptor activity namespace: molecular_function def: "Combining with a lipopolysaccharide to initiate a change in cell activity. Lipopolysaccharides (LPS) are major components of the outer membrane of Gram-negative bacteria, making them prime targets for recognition by the immune system." [PMID:14609719, PMID:15379975] synonym: "endotoxin receptor activity" BROAD [] synonym: "LPS receptor activity" EXACT [] is_a: GO:0001530 ! lipopolysaccharide binding is_a: GO:0008329 ! pattern recognition receptor activity relationship: part_of GO:0031663 ! lipopolysaccharide-mediated signaling pathway [Term] id: GO:0001876 name: lipoarabinomannan binding namespace: molecular_function def: "Interacting selectively and non-covalently with lipoarabinomannan." [PMID:10586073] synonym: "LAM binding" EXACT [] is_a: GO:0001871 ! pattern binding [Term] id: GO:0001877 name: lipoarabinomannan receptor activity namespace: molecular_function def: "Combining with lipoarabinomannan to initiate a change in cell activity." [PMID:10586073] synonym: "LAM receptor activity" EXACT [] is_a: GO:0001876 ! lipoarabinomannan binding is_a: GO:0008329 ! pattern recognition receptor activity [Term] id: GO:0001878 name: response to yeast namespace: biological_process def: "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 stimulus from a yeast species." [PMID:14707091] is_a: GO:0009620 ! response to fungus [Term] id: GO:0001879 name: detection of yeast namespace: biological_process def: "The series of events in which a stimulus from a yeast is received and converted into a molecular signal." [PMID:14707091] is_a: GO:0001878 ! response to yeast is_a: GO:0016046 ! detection of fungus [Term] id: GO:0001880 name: Mullerian duct regression namespace: biological_process def: "The process by which the Mullerian ducts, primordia of the oviducts, uterus and upper vagina, undergo regression in male embryos." [GOC:dph, PMID:12368913] is_a: GO:0003006 ! reproductive developmental process is_a: GO:0060033 ! anatomical structure regression relationship: part_of GO:0046661 ! male sex differentiation [Term] id: GO:0001881 name: receptor recycling namespace: biological_process def: "The process by which receptor molecules are returned to an active state and in an active cellular location after they have been stimulated by a ligand. An active state is when the receptor is ready to receive a signal." [GOC:dph] is_a: GO:0023046 ! signaling process is_a: GO:0043112 ! receptor metabolic process [Term] id: GO:0001882 name: nucleoside binding namespace: molecular_function def: "Interacting selectively and non-covalently with a nucleoside, a compound consisting of a purine or pyrimidine nitrogenous base linked either to ribose or deoxyribose." [GOC:hjd] subset: goslim_pir subset: gosubset_prok is_a: GO:0005488 ! binding [Term] id: GO:0001883 name: purine nucleoside binding namespace: molecular_function def: "Interacting selectively and non-covalently with a purine nucleoside, a compound consisting of a purine base linked either to ribose or deoxyribose." [GOC:hjd] is_a: GO:0001882 ! nucleoside binding [Term] id: GO:0001884 name: pyrimidine nucleoside binding namespace: molecular_function def: "Interacting selectively and non-covalently with a pyrimidine nucleoside, a compound consisting of a pyrimidine base linked either to ribose or deoxyribose." [GOC:hjd] is_a: GO:0001882 ! nucleoside binding [Term] id: GO:0001885 name: endothelial cell development namespace: biological_process def: "The progression of an endothelial cell over time, from its formation to the mature structure." [GOC:dph] is_a: GO:0002064 ! epithelial cell development relationship: part_of GO:0045446 ! endothelial cell differentiation [Term] id: GO:0001886 name: endothelial cell morphogenesis namespace: biological_process def: "The change in form (cell shape and size) that occurs during the differentiation of an endothelial cell." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0003382 ! epithelial cell morphogenesis relationship: part_of GO:0001885 ! endothelial cell development [Term] id: GO:0001887 name: selenium metabolic process namespace: biological_process def: "The chemical reactions and pathways involving the nonmetallic element selenium or compounds that contain selenium, such as selenocysteine." [PMID:12730456] subset: gosubset_prok synonym: "selenium metabolism" EXACT [] is_a: GO:0006790 ! sulfur metabolic process [Term] id: GO:0001888 name: glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-N-acetyl-D-glucosamine + beta-D-glucuronosyl-(1,3)-beta-D-galactosyl-(1,3)-beta-D-galactosyl-(1,4)-beta-D-xylosyl-proteoglycan = UDP + alpha-N-acetyl-D-glucosaminyl-(1,4)-beta-D-glucuronosyl-(1,3)-beta-D-galactosyl-(1,3)-beta-D-galactosyl-(1,4)-beta-D-xylosyl-proteoglycan." [EC:2.4.1.223] synonym: "alpha-1,4-N-acetylglucosaminyltransferase activity" EXACT [EC:2.4.1.223] synonym: "alpha-N-acetylglucosaminyltransferase I activity" EXACT [EC:2.4.1.223] synonym: "alpha1,4-N-acetylglucosaminyltransferase activity" EXACT [EC:2.4.1.223] synonym: "glucuronosylgalactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity" EXACT [EC:2.4.1.223] synonym: "UDP-N-acetyl-D-glucosamine:beta-D-glucuronosyl-(1->3)-beta-D-galactosyl-(1->3)-beta-D-galactosyl-(1->4)-beta-D-xylosyl-proteoglycan 4IV-alpha-N-acetyl-D-glucosaminyltransferase activity" EXACT [EC:2.4.1.223] xref: EC:2.4.1.223 xref: MetaCyc:2.4.1.223-RXN is_a: GO:0008375 ! acetylglucosaminyltransferase activity [Term] id: GO:0001889 name: liver development namespace: biological_process def: "The process whose specific outcome is the progression of the liver over time, from its formation to the mature structure. The liver is an exocrine gland which secretes bile and functions in metabolism of protein and carbohydrate and fat, synthesizes substances involved in the clotting of the blood, synthesizes vitamin A, detoxifies poisonous substances, stores glycogen, and breaks down worn-out erythrocytes." [GOC:add, ISBN:068340007X "Stedman's Medical Dictionary"] is_a: GO:0048513 ! organ development relationship: part_of GO:0061008 ! hepaticobiliary system development [Term] id: GO:0001890 name: placenta development namespace: biological_process def: "The process whose specific outcome is the progression of the placenta over time, from its formation to the mature structure. The placenta is an organ of metabolic interchange between fetus and mother, partly of embryonic origin and partly of maternal origin." [GOC:add, ISBN:068340007X "Stedman's Medical Dictionary"] synonym: "placental development" EXACT [] synonym: "placentation" EXACT [GOC:dph, GOC:tb] is_a: GO:0048513 ! organ development [Term] id: GO:0001891 name: phagocytic cup namespace: cellular_component def: "An invagination of the cell membrane formed by an actin dependent process during phagocytosis. Following internalization it is converted into a phagosome." [PMID:10358769] is_a: GO:0044459 ! plasma membrane part [Term] id: GO:0001892 name: embryonic placenta development namespace: biological_process def: "The embryonically driven process whose specific outcome is the progression of the placenta over time, from its formation to the mature structure. The placenta is an organ of metabolic interchange between fetus and mother, partly of embryonic origin and partly of maternal origin." [GOC:add, ISBN:068340007X "Stedman's Medical Dictionary"] synonym: "fetal placenta development" EXACT [GOC:dph] is_a: GO:0048568 ! embryonic organ development relationship: part_of GO:0001701 ! in utero embryonic development relationship: part_of GO:0001890 ! placenta development [Term] id: GO:0001893 name: maternal placenta development namespace: biological_process def: "Maternally driven process whose specific outcome is the progression of the placenta over time, from its formation to the mature structure. The placenta is an organ of metabolic interchange between fetus and mother, partly of embryonic origin and partly of maternal origin." [GOC:add, ISBN:068340007X "Stedman's Medical Dictionary"] synonym: "decidua development" RELATED [GOC:dph] is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0001890 ! placenta development [Term] id: GO:0001894 name: tissue homeostasis namespace: biological_process def: "A homeostatic process involved in the maintenance of an internal steady-state within a defined tissue of an organism, including control of cellular proliferation and death and control of metabolic function." [GOC:add, GOC:isa_complete] synonym: "tissue maintenance" NARROW [GOC:add] is_a: GO:0060249 ! anatomical structure homeostasis relationship: part_of GO:0048871 ! multicellular organismal homeostasis [Term] id: GO:0001895 name: retina homeostasis namespace: biological_process def: "A tissue homeostatic process involved in the maintenance of an internal equilibrium within the retina of the eye, including control of cellular proliferation and death and control of metabolic function." [GOC:add, GOC:dph, GOC:tb, PMID:15365173, PMID:15365178] is_a: GO:0001894 ! tissue homeostasis [Term] id: GO:0001896 name: autolysis namespace: biological_process def: "The spontaneous death by lysis of bacteria in response to environmental conditions." [GOC:add] subset: gosubset_prok xref: Wikipedia:Autolysis is_a: GO:0019835 ! cytolysis [Term] id: GO:0001897 name: cytolysis by symbiont of host cells namespace: biological_process def: "The killing by an organism of a cell in its host organism by means of the rupture of cell membranes and the loss of cytoplasm. The host is defined as the larger of the organisms involved in a symbiotic interaction." [GOC:add] subset: gosubset_prok synonym: "cytolysis by organism of host cells" EXACT [] is_a: GO:0001907 ! killing by symbiont of host cells is_a: GO:0051801 ! cytolysis of cells in other organism involved in symbiotic interaction is_a: GO:0052025 ! modification by symbiont of host cell membrane [Term] id: GO:0001898 name: regulation of cytolysis by symbiont of host cells namespace: biological_process def: "Any process by which an organism modulates the frequency, rate or extent of the cytolysis by that organism of cells in its host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction." [GOC:add, GOC:dph, GOC:tb] subset: gosubset_prok synonym: "regulation by symbiont of cytolysis of host cells" EXACT [GOC:dph, GOC:tb] is_a: GO:0051802 ! regulation of cytolysis of cells in other organism involved in symbiotic interaction intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001897 ! cytolysis by symbiont of host cells relationship: regulates GO:0001897 ! cytolysis by symbiont of host cells [Term] id: GO:0001899 name: negative regulation of cytolysis by symbiont of host cells namespace: biological_process def: "Any process by which an organism stops, prevents or reduces the frequency, rate or extent of cytolysis by that organism of cells in its host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction." [GOC:add, GOC:dph, GOC:tb] subset: gosubset_prok synonym: "down regulation by symbiont of cytolysis of host cells" EXACT [] synonym: "down-regulation by symbiont of cytolysis of host cells" EXACT [] synonym: "downregulation by symbiont of cytolysis of host cells" EXACT [] synonym: "inhibition by symbiont of cytolysis of host cells" NARROW [] synonym: "negative regulation by symbiont of cytolysis of host cells" EXACT [GOC:dph, GOC:tb] is_a: GO:0001898 ! regulation of cytolysis by symbiont of host cells is_a: GO:0051803 ! negative regulation of cytolysis of cells in other organism involved in symbiotic interaction intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001897 ! cytolysis by symbiont of host cells relationship: negatively_regulates GO:0001897 ! cytolysis by symbiont of host cells [Term] id: GO:0001900 name: positive regulation of cytolysis by symbiont of host cells namespace: biological_process def: "Any process by which an organism activates or increases the frequency, rate or extent of cytolysis by that organism of cells in its host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction." [GOC:add, GOC:dph, GOC:tb] subset: gosubset_prok synonym: "activation by symbiont of cytolysis of host cells" NARROW [] synonym: "positive regulation by symbiont of cytolysis of host cells" EXACT [GOC:dph, GOC:tb] synonym: "stimulation by symbiont of cytolysis of host cells" NARROW [] synonym: "up regulation by symbiont of cytolysis of host cells" EXACT [] synonym: "up-regulation by symbiont of cytolysis of host cells" EXACT [] synonym: "upregulation by symbiont of cytolysis of host cells" EXACT [] is_a: GO:0001898 ! regulation of cytolysis by symbiont of host cells is_a: GO:0051804 ! positive regulation of cytolysis of cells in other organism involved in symbiotic interaction intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001897 ! cytolysis by symbiont of host cells relationship: positively_regulates GO:0001897 ! cytolysis by symbiont of host cells [Term] id: GO:0001905 name: activation of membrane attack complex namespace: biological_process def: "The activation of the membrane attack complex components of the complement cascade which can result in death of a target cell through cytolysis." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "activation of MAC" EXACT [] synonym: "activation of TCC" NARROW [] synonym: "activation of terminal complement complex" NARROW [GOC:add] synonym: "activation of the terminal complement cascade" NARROW [] synonym: "MAC assembly" EXACT [GOC:rl] synonym: "MAC formation" EXACT [GOC:rl] synonym: "membrane attack complex assembly" EXACT [GOC:rl] synonym: "membrane attack complex formation" EXACT [GOC:rl] is_a: GO:0006956 ! complement activation [Term] id: GO:0001906 name: cell killing namespace: biological_process def: "Any process in an organism that results in the killing of its own cells or those of another organism, including in some cases the death of the other organism. Killing here refers to the induction of death in one cell by another cell, not cell-autonomous death due to internal or other environmental conditions." [GOC:add] subset: goslim_pir subset: gosubset_prok synonym: "necrosis" RELATED [] is_a: GO:0008150 ! biological_process [Term] id: GO:0001907 name: killing by symbiont of host cells namespace: biological_process def: "Any process mediated by an organism that results in the death of cells in the host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction." [GOC:add] subset: gosubset_prok is_a: GO:0044004 ! disruption by symbiont of host cells is_a: GO:0051883 ! killing of cells in other organism involved in symbiotic interaction [Term] id: GO:0001909 name: leukocyte mediated cytotoxicity namespace: biological_process def: "The directed killing of a target cell by a leukocyte." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology", PMID:11911826] comment: This term was improved by GO_REF:0000022. It was moved. Note that this term and its children describe contact-dependent killing of target cells by lymphocytes and myeloid cells of the immune system. synonym: "immune cell mediated cell death" EXACT [] synonym: "immune cell mediated cell killing" EXACT [] synonym: "immune cell mediated cytotoxicity" EXACT [] synonym: "leucocyte mediated cytotoxicity" EXACT [] is_a: GO:0001906 ! cell killing is_a: GO:0002252 ! immune effector process [Term] id: GO:0001910 name: regulation of leukocyte mediated cytotoxicity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of leukocyte mediated cytotoxicity." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:11911826] synonym: "regulation of immune cell mediated cell death" EXACT [] synonym: "regulation of immune cell mediated cell killing" EXACT [] synonym: "regulation of immune cell mediated cytotoxicity" EXACT [] synonym: "regulation of leucocyte mediated cytotoxicity" EXACT [] is_a: GO:0002697 ! regulation of immune effector process is_a: GO:0031341 ! regulation of cell killing intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001909 ! leukocyte mediated cytotoxicity relationship: regulates GO:0001909 ! leukocyte mediated cytotoxicity [Term] id: GO:0001911 name: negative regulation of leukocyte mediated cytotoxicity namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of leukocyte mediated cytotoxicity." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:11911826] synonym: "down regulation of leukocyte mediated cytotoxicity" EXACT [] synonym: "down-regulation of leukocyte mediated cytotoxicity" EXACT [] synonym: "downregulation of leukocyte mediated cytotoxicity" EXACT [] synonym: "inhibition of leukocyte mediated cytotoxicity" NARROW [] synonym: "negative regulation of immune cell mediated cytotoxicity" EXACT [] synonym: "negative regulation of leucocyte mediated cytotoxicity" EXACT [] is_a: GO:0001910 ! regulation of leukocyte mediated cytotoxicity is_a: GO:0002698 ! negative regulation of immune effector process is_a: GO:0031342 ! negative regulation of cell killing intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001909 ! leukocyte mediated cytotoxicity relationship: negatively_regulates GO:0001909 ! leukocyte mediated cytotoxicity [Term] id: GO:0001912 name: positive regulation of leukocyte mediated cytotoxicity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of leukocyte mediated cytotoxicity." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:11911826] synonym: "activation of leukocyte mediated cytotoxicity" NARROW [] synonym: "positive regulation of immune cell mediated cytotoxicity" EXACT [] synonym: "positive regulation of leucocyte mediated cytotoxicity" EXACT [] synonym: "stimulation of leukocyte mediated cytotoxicity" NARROW [] synonym: "up regulation of leukocyte mediated cytotoxicity" EXACT [] synonym: "up-regulation of leukocyte mediated cytotoxicity" EXACT [] synonym: "upregulation of leukocyte mediated cytotoxicity" EXACT [] is_a: GO:0001910 ! regulation of leukocyte mediated cytotoxicity is_a: GO:0002699 ! positive regulation of immune effector process is_a: GO:0031343 ! positive regulation of cell killing intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001909 ! leukocyte mediated cytotoxicity relationship: positively_regulates GO:0001909 ! leukocyte mediated cytotoxicity [Term] id: GO:0001913 name: T cell mediated cytotoxicity namespace: biological_process def: "The directed killing of a target cell by a T cell through the release of granules containing cytotoxic mediators or through the engagement of death receptors." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:11911826] comment: Note that either or both mechanisms mentioned in the definition may be used in this process. Note that both granule release and the engagement of death receptors on target cells result in the induction of apoptosis in the target cell. Note that both CD4 and CD8 positive T cells can mediate apoptosis of target cells, independently of their definition as 'helper' T cells or not. synonym: "T cell mediated apoptosis" EXACT [] synonym: "T cell mediated cell death" EXACT [] synonym: "T cell mediated cell killing" EXACT [] synonym: "T cell mediated cytolysis" RELATED [] synonym: "T lymphocyte mediated cytotoxicity" EXACT [] synonym: "T-cell mediated apoptosis" EXACT [] synonym: "T-cell mediated cell death" EXACT [] synonym: "T-cell mediated cell killing" EXACT [] synonym: "T-cell mediated cytotoxicity" EXACT [] synonym: "T-lymphocyte mediated cytotoxicity" EXACT [] is_a: GO:0001909 ! leukocyte mediated cytotoxicity is_a: GO:0002456 ! T cell mediated immunity is_a: GO:0006917 ! induction of apoptosis [Term] id: GO:0001914 name: regulation of T cell mediated cytotoxicity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of T cell mediated cytotoxicity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "regulation of T cell mediated apoptosis" EXACT [] synonym: "regulation of T cell mediated cell death" EXACT [] synonym: "regulation of T cell mediated cell killing" EXACT [] synonym: "regulation of T cell mediated cytolysis" RELATED [] synonym: "regulation of T lymphocyte mediated cytotoxicity" EXACT [] synonym: "regulation of T-cell mediated apoptosis" EXACT [] synonym: "regulation of T-cell mediated cell death" EXACT [] synonym: "regulation of T-cell mediated cell killing" EXACT [] synonym: "regulation of T-cell mediated cytolysis" RELATED [] synonym: "regulation of T-cell mediated cytotoxicity" EXACT [] synonym: "regulation of T-lymphocyte mediated cytotoxicity" EXACT [] is_a: GO:0001910 ! regulation of leukocyte mediated cytotoxicity is_a: GO:0002709 ! regulation of T cell mediated immunity intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001913 ! T cell mediated cytotoxicity relationship: regulates GO:0001913 ! T cell mediated cytotoxicity [Term] id: GO:0001915 name: negative regulation of T cell mediated cytotoxicity namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of T cell mediated cytotoxicity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "down regulation of T cell mediated cytotoxicity" EXACT [] synonym: "down-regulation of T cell mediated cytotoxicity" EXACT [] synonym: "downregulation of T cell mediated cytotoxicity" EXACT [] synonym: "inhibition of T cell mediated cytotoxicity" NARROW [] synonym: "negative regulation of T cell mediated apoptosis" EXACT [] synonym: "negative regulation of T cell mediated cell death" EXACT [] synonym: "negative regulation of T cell mediated cell killing" EXACT [] synonym: "negative regulation of T cell mediated cytolysis" RELATED [] synonym: "negative regulation of T lymphocyte mediated cytotoxicity" EXACT [] synonym: "negative regulation of T-cell mediated apoptosis" EXACT [] synonym: "negative regulation of T-cell mediated cell death" EXACT [] synonym: "negative regulation of T-cell mediated cell killing" EXACT [] synonym: "negative regulation of T-cell mediated cytolysis" RELATED [] synonym: "negative regulation of T-cell mediated cytotoxicity" EXACT [] synonym: "negative regulation of T-lymphocyte mediated cytotoxicity" EXACT [] is_a: GO:0001911 ! negative regulation of leukocyte mediated cytotoxicity is_a: GO:0001914 ! regulation of T cell mediated cytotoxicity is_a: GO:0002710 ! negative regulation of T cell mediated immunity intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001913 ! T cell mediated cytotoxicity relationship: negatively_regulates GO:0001913 ! T cell mediated cytotoxicity [Term] id: GO:0001916 name: positive regulation of T cell mediated cytotoxicity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of T cell mediated cytotoxicity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "activation of T cell mediated cytotoxicity" NARROW [] synonym: "positive regulation of T cell mediated apoptosis" EXACT [] synonym: "positive regulation of T cell mediated cell death" EXACT [] synonym: "positive regulation of T cell mediated cell killing" EXACT [] synonym: "positive regulation of T cell mediated cytolysis" RELATED [] synonym: "positive regulation of T lymphocyte mediated cytotoxicity" EXACT [] synonym: "positive regulation of T-cell mediated apoptosis" EXACT [] synonym: "positive regulation of T-cell mediated cell death" EXACT [] synonym: "positive regulation of T-cell mediated cell killing" EXACT [] synonym: "positive regulation of T-cell mediated cytolysis" RELATED [] synonym: "positive regulation of T-cell mediated cytotoxicity" EXACT [] synonym: "positive regulation of T-lymphocyte mediated cytotoxicity" EXACT [] synonym: "stimulation of T cell mediated cytotoxicity" NARROW [] synonym: "up regulation of T cell mediated cytotoxicity" EXACT [] synonym: "up-regulation of T cell mediated cytotoxicity" EXACT [] synonym: "upregulation of T cell mediated cytotoxicity" EXACT [] is_a: GO:0001912 ! positive regulation of leukocyte mediated cytotoxicity is_a: GO:0001914 ! regulation of T cell mediated cytotoxicity is_a: GO:0002711 ! positive regulation of T cell mediated immunity intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001913 ! T cell mediated cytotoxicity relationship: positively_regulates GO:0001913 ! T cell mediated cytotoxicity [Term] id: GO:0001917 name: photoreceptor inner segment namespace: cellular_component def: "The inner segment of a vertebrate photoreceptor containing mitochondria, ribosomes and membranes where opsin molecules are assembled and passed to be part of the outer segment discs." [GOC:add, PMID:12019563] subset: goslim_pir is_a: GO:0044464 ! cell part [Term] id: GO:0001918 name: farnesylated protein binding namespace: molecular_function def: "Interacting selectively and non-covalently with a farnesylated protein." [GOC:add, PMID:14555765] is_a: GO:0005515 ! protein binding [Term] id: GO:0001919 name: regulation of receptor recycling namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of receptor recycling." [GOC:add] is_a: GO:0023051 ! regulation of signaling process is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0060255 ! regulation of macromolecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001881 ! receptor recycling relationship: regulates GO:0001881 ! receptor recycling [Term] id: GO:0001920 name: negative regulation of receptor recycling namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of receptor recycling." [GOC:add] synonym: "down regulation of receptor recycling" EXACT [] synonym: "down-regulation of receptor recycling" EXACT [] synonym: "downregulation of receptor recycling" EXACT [] synonym: "inhibition of receptor recycling" NARROW [] is_a: GO:0001919 ! regulation of receptor recycling is_a: GO:0010605 ! negative regulation of macromolecule metabolic process is_a: GO:0023057 ! negative regulation of signaling process is_a: GO:0031324 ! negative regulation of cellular metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001881 ! receptor recycling relationship: negatively_regulates GO:0001881 ! receptor recycling [Term] id: GO:0001921 name: positive regulation of receptor recycling namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of receptor recycling." [GOC:add] synonym: "activation of receptor recycling" NARROW [] synonym: "stimulation of receptor recycling" NARROW [] synonym: "up regulation of receptor recycling" EXACT [] synonym: "up-regulation of receptor recycling" EXACT [] synonym: "upregulation of receptor recycling" EXACT [] is_a: GO:0001919 ! regulation of receptor recycling is_a: GO:0010604 ! positive regulation of macromolecule metabolic process is_a: GO:0023056 ! positive regulation of signaling process is_a: GO:0031325 ! positive regulation of cellular metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001881 ! receptor recycling relationship: positively_regulates GO:0001881 ! receptor recycling [Term] id: GO:0001922 name: B-1 B cell homeostasis namespace: biological_process def: "The process of regulating the proliferation and elimination of B cells of the B-1 subset such that the total number of B-1 B cells within a whole or part of an organism is stable over time in the absence of an outside stimulus. B-1 B cells are a distinct subset of B cells characterized as being CD5 positive, found predominantly in the peritoneum, pleural cavities, and spleen, and enriched for self-reactivity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that this term represents the return of B-1 B cell levels to stable numbers following an immune response, as well as the proliferation and elimination of B-1 B cells in a organism required to maintain stable numbers in the absence of an outside stimulus. synonym: "B-1 B lymphocyte homeostasis" EXACT [] synonym: "B-1 B-cell homeostasis" EXACT [] synonym: "B-1 B-lymphocyte homeostasis" EXACT [] is_a: GO:0001782 ! B cell homeostasis [Term] id: GO:0001923 name: B-1 B cell differentiation namespace: biological_process def: "The process whereby a hemopoietic stem cell acquires the specialized features of a B-1 B cell. B-1 B cells are a distinct subset of B cells characterized as being CD5 positive, found predominantly in the peritoneum, pleural cavities, and spleen, and enriched for self-reactivity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "B-1 B lymphocyte differentiation" EXACT [] synonym: "B-1 B-cell differentiation" EXACT [] synonym: "B-1 B-lymphocyte differentiation" EXACT [] is_a: GO:0002335 ! mature B cell differentiation [Term] id: GO:0001924 name: regulation of B-1 B cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of B-1 B cell differentiation. B-1 B cells are a distinct subset of B cells characterized as being CD5 positive, found predominantly in the peritoneum, pleural cavities, and spleen, and enriched for self-reactivity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "regulation of B-1 B lymphocyte differentiation" EXACT [] synonym: "regulation of B-1 B-cell differentiation" EXACT [] synonym: "regulation of B-1 B-lymphocyte differentiation" EXACT [] is_a: GO:0045577 ! regulation of B cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001923 ! B-1 B cell differentiation relationship: regulates GO:0001923 ! B-1 B cell differentiation [Term] id: GO:0001925 name: negative regulation of B-1 B cell differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of B-1 B cell differentiation." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "down regulation of B-1 B cell differentiation" EXACT [] synonym: "down-regulation of B-1 B cell differentiation" EXACT [] synonym: "downregulation of B-1 B cell differentiation" EXACT [] synonym: "inhibition of B-1 B cell differentiation" NARROW [] synonym: "negative regulation of B-1 B lymphocyte differentiation" EXACT [] synonym: "negative regulation of B-1 B-cell differentiation" EXACT [] synonym: "negative regulation of B-1 B-lymphocyte differentiation" EXACT [] is_a: GO:0001924 ! regulation of B-1 B cell differentiation is_a: GO:0045578 ! negative regulation of B cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001923 ! B-1 B cell differentiation relationship: negatively_regulates GO:0001923 ! B-1 B cell differentiation [Term] id: GO:0001926 name: positive regulation of B-1 B cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of B-1 B cell differentiation." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "activation of B-1 B cell differentiation" NARROW [] synonym: "positive regulation of B-1 B lymphocyte differentiation" EXACT [] synonym: "positive regulation of B-1 B-cell differentiation" EXACT [] synonym: "positive regulation of B-1 B-lymphocyte differentiation" EXACT [] synonym: "stimulation of B-1 B cell differentiation" NARROW [] synonym: "up regulation of B-1 B cell differentiation" EXACT [] synonym: "up-regulation of B-1 B cell differentiation" EXACT [] synonym: "upregulation of B-1 B cell differentiation" EXACT [] is_a: GO:0001924 ! regulation of B-1 B cell differentiation is_a: GO:0045579 ! positive regulation of B cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001923 ! B-1 B cell differentiation relationship: positively_regulates GO:0001923 ! B-1 B cell differentiation [Term] id: GO:0001927 name: exocyst assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of various polypeptides into the exocyst complex." [GOC:hjd, Wikipedia:Exocyst] is_a: GO:0043623 ! cellular protein complex assembly relationship: part_of GO:0006904 ! vesicle docking involved in exocytosis [Term] id: GO:0001928 name: regulation of exocyst assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of exocyst assembly." [GOC:hjd] comment: Note that the assembly is regulated by several small GTPases of the Rab and Rho families. is_a: GO:0017157 ! regulation of exocytosis is_a: GO:0043254 ! regulation of protein complex assembly intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001927 ! exocyst assembly relationship: regulates GO:0001927 ! exocyst assembly [Term] id: GO:0001929 name: negative regulation of exocyst assembly namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of exocyst assembly." [GOC:hjd] synonym: "down regulation of exocyst assembly" EXACT [] synonym: "down-regulation of exocyst assembly" EXACT [] synonym: "downregulation of exocyst assembly" EXACT [] synonym: "inhibition of exocyst assembly" NARROW [] is_a: GO:0001928 ! regulation of exocyst assembly is_a: GO:0031333 ! negative regulation of protein complex assembly is_a: GO:0048523 ! negative regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001927 ! exocyst assembly relationship: negatively_regulates GO:0001927 ! exocyst assembly [Term] id: GO:0001930 name: positive regulation of exocyst assembly namespace: biological_process def: "Any process that increases the rate or extent of exocyst assembly." [GOC:hjd] synonym: "activation of exocyst assembly" NARROW [] synonym: "stimulation of exocyst assembly" NARROW [] synonym: "up regulation of exocyst assembly" EXACT [] synonym: "up-regulation of exocyst assembly" EXACT [] synonym: "upregulation of exocyst assembly" EXACT [] is_a: GO:0001928 ! regulation of exocyst assembly is_a: GO:0031334 ! positive regulation of protein complex assembly is_a: GO:0048522 ! positive regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001927 ! exocyst assembly relationship: positively_regulates GO:0001927 ! exocyst assembly [Term] id: GO:0001931 name: uropod namespace: cellular_component def: "A membrane projection with related cytoskeletal components at the trailing edge of a cell in the process of migrating or being activated, found on the opposite side of the cell from the leading edge or immunological synapse, respectively." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:12714569, PMID:12787750] synonym: "distal pole complex" RELATED [] synonym: "retractile pole" RELATED [] synonym: "uropodium" EXACT [] is_a: GO:0042995 ! cell projection intersection_of: GO:0042995 ! cell projection intersection_of: part_of GO:0031254 ! trailing edge relationship: part_of GO:0031254 ! trailing edge [Term] id: GO:0001932 name: regulation of protein amino acid phosphorylation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of addition of phosphate groups into an amino acid in a protein." [GOC:hjd] subset: gosubset_prok is_a: GO:0031399 ! regulation of protein modification process is_a: GO:0042325 ! regulation of phosphorylation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006468 ! protein amino acid phosphorylation relationship: regulates GO:0006468 ! protein amino acid phosphorylation [Term] id: GO:0001933 name: negative regulation of protein amino acid phosphorylation namespace: biological_process def: "Any process that stops, prevents or decreases the rate of addition of phosphate groups to amino acids within a protein." [GOC:hjd] subset: gosubset_prok synonym: "down regulation of protein amino acid phosphorylation" EXACT [] synonym: "down-regulation of protein amino acid phosphorylation" EXACT [] synonym: "downregulation of protein amino acid phosphorylation" EXACT [] synonym: "inhibition of protein amino acid phosphorylation" NARROW [] is_a: GO:0001932 ! regulation of protein amino acid phosphorylation is_a: GO:0031400 ! negative regulation of protein modification process is_a: GO:0042326 ! negative regulation of phosphorylation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006468 ! protein amino acid phosphorylation relationship: negatively_regulates GO:0006468 ! protein amino acid phosphorylation [Term] id: GO:0001934 name: positive regulation of protein amino acid phosphorylation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of addition of phosphate groups to amino acids within a protein." [GOC:hjd] subset: gosubset_prok synonym: "activation of protein amino acid phosphorylation" NARROW [] synonym: "stimulation of protein amino acid phosphorylation" NARROW [] synonym: "up regulation of protein amino acid phosphorylation" EXACT [] synonym: "up-regulation of protein amino acid phosphorylation" EXACT [] synonym: "upregulation of protein amino acid phosphorylation" EXACT [] is_a: GO:0001932 ! regulation of protein amino acid phosphorylation is_a: GO:0031401 ! positive regulation of protein modification process is_a: GO:0042327 ! positive regulation of phosphorylation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006468 ! protein amino acid phosphorylation relationship: positively_regulates GO:0006468 ! protein amino acid phosphorylation [Term] id: GO:0001935 name: endothelial cell proliferation namespace: biological_process def: "The multiplication or reproduction of endothelial cells, resulting in the expansion of a cell population. Endothelial cells are thin flattened cells which line the inside surfaces of body cavities, blood vessels, and lymph vessels, making up the endothelium." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0008283 ! cell proliferation [Term] id: GO:0001936 name: regulation of endothelial cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of endothelial cell proliferation." [GOC:add] is_a: GO:0042127 ! regulation of cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001935 ! endothelial cell proliferation relationship: regulates GO:0001935 ! endothelial cell proliferation [Term] id: GO:0001937 name: negative regulation of endothelial cell proliferation namespace: biological_process def: "Any process that stops, prevents, or reduces the rate or extent of endothelial cell proliferation." [GOC:add] synonym: "down regulation of endothelial cell proliferation" EXACT [] synonym: "down-regulation of endothelial cell proliferation" EXACT [] synonym: "downregulation of endothelial cell proliferation" EXACT [] synonym: "inhibition of endothelial cell proliferation" NARROW [] is_a: GO:0001936 ! regulation of endothelial cell proliferation is_a: GO:0008285 ! negative regulation of cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001935 ! endothelial cell proliferation relationship: negatively_regulates GO:0001935 ! endothelial cell proliferation [Term] id: GO:0001938 name: positive regulation of endothelial cell proliferation namespace: biological_process def: "Any process that activates or increases the rate or extent of endothelial cell proliferation." [GOC:add] synonym: "activation of endothelial cell proliferation" NARROW [] synonym: "stimulation of endothelial cell proliferation" NARROW [] synonym: "up regulation of endothelial cell proliferation" EXACT [] synonym: "up-regulation of endothelial cell proliferation" EXACT [] synonym: "upregulation of endothelial cell proliferation" EXACT [] is_a: GO:0001936 ! regulation of endothelial cell proliferation is_a: GO:0008284 ! positive regulation of cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001935 ! endothelial cell proliferation relationship: positively_regulates GO:0001935 ! endothelial cell proliferation [Term] id: GO:0001939 name: female pronucleus namespace: cellular_component def: "The pronucleus originating from the ovum that is being fertilized." [GOC:hjd, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] is_a: GO:0045120 ! pronucleus [Term] id: GO:0001940 name: male pronucleus namespace: cellular_component def: "The pronucleus originating from the spermatozoa that was involved in fertilization." [GOC:hjd, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] is_a: GO:0045120 ! pronucleus [Term] id: GO:0001941 name: postsynaptic membrane organization namespace: biological_process def: "The maintenance of membrane composition in a postsynaptic membrane, the specialized area of membrane facing the presynaptic membrane on the tip of the nerve ending and separated from it by a minute cleft (the synaptic cleft)." [GOC:dph] synonym: "postsynaptic membrane organisation" EXACT [GOC:curators] is_a: GO:0016044 ! cellular membrane organization [Term] id: GO:0001942 name: hair follicle development namespace: biological_process alt_id: GO:0001943 def: "The process whose specific outcome is the progression of the hair follicle over time, from its formation to the mature structure. A hair follicle is a tube-like opening in the epidermis where the hair shaft develops and into which the sebaceous glands open." [GOC:dph, http://cancerweb.ncl.ac.uk] is_a: GO:0008544 ! epidermis development is_a: GO:0022405 ! hair cycle process [Term] id: GO:0001944 name: vasculature development namespace: biological_process def: "The process whose specific outcome is the progression of the vasculature over time, from its formation to the mature structure." [GOC:dph] is_a: GO:0048513 ! organ development [Term] id: GO:0001945 name: lymph vessel development namespace: biological_process def: "The process whose specific outcome is the progression of the lymphatic vasculature over time, from its formation to the mature structure." [GOC:dph] is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0001944 ! vasculature development [Term] id: GO:0001946 name: lymphangiogenesis namespace: biological_process def: "Lymph vessel formation when new vessels emerge from the proliferation of pre-existing vessels." [GOC:dph, PMID:11596157] synonym: "lymph vessel formation" EXACT systematic_synonym [] xref: Wikipedia:Lymphangiogenesis is_a: GO:0009653 ! anatomical structure morphogenesis relationship: part_of GO:0001945 ! lymph vessel development [Term] id: GO:0001947 name: heart looping namespace: biological_process def: "The characteristic morphogenetic movements where the primitive heart tube loops asymmetrically. This looping brings the primitive heart chambers into alignment preceding their future integration." [GOC:dph, PMID:12094232] synonym: "cardiac looping" EXACT [] is_a: GO:0035239 ! tube morphogenesis relationship: part_of GO:0003143 ! embryonic heart tube morphogenesis [Term] id: GO:0001948 name: glycoprotein binding namespace: molecular_function def: "Interacting selectively and non-covalently with a glycoprotein, a protein that contains covalently bound glycose (monosaccharide) residues. These also include proteoglycans." [GOC:hjd, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] is_a: GO:0005515 ! protein binding [Term] id: GO:0001949 name: sebaceous gland cell differentiation namespace: biological_process def: "Process whereby a relatively unspecialized epidermal cell acquires the specialized features of a sebaceous gland cell." [GOC:mgi_curators, PMID:15737203] synonym: "sebocytes differentiation" NARROW [GOC:mgi_curators] is_a: GO:0009913 ! epidermal cell differentiation relationship: part_of GO:0048733 ! sebaceous gland development [Term] id: GO:0001950 name: plasma membrane enriched fraction namespace: cellular_component def: "The fraction of cells, prepared by disruptive biochemical methods, that is enriched for plasma membranes." [GOC:mgi_curators, PMID:11562363, PMID:15601832] synonym: "PME fraction" RELATED [GOC:mah] is_a: GO:0000267 ! cell fraction relationship: part_of GO:0005624 ! membrane fraction [Term] id: GO:0001951 name: intestinal D-glucose absorption namespace: biological_process def: "Uptake of D-glucose into the blood by absorption from the small intestine." [GOC:mgi_curators, PMID:5601832] is_a: GO:0015758 ! glucose transport is_a: GO:0050892 ! intestinal absorption [Term] id: GO:0001952 name: regulation of cell-matrix adhesion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of attachment of a cell to the extracellular matrix." [GOC:hjd] is_a: GO:0010810 ! regulation of cell-substrate adhesion intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007160 ! cell-matrix adhesion relationship: regulates GO:0007160 ! cell-matrix adhesion [Term] id: GO:0001953 name: negative regulation of cell-matrix adhesion namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of cell adhesion to the extracellular matrix." [GOC:hjd] synonym: "down regulation of cell-matrix adhesion" EXACT [] synonym: "down-regulation of cell-matrix adhesion" EXACT [] synonym: "downregulation of cell-matrix adhesion" EXACT [] synonym: "inhibition of cell-matrix adhesion" NARROW [] is_a: GO:0001952 ! regulation of cell-matrix adhesion is_a: GO:0010812 ! negative regulation of cell-substrate adhesion intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007160 ! cell-matrix adhesion relationship: negatively_regulates GO:0007160 ! cell-matrix adhesion [Term] id: GO:0001954 name: positive regulation of cell-matrix adhesion namespace: biological_process def: "Any process that activates or increases the rate or extent of cell adhesion to an extracellular matrix." [GOC:hjd] synonym: "activation of cell-matrix adhesion" NARROW [] synonym: "stimulation of cell-matrix adhesion" NARROW [] synonym: "up regulation of cell-matrix adhesion" EXACT [] synonym: "up-regulation of cell-matrix adhesion" EXACT [] synonym: "upregulation of cell-matrix adhesion" EXACT [] is_a: GO:0001952 ! regulation of cell-matrix adhesion is_a: GO:0010811 ! positive regulation of cell-substrate adhesion intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007160 ! cell-matrix adhesion relationship: positively_regulates GO:0007160 ! cell-matrix adhesion [Term] id: GO:0001955 name: blood vessel maturation namespace: biological_process def: "A developmental process, independent of morphogenetic (shape) change, that is required for a blood vessel to attain its fully functional state." [GOC:dph] is_a: GO:0071695 ! anatomical structure maturation relationship: part_of GO:0001568 ! blood vessel development [Term] id: GO:0001956 name: positive regulation of neurotransmitter secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the regulated release of a neurotransmitter." [GOC:hjd] synonym: "activation of neurotransmitter secretion" NARROW [] synonym: "stimulation of neurotransmitter secretion" NARROW [] synonym: "up regulation of neurotransmitter secretion" EXACT [] synonym: "up-regulation of neurotransmitter secretion" EXACT [] synonym: "upregulation of neurotransmitter secretion" EXACT [] is_a: GO:0046928 ! regulation of neurotransmitter secretion is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0051047 ! positive regulation of secretion is_a: GO:0051590 ! positive regulation of neurotransmitter transport intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007269 ! neurotransmitter secretion relationship: positively_regulates GO:0007269 ! neurotransmitter secretion [Term] id: GO:0001957 name: intramembranous ossification namespace: biological_process def: "The formation of bone in which osteoblasts secrete a collagen-proteoglycan matrix that binds calcium salts and becomes calcified. Intramembranous ossification is the way flat bones and the shell of a turtle are formed." [ISBN:0878932437] xref: Wikipedia:Intramembranous_ossification is_a: GO:0001503 ! ossification [Term] id: GO:0001958 name: endochondral ossification namespace: biological_process def: "The formation of bone by the replacement of cartilage tissue with mineralized bone." [ISBN:0878932437] xref: Wikipedia:Endochondral_ossification is_a: GO:0001503 ! ossification relationship: part_of GO:0060350 ! endochondral bone morphogenesis [Term] id: GO:0001959 name: regulation of cytokine-mediated signaling pathway namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the cytokine mediated signaling pathway." [GOC:hjd] synonym: "regulation of cytokine and chemokine mediated signaling pathway" EXACT [] synonym: "regulation of cytokine mediated signaling pathway" EXACT [GOC:dph, GOC:tb] synonym: "regulation of cytokine mediated signalling pathway" EXACT [] is_a: GO:0009966 ! regulation of signal transduction is_a: GO:0035466 ! regulation of signaling pathway intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0019221 ! cytokine-mediated signaling pathway relationship: regulates GO:0019221 ! cytokine-mediated signaling pathway [Term] id: GO:0001960 name: negative regulation of cytokine-mediated signaling pathway namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of the cytokine mediated signaling pathway." [GOC:hjd] synonym: "down regulation of cytokine mediated signaling pathway" EXACT [] synonym: "down-regulation of cytokine mediated signaling pathway" EXACT [] synonym: "downregulation of cytokine mediated signaling pathway" EXACT [] synonym: "inhibition of cytokine mediated signaling pathway" NARROW [] synonym: "negative regulation of cytokine and chemokine mediated signaling pathway" EXACT [] synonym: "negative regulation of cytokine mediated signaling pathway" EXACT [GOC:dph, GOC:tb] synonym: "negative regulation of cytokine mediated signalling pathway" EXACT [] is_a: GO:0001959 ! regulation of cytokine-mediated signaling pathway is_a: GO:0035467 ! negative regulation of signaling pathway intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0019221 ! cytokine-mediated signaling pathway relationship: negatively_regulates GO:0019221 ! cytokine-mediated signaling pathway [Term] id: GO:0001961 name: positive regulation of cytokine-mediated signaling pathway namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of a cytokine mediated signaling pathway." [GOC:hjd] synonym: "activation of cytokine mediated signaling pathway" NARROW [] synonym: "positive regulation of cytokine and chemokine mediated signaling pathway" EXACT [] synonym: "positive regulation of cytokine mediated signaling pathway" EXACT [GOC:dph, GOC:tb] synonym: "positive regulation of cytokine mediated signalling pathway" EXACT [] synonym: "stimulation of cytokine mediated signaling pathway" NARROW [] synonym: "up regulation of cytokine mediated signaling pathway" EXACT [] synonym: "up-regulation of cytokine mediated signaling pathway" EXACT [] synonym: "upregulation of cytokine mediated signaling pathway" EXACT [] is_a: GO:0001959 ! regulation of cytokine-mediated signaling pathway is_a: GO:0035468 ! positive regulation of signaling pathway intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0019221 ! cytokine-mediated signaling pathway relationship: positively_regulates GO:0019221 ! cytokine-mediated signaling pathway [Term] id: GO:0001962 name: alpha-1,3-galactosyltransferase activity namespace: molecular_function def: "Catalysis of the transfer of a galactose residue from a donor molecule, such as GDP-galactose or UDP-galactose, to an oligosaccharide, forming an alpha-1,3-linkage." [GOC:hjd, PMID:10854427] synonym: "isoglobotriaosylceramide synthase" NARROW [] xref: EC:2.4.1.- is_a: GO:0008378 ! galactosyltransferase activity [Term] id: GO:0001963 name: synaptic transmission, dopaminergic namespace: biological_process def: "The process of communication from a neuron to another neuron across a synapse using the neurotransmitter dopamine." [GOC:dph] is_a: GO:0007270 ! nerve-nerve synaptic transmission [Term] id: GO:0001964 name: startle response namespace: biological_process def: "An action or movement due to the application of a sudden unexpected stimulus." [GOC:dph] xref: Wikipedia:Startle_reaction is_a: GO:0009605 ! response to external stimulus is_a: GO:0050905 ! neuromuscular process [Term] id: GO:0001965 name: G-protein alpha-subunit binding namespace: molecular_function def: "Interacting selectively and non-covalently with a G-protein alpha subunit. The alpha subunit binds a guanine nucleotide." [GOC:hjd] synonym: "G-alpha protein subunit binding" EXACT [] is_a: GO:0005515 ! protein binding [Term] id: GO:0001966 name: thigmotaxis namespace: biological_process def: "The directed movement of a motile cell or organism in response to touch." [GOC:dph] synonym: "stereotaxis" EXACT [] synonym: "taxis in response to mechanical stimulus" BROAD [] synonym: "taxis in response to touch stimulus" EXACT [] is_a: GO:0042330 ! taxis [Term] id: GO:0001967 name: suckling behavior namespace: biological_process def: "Specific actions of a newborn or infant mammal that result in the derivation of nourishment from the breast." [GOC:dph] synonym: "nursing behavior" EXACT [] is_a: GO:0007631 ! feeding behavior is_a: GO:0051705 ! behavioral interaction between organisms [Term] id: GO:0001968 name: fibronectin binding namespace: molecular_function def: "Interacting selectively and non-covalently with a fibronectin, a group of related adhesive glycoproteins of high molecular weight found on the surface of animal cells, connective tissue matrices, and in extracellular fluids." [GOC:hjd] is_a: GO:0005515 ! protein binding [Term] id: GO:0001969 name: regulation of activation of membrane attack complex namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the activation of the membrane attack complex components of the complement cascade." [GOC:hjd] synonym: "regulation of activation of MAC" EXACT [GOC:mah] synonym: "regulation of activation of TCC" NARROW [GOC:mah] synonym: "regulation of activation of terminal complement complex" NARROW [GOC:add] synonym: "regulation of activation of the terminal complement cascade" NARROW [GOC:mah] synonym: "regulation of MAC assembly" EXACT [GOC:rl] synonym: "regulation of MAC formation" EXACT [GOC:rl] synonym: "regulation of membrane attack complex assembly" EXACT [GOC:rl] synonym: "regulation of membrane attack complex formation" EXACT [GOC:rl] is_a: GO:0030449 ! regulation of complement activation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001905 ! activation of membrane attack complex relationship: regulates GO:0001905 ! activation of membrane attack complex [Term] id: GO:0001970 name: positive regulation of activation of membrane attack complex namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of the activation of the membrane attack complex components of the complement cascade." [GOC:hjd] synonym: "activation of activation of membrane attack complex" NARROW [] synonym: "positive regulation of activation of MAC" EXACT [GOC:mah] synonym: "positive regulation of activation of TCC" NARROW [GOC:mah] synonym: "positive regulation of activation of terminal complement complex" NARROW [GOC:add] synonym: "positive regulation of activation of the terminal complement cascade" NARROW [GOC:mah] synonym: "positive regulation of MAC assembly" EXACT [GOC:rl] synonym: "positive regulation of MAC formation" EXACT [GOC:rl] synonym: "positive regulation of membrane attack complex assembly" EXACT [GOC:rl] synonym: "positive regulation of membrane attack complex formation" EXACT [GOC:rl] synonym: "stimulation of activation of membrane attack complex" NARROW [] synonym: "up regulation of activation of membrane attack complex" EXACT [] synonym: "up-regulation of activation of membrane attack complex" EXACT [] synonym: "upregulation of activation of membrane attack complex" EXACT [] is_a: GO:0001969 ! regulation of activation of membrane attack complex is_a: GO:0045917 ! positive regulation of complement activation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001905 ! activation of membrane attack complex relationship: positively_regulates GO:0001905 ! activation of membrane attack complex [Term] id: GO:0001971 name: negative regulation of activation of membrane attack complex namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of the activation of the membrane attack complex components of the complement cascade." [GOC:hjd] synonym: "down regulation of activation of membrane attack complex" EXACT [] synonym: "down-regulation of activation of membrane attack complex" EXACT [] synonym: "downregulation of activation of membrane attack complex" EXACT [] synonym: "inhibition of activation of membrane attack complex" NARROW [] synonym: "negative regulation of activation of MAC" EXACT [GOC:mah] synonym: "negative regulation of activation of TCC" NARROW [GOC:mah] synonym: "negative regulation of activation of terminal complement complex" NARROW [GOC:add] synonym: "negative regulation of activation of the terminal complement cascade" NARROW [GOC:mah] synonym: "negative regulation of MAC assembly" EXACT [GOC:rl] synonym: "negative regulation of MAC formation" EXACT [GOC:rl] synonym: "negative regulation of membrane attack complex assembly" EXACT [GOC:rl] synonym: "negative regulation of membrane attack complex formation" EXACT [GOC:rl] is_a: GO:0001969 ! regulation of activation of membrane attack complex is_a: GO:0045916 ! negative regulation of complement activation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001905 ! activation of membrane attack complex relationship: negatively_regulates GO:0001905 ! activation of membrane attack complex [Term] id: GO:0001972 name: retinoic acid binding namespace: molecular_function def: "Interacting selectively and non-covalently with retinoic acid, 3,7-dimethyl-9-(2,6,-trimethyl-1-cyclohexen-1-yl)-2,4,6,8-nonatetraenoic acid." [GOC:hjd] is_a: GO:0005501 ! retinoid binding is_a: GO:0033293 ! monocarboxylic acid binding [Term] id: GO:0001973 name: adenosine receptor signaling pathway namespace: biological_process def: "The series of molecular signals generated as a consequence of an adenosine receptor binding to one of its physiological ligands." [GOC:dph] synonym: "adenosine receptor signalling pathway" EXACT [GOC:mah] is_a: GO:0007186 ! G-protein coupled receptor protein signaling pathway [Term] id: GO:0001974 name: blood vessel remodeling namespace: biological_process def: "The reorganization or renovation of existing blood vessels." [GOC:hjd] is_a: GO:0048771 ! tissue remodeling relationship: part_of GO:0048514 ! blood vessel morphogenesis [Term] id: GO:0001975 name: response to amphetamine namespace: biological_process def: "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 an amphetamine stimulus. Amphetamines consist of a group of compounds related to alpha-methylphenethylamine." [ChEBI:2679, GOC:dph, GOC:ef] is_a: GO:0014075 ! response to amine stimulus [Term] id: GO:0001976 name: neurological system process involved in regulation of systemic arterial blood pressure namespace: biological_process def: "The regulation of blood pressure mediated by detection of stimuli and a neurological response." [GOC:mtg_cardio, ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "blood pressure regulation by neurological process" EXACT [] synonym: "fast control of arterial pressure" RELATED [] synonym: "neurological process involved in regulation of systemic arterial blood pressure" EXACT [GOC:dph, GOC:tb] is_a: GO:0050877 ! neurological system process relationship: part_of GO:0003073 ! regulation of systemic arterial blood pressure [Term] id: GO:0001977 name: renal system process involved in regulation of blood volume namespace: biological_process def: "A slow mechanism of blood pressure regulation that responds to changes in pressure resulting from fluid and salt intake by modulating the quantity of blood in the circulatory system." [GOC:dph, GOC:tb, ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "renal blood volume control of blood pressure" RELATED [] synonym: "renal regulation of blood volume" RELATED [GOC:dph, GOC:tb] is_a: GO:0003071 ! renal system process involved in regulation of systemic arterial blood pressure relationship: part_of GO:0050878 ! regulation of body fluid levels [Term] id: GO:0001978 name: regulation of systemic arterial blood pressure by carotid sinus baroreceptor feedback namespace: biological_process def: "The process that modulates blood pressure by sensing the amount of stretch occurring in large arteries and responding to the input via central nervous system control." [GOC:dph, GOC:tb, ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "baroreceptor feedback control of blood pressure" RELATED [] synonym: "baroreceptor pressure buffer system" RELATED [ISBN:068340007X "Stedman's Medical Dictionary"] synonym: "carotid sinus baroreceptor feedback regulation of systemic arterial blood pressure" EXACT [GOC:dph, GOC:tb] is_a: GO:0001976 ! neurological system process involved in regulation of systemic arterial blood pressure relationship: part_of GO:0003025 ! regulation of systemic arterial blood pressure by baroreceptor feedback [Term] id: GO:0001979 name: regulation of systemic arterial blood pressure by chemoreceptor signaling namespace: biological_process def: "The process that modulates blood pressure by the action of chemoreceptors found in the carotid and aortic bodies and their resultant modulation of the vasomotor center. Chemoreceptors respond to oxygen, carbon dioxide and hydrogen ions." [GOC:dph, GOC:tb, ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "chemoreceptor control of blood pressure" RELATED [] synonym: "chemoreceptor regulation of systemic arterial blood pressure" EXACT [GOC:dph, GOC:tb] synonym: "regulation of systemic arterial blood pressure by chemoreceptor signalling" EXACT [GOC:mah] is_a: GO:0001976 ! neurological system process involved in regulation of systemic arterial blood pressure [Term] id: GO:0001980 name: regulation of systemic arterial blood pressure by ischemic conditions namespace: biological_process def: "The process that modulates blood pressure by the detection of carbon dioxide levels in the brain stem. Increased levels activate the sympathetic vasoconstrictor mechanism increasing the force with which blood flows through the circulatory system." [GOC:dph, GOC:tb, ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "CNS ischemic response" RELATED [ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "ischemic control of blood pressure" RELATED [] synonym: "ischemic regulation of systemic arterial blood pressure" EXACT [GOC:dph, GOC:tb] is_a: GO:0001976 ! neurological system process involved in regulation of systemic arterial blood pressure [Term] id: GO:0001981 name: baroreceptor detection of arterial stretch namespace: biological_process def: "The series of events by which the change in diameter of an artery is detected and converted to a molecular signal." [GOC:mtg_cardio, ISBN:0721643949 "Textbook of Medical Physiology"] is_a: GO:0003018 ! vascular process in circulatory system is_a: GO:0050982 ! detection of mechanical stimulus relationship: part_of GO:0001978 ! regulation of systemic arterial blood pressure by carotid sinus baroreceptor feedback [Term] id: GO:0001982 name: baroreceptor response to decreased systemic arterial blood pressure namespace: biological_process def: "The lowering of the number of nerve impulses from baroreceptors as a result of decreased stretch of an artery that results in an increased in sympathetic nerve impulses to peripheral blood vessels." [GOC:dph, GOC:mtg_cardio, ISBN:0323031951 "Principles of Physiology", ISBN:0721643949 "Textbook of Medical Physiology"] is_a: GO:0001978 ! regulation of systemic arterial blood pressure by carotid sinus baroreceptor feedback is_a: GO:0003084 ! positive regulation of systemic arterial blood pressure [Term] id: GO:0001983 name: baroreceptor response to increased systemic arterial blood pressure namespace: biological_process def: "The increase in nerve impulses from baroreceptors as a result of increased pressure on an artery that results in an inhibition of sympathetic nerve impulses to peripheral blood vessels." [GOC:mtg_cardio, ISBN:0323031951 "Principles of Physiology", ISBN:0721643949 "Textbook of Medical Physiology"] is_a: GO:0001978 ! regulation of systemic arterial blood pressure by carotid sinus baroreceptor feedback is_a: GO:0003085 ! negative regulation of systemic arterial blood pressure [Term] id: GO:0001984 name: vasodilation of artery involved in baroreceptor response to increased systemic arterial blood pressure namespace: biological_process def: "An increase in the internal diameter of an artery, triggered by vasomotor suppression, during the chemoreceptor response to decreased blood pressure." [ISBN:0721643949 "Textbook of Medical Physiology"] is_a: GO:0042311 ! vasodilation relationship: part_of GO:0001983 ! baroreceptor response to increased systemic arterial blood pressure [Term] id: GO:0001985 name: negative regulation of heart rate involved in baroreceptor response to increased systemic arterial blood pressure namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of heart contraction as a result of the baroreceptor response to increased blood pressure." [ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "down regulation of heart contraction rate in baroreceptor response to increased blood pressure" EXACT [] synonym: "down-regulation of heart contraction rate in baroreceptor response to increased blood pressure" EXACT [] synonym: "downregulation of heart contraction rate in baroreceptor response to increased blood pressure" EXACT [] synonym: "inhibition of heart contraction rate in baroreceptor response to increased blood pressure" NARROW [] synonym: "negative control of heart contraction rate in baroreceptor response to increased blood pressure" EXACT [] synonym: "negative regulation of cardiac contraction rate in baroreceptor response to increased blood pressure" RELATED [] synonym: "negative regulation of heart contraction rate in baroreceptor response to increased blood pressure" EXACT [] is_a: GO:0010459 ! negative regulation of heart rate relationship: part_of GO:0001983 ! baroreceptor response to increased systemic arterial blood pressure [Term] id: GO:0001986 name: negative regulation of the force of heart contraction involved in baroreceptor response to increased systemic arterial blood pressure namespace: biological_process def: "Any process that decreases the force with which the cardiac muscles of the heart pump blood through the circulatory system as a result of the baroreceptor response to increased blood pressure." [GOC:mtg_cardio, ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "decreased force of heart contraction during baroreceptor response to increased systemic arterial blood pressure" EXACT [] synonym: "decreased strength of cardiac contraction during baroreceptor response to increased blood pressure" EXACT [] is_a: GO:0045822 ! negative regulation of heart contraction relationship: part_of GO:0001983 ! baroreceptor response to increased systemic arterial blood pressure [Term] id: GO:0001987 name: vasoconstriction of artery involved in baroreceptor response to lowering of systemic arterial blood pressure namespace: biological_process def: "A process that is triggered by vasomotor excitation and results in a decrease in the diameter of an artery during the baroreceptor response to decreased blood pressure." [ISBN:0721643949 "Textbook of Medical Physiology"] is_a: GO:0042310 ! vasoconstriction relationship: part_of GO:0001982 ! baroreceptor response to decreased systemic arterial blood pressure [Term] id: GO:0001988 name: positive regulation of heart rate in baroreceptor response to decreased systemic arterial blood pressure namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of heart contraction as a result of the baroreceptor response to decreased blood pressure." [ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "activation of heart contraction rate in baroreceptor response to decreased blood pressure" NARROW [] synonym: "positive control of heart contraction rate in baroreceptor response to decreased blood pressure" EXACT [] synonym: "positive regulation of cardiac contraction rate in baroreceptor response to decreased blood pressure" EXACT [] synonym: "positive regulation of heart contraction rate in baroreceptor response to decreased blood pressure" RELATED [] synonym: "stimulation of heart contraction rate in baroreceptor response to decreased blood pressure" NARROW [] synonym: "up regulation of heart contraction rate in baroreceptor response to decreased blood pressure" EXACT [] synonym: "up-regulation of heart contraction rate in baroreceptor response to decreased blood pressure" EXACT [] synonym: "upregulation of heart contraction rate in baroreceptor response to decreased blood pressure" EXACT [] is_a: GO:0010460 ! positive regulation of heart rate relationship: part_of GO:0001982 ! baroreceptor response to decreased systemic arterial blood pressure [Term] id: GO:0001989 name: positive regulation of the force of heart contraction involved in baroreceptor response to decreased systemic arterial blood pressure namespace: biological_process def: "Any process that increases the force with which the cardiac muscles of the heart pump blood through the circulatory system as part of the baroreceptor response to decreased blood pressure." [ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "increased force of heart contraction during baroreceptor response to decreased systemic arterial blood pressure" RELATED [] synonym: "increased strength of cardiac contraction during baroreceptor response to decreased blood pressure" RELATED [] synonym: "positive regulation of the force of heart contraction during baroreceptor response to decreased systemic arterial blood pressure" RELATED [GOC:tb] is_a: GO:0045823 ! positive regulation of heart contraction relationship: part_of GO:0001982 ! baroreceptor response to decreased systemic arterial blood pressure [Term] id: GO:0001990 name: regulation of systemic arterial blood pressure by hormone namespace: biological_process def: "The process by which hormones modulate the force with which blood passes through the circulatory system. A hormone is one of a group of substances formed in very small amounts in one specialized organ or group of cells and carried (sometimes in the bloodstream) to another organ or group of cells, in the same organism, upon which they have a specific regulatory action." [GOC:mtg_cardio, ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "blood pressure regulation by hormone" EXACT [] synonym: "hormonal control of blood pressure" RELATED [] synonym: "hormonal regulation of blood pressure" EXACT [] is_a: GO:0003044 ! regulation of systemic arterial blood pressure mediated by a chemical signal is_a: GO:0050886 ! endocrine process [Term] id: GO:0001991 name: regulation of systemic arterial blood pressure by circulatory renin-angiotensin namespace: biological_process def: "The process by which angiotensinogen metabolites in the bloodstream modulate the force with which blood passes through the circulatory system. The process begins when renin is released and cleaves angiotensinogen." [ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "circulatory renin-angiotensin blood pressure regulation" EXACT [] synonym: "circulatory renin-angiotensin control of blood pressure" RELATED [] synonym: "circulatory renin-angiotensin regulation of blood pressure" EXACT [] synonym: "control of blood pressure by circulatory renin-angiotensin" RELATED [] synonym: "renin-angiotensin blood pressure control" RELATED [] is_a: GO:0003081 ! regulation of systemic arterial blood pressure by renin-angiotensin [Term] id: GO:0001992 name: regulation of systemic arterial blood pressure by vasopressin namespace: biological_process def: "The regulation of blood pressure mediated by the signaling molecule vasopressin. Vasopressin is produced in the hypothalamus, and affects vasoconstriction, and renal water transport." [GOC:mtg_cardio, ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "blood pressure regulation by vasopressin" EXACT [] synonym: "vasopressin control of blood pressure" RELATED [] is_a: GO:0001990 ! regulation of systemic arterial blood pressure by hormone [Term] id: GO:0001993 name: regulation of systemic arterial blood pressure by norepinephrine-epinephrine namespace: biological_process def: "The process by which the secretion of norepinephrine or epinephrine into the bloodstream modulates the force with which blood passes through the circulatory system." [ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "noradrenaline-adrenaline regulation of blood pressure" RELATED [] synonym: "norepinephrine-epinephrine blood pressure control" RELATED [] synonym: "norepinephrine-epinephrine blood pressure regulation" EXACT [] is_a: GO:0003044 ! regulation of systemic arterial blood pressure mediated by a chemical signal [Term] id: GO:0001994 name: norepinephrine-epinephrine vasoconstriction involved in regulation of systemic arterial blood pressure namespace: biological_process def: "A process that results in a decrease in the diameter of an artery during the norepinephrine-epinephrine response to decreased blood pressure." [GOC:mtg_cardio, ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "noradrenaline-adrenaline vasoconstriction involved in regulation of blood pressure" EXACT [] synonym: "norepinephrine-epinephrine vasoconstriction during blood pressure control" RELATED [] synonym: "norepinephrine-epinephrine vasoconstriction during blood pressure regulation" EXACT [] synonym: "norepinephrine-epinephrine vasoconstriction during control of blood pressure" RELATED [] is_a: GO:0042310 ! vasoconstriction relationship: part_of GO:0003321 ! positive regulation of blood pressure by epinephrine-norepinephrine [Term] id: GO:0001995 name: norepinephrine-epinephrine catabolic process in blood stream namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of norepinephrine or epinephrine in the bloodstream." [GOC:hjd] synonym: "noradrenaline-adrenalin catabolic process in blood stream" EXACT [] is_a: GO:0042419 ! epinephrine catabolic process relationship: part_of GO:0001993 ! regulation of systemic arterial blood pressure by norepinephrine-epinephrine [Term] id: GO:0001996 name: positive regulation of heart rate by epinephrine-norepinephrine namespace: biological_process def: "The process by which the presence of epinephrine or norepinephrine in the bloodstream activates, maintains or increases the rate of heart contraction." [GOC:dph] synonym: "activation of heart contraction rate by epinephrine-norepinephrine" NARROW [] synonym: "increased chronotropy by epinephrine-norepinephrine" RELATED [] synonym: "positive control of heart contraction rate by epinephrine-norepinephrine" RELATED [] synonym: "positive regulation of cardiac contraction rate by epinephrine-norepinephrine" EXACT [] synonym: "positive regulation of heart contraction rate by adrenaline-noradrenaline" EXACT [] synonym: "positive regulation of heart contraction rate by epinephrine-norepinephrine" RELATED [] synonym: "stimulation of heart contraction rate by epinephrine-norepinephrine" NARROW [] synonym: "up regulation of heart contraction rate by epinephrine-norepinephrine" EXACT [] synonym: "up-regulation of heart contraction rate by epinephrine-norepinephrine" EXACT [] synonym: "upregulation of heart contraction rate by epinephrine-norepinephrine" EXACT [] is_a: GO:0010460 ! positive regulation of heart rate relationship: part_of GO:0003321 ! positive regulation of blood pressure by epinephrine-norepinephrine [Term] id: GO:0001997 name: positive regulation of the force of heart contraction by epinephrine-norepinephrine namespace: biological_process def: "Any process that increases the force with which the cardiac muscles of the heart pump blood through the circulatory system as a result of the presence of epinephrine or norepinephrine in the bloodstream or released from the nerve endings." [GOC:dph, GOC:mtg_cardio] synonym: "increased force of heart contraction by adrenaline-noradrenaline" EXACT [] synonym: "increased force of heart contraction by epinephrine-norepinephrine" EXACT [] synonym: "increased inotropy by epinephrine-norepinephrine " RELATED [] synonym: "increased strength of cardiac contraction by epinephrine-norepinephrine" EXACT [] synonym: "positive regulation of heart contraction by adrenaline-noradrenaline" RELATED [] synonym: "positive regulation of heart contraction by epinephrine-norepinephrine" RELATED [] is_a: GO:0003099 ! positive regulation of the force of heart contraction by chemical signal relationship: part_of GO:0003321 ! positive regulation of blood pressure by epinephrine-norepinephrine [Term] id: GO:0001998 name: angiotensin mediated vasoconstriction involved in regulation of systemic arterial blood pressure namespace: biological_process def: "The decrease in blood vessel diameter as a result of the release of angiotensin into the blood stream." [GOC:mtg_cardio, ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "angiotensin mediated vasoconstriction during blood pressure control" RELATED [] synonym: "angiotensin mediated vasoconstriction during blood pressure regulation" EXACT [] synonym: "angiotensin mediated vasoconstriction during control of blood pressure" RELATED [] is_a: GO:0003084 ! positive regulation of systemic arterial blood pressure is_a: GO:0042310 ! vasoconstriction relationship: part_of GO:0002034 ! regulation of blood vessel size by renin-angiotensin [Term] id: GO:0001999 name: renal response to blood flow involved in circulatory renin-angiotensin regulation of systemic arterial blood pressure namespace: biological_process def: "The physiological response of the kidneys to a decrease in blood flow." [GOC:dph] synonym: "renal response to blood flow during renin-angiotensin control of blood pressure" RELATED [] is_a: GO:0003014 ! renal system process relationship: part_of GO:0001991 ! regulation of systemic arterial blood pressure by circulatory renin-angiotensin [Term] id: GO:0002000 name: detection of renal blood flow namespace: biological_process def: "The process by which the juxtaglomerular cells of the kidneys receive information about the amount of blood flowing through the arterioles and converts the information to a molecular signal." [ISBN:0721643949 "Textbook of Medical Physiology"] is_a: GO:0050982 ! detection of mechanical stimulus relationship: part_of GO:0001999 ! renal response to blood flow involved in circulatory renin-angiotensin regulation of systemic arterial blood pressure [Term] id: GO:0002001 name: renin secretion into blood stream namespace: biological_process def: "The regulated release of renin into the blood stream by juxtoglomerular cells." [ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "renin release into blood stream" EXACT [] is_a: GO:0009306 ! protein secretion relationship: part_of GO:0001999 ! renal response to blood flow involved in circulatory renin-angiotensin regulation of systemic arterial blood pressure [Term] id: GO:0002002 name: regulation of angiotensin levels in blood namespace: biological_process def: "The process that modulates the level of angiotensin in the blood by balancing the maturation of renin substrate to mature angiotensin and the catabolism of mature angiotensin." [GOC:dph] synonym: "control of angiotensin levels in blood" RELATED [] synonym: "control of blood angiotensin level" RELATED [] synonym: "regulation of blood angiotensin level" EXACT [] is_a: GO:0010817 ! regulation of hormone levels is_a: GO:0060177 ! regulation of angiotensin metabolic process relationship: part_of GO:0001991 ! regulation of systemic arterial blood pressure by circulatory renin-angiotensin [Term] id: GO:0002003 name: angiotensin maturation namespace: biological_process def: "The process leading to the attainment of the full functional capacity of angiotensin by conversion of renin substrate into mature angiotensin in the blood." [ISBN:0721643949 "Textbook of Medical Physiology"] is_a: GO:0016486 ! peptide hormone processing relationship: part_of GO:0002002 ! regulation of angiotensin levels in blood [Term] id: GO:0002004 name: secretion of vasopressin involved in fast regulation of systemic arterial blood pressure namespace: biological_process def: "The regulated release of the hormone vasopressin into the blood stream by the hypothalamus and pituitary gland contributing to fast regulation of blood pressure." [ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "secretion of vasopressin during fast control of blood pressure" RELATED [] synonym: "secretion of vasopressin during fast regulation of systemic arterial blood pressure" RELATED [GOC:dph] is_a: GO:0030103 ! vasopressin secretion relationship: part_of GO:0001992 ! regulation of systemic arterial blood pressure by vasopressin [Term] id: GO:0002005 name: angiotensin catabolic process in blood namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of angiotensin in the blood." [ISBN:0721643949 "Textbook of Medical Physiology"] is_a: GO:0044254 ! multicellular organismal protein catabolic process relationship: part_of GO:0002002 ! regulation of angiotensin levels in blood [Term] id: GO:0002006 name: vasoconstriction by vasopressin involved in systemic arterial blood pressure control namespace: biological_process def: "The decrease in blood vessel diameter as a result of the release of vasopressin into the blood stream." [GOC:dph, GOC:mtg_cardio, GOC:tb, ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "vasopressin mediated vasoconstriction involved in systemic arterial blood pressure control" EXACT [GOC:dph, GOC:tb] is_a: GO:0003084 ! positive regulation of systemic arterial blood pressure is_a: GO:0042310 ! vasoconstriction relationship: part_of GO:0001992 ! regulation of systemic arterial blood pressure by vasopressin [Term] id: GO:0002007 name: detection of hypoxic conditions in blood by chemoreceptor signaling namespace: biological_process def: "The process by which information about a lack of oxygen are received and are converted to a molecular signal by chemoreceptors in the carotid bodies and the aortic bodies." [GOC:dph] synonym: "detection of hypoxic conditions in blood by chemoreceptor signalling" EXACT [GOC:mah] is_a: GO:0009593 ! detection of chemical stimulus is_a: GO:0010850 ! chemoreceptor signaling pathway involved in regulation of blood pressure is_a: GO:0070887 ! cellular response to chemical stimulus relationship: part_of GO:0001979 ! regulation of systemic arterial blood pressure by chemoreceptor signaling [Term] id: GO:0002008 name: excitation of vasomotor center by chemoreceptor signaling namespace: biological_process def: "The process by which the molecular signal from the carotid and aortic bodies is relayed to the vasomotor center, causing it to signal an increase arterial pressure." [GOC:dph] synonym: "excitation of vasomotor center by chemoreceptor signalling" EXACT [] is_a: GO:0050877 ! neurological system process relationship: part_of GO:0001979 ! regulation of systemic arterial blood pressure by chemoreceptor signaling relationship: part_of GO:0003084 ! positive regulation of systemic arterial blood pressure [Term] id: GO:0002009 name: morphogenesis of an epithelium namespace: biological_process def: "The process by which the anatomical structures of epithelia are generated and organized. Morphogenesis pertains to the creation of form. An epithelium consists of closely packed cells arranged in one or more layers, that covers the outer surfaces of the body or lines any internal cavity or tube." [GOC:dph, GOC:jl, GOC:tb, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"] is_a: GO:0048729 ! tissue morphogenesis relationship: part_of GO:0060429 ! epithelium development [Term] id: GO:0002010 name: excitation of vasomotor center by baroreceptor signaling namespace: biological_process def: "The process by which the molecular signal from the arterial baroreceptors is relayed to the vasomotor center causing it to signal increase arterial pressure." [GOC:dph] synonym: "excitation of vasomotor center by baroreceptor signalling" EXACT [] is_a: GO:0050877 ! neurological system process relationship: part_of GO:0001982 ! baroreceptor response to decreased systemic arterial blood pressure [Term] id: GO:0002011 name: morphogenesis of an epithelial sheet namespace: biological_process def: "The process by which the anatomical structures of an epithelial sheet are generated and organized. Morphogenesis pertains to the creation of form. An epithelial sheet is a flat surface consisting of closely packed epithelial cells." [GOC:jl] is_a: GO:0002009 ! morphogenesis of an epithelium [Term] id: GO:0002012 name: vasoconstriction of artery involved in chemoreceptor response to lowering of systemic arterial blood pressure namespace: biological_process def: "A process that is triggered by vasomotor excitation and results in a decrease in the diameter of an artery during the chemoreceptor response to decreased blood pressure." [GOC:dph, GOC:mtg_cardio] is_a: GO:0003084 ! positive regulation of systemic arterial blood pressure is_a: GO:0042310 ! vasoconstriction relationship: part_of GO:0001979 ! regulation of systemic arterial blood pressure by chemoreceptor signaling [Term] id: GO:0002013 name: detection of carbon dioxide by vasomotor center namespace: biological_process def: "The process by a carbon dioxide stimulus is received and converted to a molecular signal by the vasomotor center of the central nervous system." [ISBN:0721643949 "Textbook of Medical Physiology"] is_a: GO:0003031 ! detection of carbon dioxide relationship: part_of GO:0001980 ! regulation of systemic arterial blood pressure by ischemic conditions [Term] id: GO:0002014 name: vasoconstriction of artery involved in ischemic response to lowering of systemic arterial blood pressure namespace: biological_process def: "The vasoconstriction that is triggered by vasomotor excitation resulting from the detection of high carbon dioxide levels in the vasomotor center of the central nervous system." [GOC:mtg_cardio, ISBN:0721643949 "Textbook of Medical Physiology"] is_a: GO:0003084 ! positive regulation of systemic arterial blood pressure is_a: GO:0042310 ! vasoconstriction relationship: part_of GO:0001980 ! regulation of systemic arterial blood pressure by ischemic conditions [Term] id: GO:0002015 name: regulation of systemic arterial blood pressure by atrial baroreceptor feedback namespace: biological_process def: "A process that controls blood pressure by sensing the amount of stretch occurring in the atria." [GOC:dph, GOC:tb] synonym: "atrial baroreceptor regulation of systemic arterial blood pressure" EXACT [GOC:dph, GOC:tb] synonym: "atrial control of blood pressure" RELATED [] synonym: "atrial low pressure baroreceptor regulation of blood pressure" EXACT [GOC:mtg_cardio] synonym: "atrial reflex" RELATED [GOC:dph] is_a: GO:0003015 ! heart process relationship: part_of GO:0003025 ! regulation of systemic arterial blood pressure by baroreceptor feedback [Term] id: GO:0002016 name: regulation of blood volume by renin-angiotensin namespace: biological_process def: "The process by which the renin-angiotensin system controls the rate of fluid intake and output into the blood." [GOC:dph, GOC:mtg_cardio, GOC:tb, ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "renin-angiotensin control of body fluid levels" RELATED [] synonym: "renin-angiotensin regulation of blood volume" EXACT [GOC:dph, GOC:tb] is_a: GO:0003081 ! regulation of systemic arterial blood pressure by renin-angiotensin [Term] id: GO:0002017 name: regulation of blood volume by renal aldosterone namespace: biological_process def: "The process by which the hormone aldosterone decreases the rate of diuresis and natriuresis resulting in increased blood volume." [GOC:dph, GOC:tb, ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "aldosterone mediated control of body fluids" RELATED [] synonym: "aldosterone mediated regulation of blood volume" EXACT [GOC:dph, GOC:tb] synonym: "renal regulation of blood volume by aldosterone" EXACT [GOC:dph, GOC:tb] is_a: GO:0001977 ! renal system process involved in regulation of blood volume is_a: GO:0001990 ! regulation of systemic arterial blood pressure by hormone is_a: GO:0003084 ! positive regulation of systemic arterial blood pressure [Term] id: GO:0002018 name: renin-angiotensin regulation of aldosterone production namespace: biological_process def: "The process by which an increase in active angiotensin stimulates the adrenal cortices to secrete aldosterone." [ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "renin-angiotensin control of aldosterone production" RELATED [] is_a: GO:0003014 ! renal system process relationship: part_of GO:0002016 ! regulation of blood volume by renin-angiotensin [Term] id: GO:0002019 name: regulation of renal output by angiotensin namespace: biological_process def: "The process by which angiotensin directly modulates the rate of urine output by the kidney." [GOC:dph, GOC:mtg_cardio, GOC:tb, ISBN:0721643949 "Textbook of Medical Physiology"] synonym: "angiotensin mediated control of renal output" RELATED [] synonym: "angiotensin mediated regulation of renal output" EXACT [GOC:dph, GOC:tb] synonym: "angiotensin-mediated regulation of renal output" EXACT [GOC:dph, GOC:tb] is_a: GO:0002016 ! regulation of blood volume by renin-angiotensin [Term] id: GO:0002020 name: protease binding namespace: molecular_function def: "Interacting selectively and non-covalently with any protease or peptidase." [GOC:hjd] is_a: GO:0019899 ! enzyme binding [Term] id: GO:0002021 name: response to dietary excess namespace: biological_process def: "The physiological process by which dietary excess is sensed by the central nervous system and results in a reduction in food intake and increased energy expenditure." [PMID:12161655] is_a: GO:0032501 ! multicellular organismal process is_a: GO:0050896 ! response to stimulus relationship: part_of GO:0040014 ! regulation of multicellular organism growth [Term] id: GO:0002022 name: detection of dietary excess namespace: biological_process def: "The mechanism by which the brain senses excessive caloric intake." [PMID:12161655] is_a: GO:0050877 ! neurological system process relationship: part_of GO:0002021 ! response to dietary excess [Term] id: GO:0002023 name: reduction of food intake in response to dietary excess namespace: biological_process def: "The specific actions of an organism that are triggered by the detection of dietary excess and result in a decreased intake of food." [PMID:12161655] is_a: GO:0042755 ! eating behavior relationship: part_of GO:0002021 ! response to dietary excess [Term] id: GO:0002024 name: diet induced thermogenesis namespace: biological_process def: "The process that results in increased metabolic rate in tissues of an organism. It is triggered by the detection of dietary excess. This process is achieved via signalling in the sympathetic nervous system." [PMID:12161655] is_a: GO:0044253 ! positive regulation of multicellular organismal metabolic process relationship: part_of GO:0002021 ! response to dietary excess [Term] id: GO:0002025 name: vasodilation by norepinephrine-epinephrine involved in regulation of systemic arterial blood pressure namespace: biological_process def: "A process that results in an increase in the diameter of an artery during the norepinephrine-epinephrine response to blood pressure change." [GOC:mtg_cardio, PMID:10358008] synonym: "noradrenaline-adrenaline vasodilation involved in regulation of blood pressure" EXACT [] synonym: "norepinephrine-epinephrine vasodilation during blood pressure regulation" EXACT [] is_a: GO:0003085 ! negative regulation of systemic arterial blood pressure is_a: GO:0042311 ! vasodilation relationship: part_of GO:0001993 ! regulation of systemic arterial blood pressure by norepinephrine-epinephrine [Term] id: GO:0002026 name: regulation of the force of heart contraction namespace: biological_process def: "Any process that modulates the extent of heart contraction, changing the force with which blood is propelled." [GOC:dph, GOC:tb, PMID:10358008] synonym: "cardiac inotropy" EXACT [GOC:dph, GOC:tb] synonym: "heart inotropy" EXACT [] is_a: GO:0008016 ! regulation of heart contraction is_a: GO:0065008 ! regulation of biological quality [Term] id: GO:0002027 name: regulation of heart rate namespace: biological_process def: "Any process that modulates the frequency or rate of heart contraction." [GOC:dph, GOC:tb, PMID:10358008] synonym: "cardiac chronotropy" EXACT [GOC:dph, GOC:tb] synonym: "regulation of heart contraction rate" EXACT [] synonym: "regulation of rate of heart contraction" EXACT [] is_a: GO:0008016 ! regulation of heart contraction is_a: GO:0065008 ! regulation of biological quality [Term] id: GO:0002028 name: regulation of sodium ion transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of sodium ions (Na+) into, out of, within or between cells by means of some external agent such as a transporter or pore." [GOC:dph] synonym: "regulation of Na+ transport" EXACT [] synonym: "regulation of sodium transport" EXACT [] is_a: GO:0010959 ! regulation of metal ion transport intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006814 ! sodium ion transport relationship: regulates GO:0006814 ! sodium ion transport [Term] id: GO:0002029 name: desensitization of G-protein coupled receptor protein signaling pathway namespace: biological_process def: "The process that stops, prevents or reduces the frequency, rate or extent of G-protein coupled receptor protein signaling pathway activity after prolonged stimulation with an agonist of the pathway." [PMID:8396717] synonym: "desensitisation of G-protein coupled receptor protein signalling pathway" EXACT [] is_a: GO:0022401 ! negative adaptation of signaling pathway is_a: GO:0045744 ! negative regulation of G-protein coupled receptor protein signaling pathway [Term] id: GO:0002030 name: inhibitory G-protein coupled receptor phosphorylation namespace: biological_process def: "The process that inhibits the signaling function of a G-protein coupled receptor by addition of a phosphate group to its third intracellular loop consensus site." [PMID:8396717] is_a: GO:0006468 ! protein amino acid phosphorylation relationship: part_of GO:0002029 ! desensitization of G-protein coupled receptor protein signaling pathway [Term] id: GO:0002031 name: G-protein coupled receptor internalization namespace: biological_process def: "The process by which a G-protein coupled receptor is taken up into an endocytic vesicle." [PMID:8396717] is_a: GO:0031623 ! receptor internalization relationship: part_of GO:0002029 ! desensitization of G-protein coupled receptor protein signaling pathway [Term] id: GO:0002032 name: desensitization of G-protein coupled receptor protein signaling pathway by arrestin namespace: biological_process def: "The process that inhibits the signaling function of a G-protein coupled receptor by uncoupling the receptor from its downstream G proteins." [GOC:dph, GOC:tb, PMID:8396717] synonym: "arrestin mediated desensitisation of G-protein coupled receptor protein signalling pathway" EXACT [] synonym: "arrestin mediated desensitization of G-protein coupled receptor protein signaling pathway" EXACT [GOC:dph, GOC:tb] synonym: "arrestin-mediated desensitization of G-protein coupled receptor protein signaling pathway" EXACT [] is_a: GO:0002029 ! desensitization of G-protein coupled receptor protein signaling pathway is_a: GO:0032091 ! negative regulation of protein binding [Term] id: GO:0002033 name: vasodilation by angiotensin involved in regulation of systemic arterial blood pressure namespace: biological_process def: "The process that increases the size of a blood vessel via the renin-angiotensin system." [ISBN:0323031951 "Principles of Physiology", PMID:10425188] is_a: GO:0003085 ! negative regulation of systemic arterial blood pressure is_a: GO:0042311 ! vasodilation relationship: part_of GO:0002034 ! regulation of blood vessel size by renin-angiotensin [Term] id: GO:0002034 name: regulation of blood vessel size by renin-angiotensin namespace: biological_process def: "The process where the diameter of a blood vessel is changed due to activity of the renin-angiotensin system." [GOC:dph, GOC:tb] synonym: "renin-angiotensin regulation of blood vessel size" EXACT [GOC:dph, GOC:tb] is_a: GO:0003072 ! renal control of peripheral vascular resistance involved in regulation of systemic arterial blood pressure is_a: GO:0003081 ! regulation of systemic arterial blood pressure by renin-angiotensin is_a: GO:0050880 ! regulation of blood vessel size [Term] id: GO:0002035 name: brain renin-angiotensin system namespace: biological_process def: "The process by which an angiotensin-mediated signaling system present in the brain regulates the force with which blood passes through the circulatory system." [PMID:2909574] is_a: GO:0001976 ! neurological system process involved in regulation of systemic arterial blood pressure is_a: GO:0002016 ! regulation of blood volume by renin-angiotensin [Term] id: GO:0002036 name: regulation of L-glutamate transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of L-glutamate transport." [GOC:hjd] is_a: GO:0044070 ! regulation of anion transport is_a: GO:0051955 ! regulation of amino acid transport intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0015813 ! L-glutamate transport relationship: regulates GO:0015813 ! L-glutamate transport [Term] id: GO:0002037 name: negative regulation of L-glutamate transport namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of L-glutamate transport." [GOC:hjd] synonym: "down regulation of L-glutamate transport" EXACT [] synonym: "down-regulation of L-glutamate transport" EXACT [] synonym: "downregulation of L-glutamate transport" EXACT [] synonym: "inhibition of L-glutamate transport" NARROW [] is_a: GO:0002036 ! regulation of L-glutamate transport is_a: GO:0043271 ! negative regulation of ion transport is_a: GO:0051956 ! negative regulation of amino acid transport intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0015813 ! L-glutamate transport relationship: negatively_regulates GO:0015813 ! L-glutamate transport [Term] id: GO:0002038 name: positive regulation of L-glutamate transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of L-glutamate transport." [GOC:hjd] synonym: "activation of L-glutamate transport" NARROW [] synonym: "stimulation of L-glutamate transport" NARROW [] synonym: "up regulation of L-glutamate transport" EXACT [] synonym: "up-regulation of L-glutamate transport" EXACT [] synonym: "upregulation of L-glutamate transport" EXACT [] is_a: GO:0002036 ! regulation of L-glutamate transport is_a: GO:0043270 ! positive regulation of ion transport is_a: GO:0051957 ! positive regulation of amino acid transport intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0015813 ! L-glutamate transport relationship: positively_regulates GO:0015813 ! L-glutamate transport [Term] id: GO:0002039 name: p53 binding namespace: molecular_function def: "Interacting selectively and non-covalently with one of the p53 family of proteins." [GOC:hjd] is_a: GO:0005515 ! protein binding [Term] id: GO:0002040 name: sprouting angiogenesis namespace: biological_process def: "The extension of new blood vessels from existing capillaries into avascular tissues resulting from the proliferation of blood vessel endothelial cells." [PMID:16391003] is_a: GO:0001525 ! angiogenesis [Term] id: GO:0002041 name: intussusceptive angiogenesis namespace: biological_process def: "The formation of new blood vessels as a result of the insertion and extension of lumenal tissue pillars." [PMID:16391003] is_a: GO:0001525 ! angiogenesis [Term] id: GO:0002042 name: cell migration involved in sprouting angiogenesis namespace: biological_process def: "The orderly movement of endothelial cells into the extracellular matrix in order to form new blood vessels involved in sprouting angiogenesis." [PMID:16391003] is_a: GO:0043534 ! blood vessel endothelial cell migration relationship: part_of GO:0002040 ! sprouting angiogenesis [Term] id: GO:0002043 name: blood vessel endothelial cell proliferation involved in sprouting angiogenesis namespace: biological_process def: "The multiplication or reproduction of blood vessel endothelial cells, resulting in the expansion of a cell population contributing to sprouting angiogenesis." [GOC:dph, GOC:tb, PMID:16391003] synonym: "blood vessel endothelial cell proliferation during sprouting angiogenesis" RELATED [GOC:dph, GOC:tb] is_a: GO:0001935 ! endothelial cell proliferation relationship: part_of GO:0002040 ! sprouting angiogenesis [Term] id: GO:0002044 name: blood vessel endothelial cell migration involved in intussusceptive angiogenesis namespace: biological_process def: "The orderly movement of endothelial cells into the extracellular matrix in order to form new blood vessels during intussusceptive angiogenesis." [PMID:16391003] is_a: GO:0043534 ! blood vessel endothelial cell migration relationship: part_of GO:0002041 ! intussusceptive angiogenesis [Term] id: GO:0002045 name: regulation of cell adhesion involved in intussusceptive angiogenesis namespace: biological_process def: "The process that modulates the frequency, rate or extent of attachment of a blood vessel endothelial cell to another cell or to the extracellular matrix involved in intussusceptive angiogenesis." [PMID:16391003] is_a: GO:0030155 ! regulation of cell adhesion relationship: part_of GO:0002041 ! intussusceptive angiogenesis [Term] id: GO:0002046 name: opsin binding namespace: molecular_function def: "Interacting selectively and non-covalently with an opsin, any of a group of hydrophobic, integral membrane glycoproteins located primarily in the disc membrane of rods or cones, involved in photoreception." [GOC:hjd] is_a: GO:0005515 ! protein binding [Term] id: GO:0002047 name: phenazine biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a phenazine antibiotic, a polycyclic pyrazine with two nitrogen atoms in the ring." [GOC:dph] subset: gosubset_prok synonym: "acridizine biosynthesis" RELATED [] synonym: "acridizine biosynthetic process" RELATED [] synonym: "azophenylene biosynthesis" RELATED [] synonym: "azophenylene biosynthetic process" RELATED [] synonym: "dibenzo-p-diazine biosynthesis" RELATED [] synonym: "dibenzo-p-diazine biosynthetic process" RELATED [] synonym: "dibenzopyrazine biosynthesis" RELATED [] synonym: "dibenzopyrazine biosynthetic process" RELATED [] is_a: GO:0017000 ! antibiotic biosynthetic process is_a: GO:0018130 ! heterocycle biosynthetic process is_a: GO:0019438 ! aromatic compound biosynthetic process is_a: GO:0044271 ! cellular nitrogen compound biosynthetic process [Term] id: GO:0002048 name: pyoverdine metabolic process namespace: biological_process def: "The chemical reactions and pathways involving the siderochrome pyoverdine." [PMID:15317763] synonym: "pyoverdine metabolism" EXACT [] is_a: GO:0009237 ! siderophore metabolic process [Term] id: GO:0002049 name: pyoverdine biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of the siderochrome pyoverdine." [PMID:15317763] is_a: GO:0002048 ! pyoverdine metabolic process is_a: GO:0019290 ! siderophore biosynthetic process [Term] id: GO:0002050 name: pyoverdine catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of the siderochrome pyoverdine." [PMID:15317763] is_a: GO:0002048 ! pyoverdine metabolic process is_a: GO:0046215 ! siderophore catabolic process [Term] id: GO:0002051 name: osteoblast fate commitment namespace: biological_process def: "The commitment of mesenchymal cells to the specific cell fate of an osteoblast. An osteoblast is a bone-forming cell which secretes an extracellular matrix. Hydroxyapatite crystals are then deposited into the matrix to form bone." [GOC:dph] is_a: GO:0045165 ! cell fate commitment relationship: part_of GO:0001649 ! osteoblast differentiation [Term] id: GO:0002052 name: positive regulation of neuroblast proliferation namespace: biological_process def: "Any process that activates or increases the rate of neuroblast proliferation." [GOC:dph] synonym: "activation of neuroblast proliferation" NARROW [] synonym: "stimulation of neuroblast proliferation" NARROW [] synonym: "up regulation of neuroblast proliferation" EXACT [] synonym: "up-regulation of neuroblast proliferation" EXACT [] synonym: "upregulation of neuroblast proliferation" EXACT [] is_a: GO:0008284 ! positive regulation of cell proliferation is_a: GO:0050769 ! positive regulation of neurogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007405 ! neuroblast proliferation relationship: positively_regulates GO:0007405 ! neuroblast proliferation [Term] id: GO:0002053 name: positive regulation of mesenchymal cell proliferation namespace: biological_process def: "The process of activating or increasing the rate or extent of mesenchymal cell proliferation. Mesenchymal cells are loosely organized embryonic cells." [GOC:dph] synonym: "activation of mesenchymal cell proliferation" NARROW [] synonym: "stimulation of mesenchymal cell proliferation" NARROW [] synonym: "up regulation of mesenchymal cell proliferation" EXACT [] synonym: "up-regulation of mesenchymal cell proliferation" EXACT [] synonym: "upregulation of mesenchymal cell proliferation" EXACT [] is_a: GO:0008284 ! positive regulation of cell proliferation is_a: GO:0010464 ! regulation of mesenchymal cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0010463 ! mesenchymal cell proliferation relationship: positively_regulates GO:0010463 ! mesenchymal cell proliferation [Term] id: GO:0002054 name: nucleobase binding namespace: molecular_function def: "Interacting selectively and non-covalently with a nucleobase, any of a class of pyrmidines or purines, organic nitrogenous bases." [GOC:hjd] subset: goslim_pir subset: gosubset_prok is_a: GO:0005488 ! binding [Term] id: GO:0002055 name: adenine binding namespace: molecular_function def: "Interacting selectively and non-covalently with adenine, a purine base." [GOC:hjd] synonym: "6-aminopurine binding" EXACT [] is_a: GO:0002060 ! purine binding [Term] id: GO:0002056 name: cytosine binding namespace: molecular_function def: "Interactiing selectively with cytosine." [GOC:hjd] is_a: GO:0002061 ! pyrimidine binding [Term] id: GO:0002057 name: guanine binding namespace: molecular_function def: "Interacting selectively and non-covalently with guanine." [GOC:hjd] is_a: GO:0002060 ! purine binding [Term] id: GO:0002058 name: uracil binding namespace: molecular_function def: "Interacting selectively and non-covalently with uracil." [GOC:hjd] is_a: GO:0002061 ! pyrimidine binding [Term] id: GO:0002059 name: thymine binding namespace: molecular_function def: "Interacting selectively and non-covalently with thymine." [GOC:hjd] is_a: GO:0002061 ! pyrimidine binding [Term] id: GO:0002060 name: purine binding namespace: molecular_function def: "Interacting selectively and non-covalently with a purine, an organic nitrogenous base." [GOC:hjd] is_a: GO:0002054 ! nucleobase binding [Term] id: GO:0002061 name: pyrimidine binding namespace: molecular_function def: "Interacting selectively and non-covalently with a pyrimidine, an organic nitrogenous base." [GOC:hjd] synonym: "1,3-diazine binding" EXACT [] is_a: GO:0002054 ! nucleobase binding [Term] id: GO:0002062 name: chondrocyte differentiation namespace: biological_process def: "The process whereby a chondroblast acquires specialized structural and/or functional features of a chondrocyte. A chondrocyte is a polymorphic cell that forms cartilage." [GOC:dph] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0051216 ! cartilage development [Term] id: GO:0002063 name: chondrocyte development namespace: biological_process def: "The process whose specific outcome is the progression of a chondrocyte over time, from its commitment to its mature state. Chondrocyte development does not include the steps involved in committing a chondroblast to a chondrocyte fate." [GOC:dph] is_a: GO:0048468 ! cell development relationship: part_of GO:0002062 ! chondrocyte differentiation [Term] id: GO:0002064 name: epithelial cell development namespace: biological_process def: "The process whose specific outcome is the progression of an epithelial cell over time, from its formation to the mature structure. An epithelial cell is a cell usually found in a two-dimensional sheet with a free surface." [GOC:dph] is_a: GO:0048468 ! cell development relationship: part_of GO:0030855 ! epithelial cell differentiation [Term] id: GO:0002065 name: columnar/cuboidal epithelial cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized cell acquires specialized features of a columnar/cuboidal epithelial cell. A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." [GOC:dph] is_a: GO:0030855 ! epithelial cell differentiation [Term] id: GO:0002066 name: columnar/cuboidal epithelial cell development namespace: biological_process def: "The process whose specific outcome is the progression of a columnar/cuboidal epithelial cell over time, from its formation to the mature structure. A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." [GOC:dph] is_a: GO:0002064 ! epithelial cell development relationship: part_of GO:0002065 ! columnar/cuboidal epithelial cell differentiation [Term] id: GO:0002067 name: glandular epithelial cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized cell acquires specialized features of a glandular epithelial cell. A glandular epithelial cell is a columnar/cuboidal epithelial cell found in a two dimensional sheet with a free surface exposed to the lumen of a gland." [GOC:dph] is_a: GO:0002065 ! columnar/cuboidal epithelial cell differentiation [Term] id: GO:0002068 name: glandular epithelial cell development namespace: biological_process def: "The process whose specific outcome is the progression of a glandular epithelial cell over time, from its formation to the mature structure. A glandular epithelial cell is a columnar/cuboidal epithelial cell is a cell found in a two dimensional sheet with a free surface exposed to the lumen of a gland." [GOC:dph] is_a: GO:0002066 ! columnar/cuboidal epithelial cell development relationship: part_of GO:0002067 ! glandular epithelial cell differentiation [Term] id: GO:0002069 name: columnar/cuboidal epithelial cell maturation namespace: biological_process def: "The developmental process, independent of morphogenetic (shape) change, that is required for a columna/cuboidal epithelial cell to attain its fully functional state. A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." [GOC:dph] is_a: GO:0002070 ! epithelial cell maturation relationship: part_of GO:0002066 ! columnar/cuboidal epithelial cell development [Term] id: GO:0002070 name: epithelial cell maturation namespace: biological_process def: "The developmental process, independent of morphogenetic (shape) change, that is required for an epithelial cell to attain its fully functional state. An epithelial cell is a cell usually found in a two-dimensional sheet with a free surface." [GOC:dph] is_a: GO:0048469 ! cell maturation relationship: part_of GO:0002064 ! epithelial cell development [Term] id: GO:0002071 name: glandular epithelial cell maturation namespace: biological_process def: "The developmental process, independent of morphogenetic (shape) change, that is required for a glandular epithelial cell to attain its fully functional state. A glandular epithelial cell is a columnar/cuboidal epithelial cell is a cell found in a two dimensional sheet with a free surface exposed to the lumen of a gland." [GOC:dph] is_a: GO:0002069 ! columnar/cuboidal epithelial cell maturation relationship: part_of GO:0002068 ! glandular epithelial cell development [Term] id: GO:0002072 name: optic cup morphogenesis involved in camera-type eye development namespace: biological_process def: "The invagination of the optic vesicle to form two-walled indentations, the optic cups, that will go on to form the retina. This process begins with the optic vesicle becoming a two-walled structure and its subsequent shape changes. It does not include the fate commitment of cells to become the pigmented retina and the neural retina. An example of this process is found in Mus musculus." [GOC:dph, GOC:mtg_sensu, GOC:sdb_2009, GOC:tb, ISBN:0878932437] synonym: "optic cup morphogenesis involved in camera-style eye development" EXACT [] is_a: GO:0016331 ! morphogenesis of embryonic epithelium relationship: part_of GO:0060900 ! embryonic camera-type eye formation [Term] id: GO:0002074 name: extraocular skeletal muscle development namespace: biological_process def: "The process whose specific outcome is the progression of the extraocular skeletal muscle over time, from its formation to the mature structure. The extraocular muscle is derived from cranial mesoderm and controls eye movements. The muscle begins its development with the differentiation of the muscle cells and ends with the mature muscle. An example of this process is found in Mus musculus." [GOC:dph, GOC:mtg_muscle, GOC:mtg_sensu, MA:0001271, PMID:16638982] is_a: GO:0007519 ! skeletal muscle tissue development relationship: part_of GO:0043010 ! camera-type eye development [Term] id: GO:0002075 name: somitomeric trunk muscle development namespace: biological_process def: "The process whose specific outcome is the progression of the somitomeric trunk muscle over time, from its formation to the mature structure. The somitomeric trunk muscle is derived from somitomeric mesoderm. The muscle begins its development with the differentiation of the muscle cells and ends with the mature muscle. An example of this process is found in Mus musculus." [GOC:dph, PMID:16638982] is_a: GO:0007519 ! skeletal muscle tissue development [Term] id: GO:0002076 name: osteoblast development namespace: biological_process def: "The process whose specific outcome is the progression of an osteoblast over time, from its formation to the mature structure. Osteoblast development does not include the steps involved in committing a cranial neural crest cell or an osteoprogenitor cell to an osteoblast fate. An osteoblast is a cell that gives rise to bone." [GOC:dph] is_a: GO:0048468 ! cell development relationship: part_of GO:0001649 ! osteoblast differentiation [Term] id: GO:0002077 name: acrosome matrix dispersal namespace: biological_process def: "The proteolytic digestion of components in the acrosomal matrix that allows for their release into the egg. The dispersal of the components allows for the inner acrosomal membrane to interact with the egg." [GOC:dph, PMID:3886029] is_a: GO:0048610 ! reproductive cellular process is_a: GO:0051603 ! proteolysis involved in cellular protein catabolic process relationship: part_of GO:0007340 ! acrosome reaction [Term] id: GO:0002078 name: membrane fusion involved in acrosome reaction namespace: biological_process def: "The fusion of the plasma membrane of the sperm with the outer acrosomal membrane." [GOC:dph, PMID:3886029] synonym: "membrane fusion involved in the acrosomal reaction" EXACT [] is_a: GO:0006944 ! cellular membrane fusion relationship: part_of GO:0007340 ! acrosome reaction [Term] id: GO:0002079 name: inner acrosomal membrane namespace: cellular_component def: "The acrosomal membrane region that underlies the acrosomal vesicle and is located toward the sperm nucleus. This region is responsible for molecular interactions allowing the sperm to penetrate the zona pellucida and fuses with the egg plasma membrane." [GOC:dph, PMID:3899643, PMID:8936405] comment: Note that this term is not a descendant of 'organelle inner membrane ; GO:0019866' because the outer acrosomal membrane is a portion of the acrosomal membrane; the latter is a single lipid bilayer. is_a: GO:0044425 ! membrane part is_a: GO:0044433 ! cytoplasmic vesicle part relationship: part_of GO:0002080 ! acrosomal membrane [Term] id: GO:0002080 name: acrosomal membrane namespace: cellular_component def: "The membrane that surrounds the acrosomal lumen. The acrosome is a special type of lysosome in the head of a spermatozoon that contains acid hydrolases and is concerned with the breakdown of the outer membrane of the ovum during fertilization." [GOC:dph] is_a: GO:0030667 ! secretory granule membrane relationship: part_of GO:0001669 ! acrosomal vesicle [Term] id: GO:0002081 name: outer acrosomal membrane namespace: cellular_component def: "The acrosomal membrane region that underlies the plasma membrane of the sperm. This membrane fuses with the sperm plasma membrane as part of the acrosome reaction." [GOC:dph, PMID:8936405] comment: Note that this term is not a descendant of 'organelle outer membrane ; GO:0031968' because the outer acrosomal membrane is a portion of the acrosomal membrane; the latter is a single lipid bilayer. is_a: GO:0044425 ! membrane part is_a: GO:0044433 ! cytoplasmic vesicle part relationship: part_of GO:0002080 ! acrosomal membrane [Term] id: GO:0002082 name: regulation of oxidative phosphorylation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the phosphorylation of ADP to ATP that accompanies the oxidation of a metabolite through the operation of the respiratory chain. Oxidation of compounds establishes a proton gradient across the membrane, providing the energy for ATP synthesis." [GOC:dph] is_a: GO:0042325 ! regulation of phosphorylation is_a: GO:0043467 ! regulation of generation of precursor metabolites and energy intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006119 ! oxidative phosphorylation relationship: regulates GO:0006119 ! oxidative phosphorylation [Term] id: GO:0002083 name: 4-hydroxybenzoate decaprenyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: decaprenyl-PP + p-hydroxybenzoate = decaprenyl-4-hydroxybenzoate + diphosphate." [GOC:hjd] is_a: GO:0002094 ! polyprenyltransferase activity [Term] id: GO:0002084 name: protein depalmitoylation namespace: biological_process def: "The removal of palymitoyl groups from a lipoprotein." [GOC:hjd] is_a: GO:0006464 ! protein modification process is_a: GO:0042159 ! lipoprotein catabolic process [Term] id: GO:0002085 name: inhibition of neuroepithelial cell differentiation namespace: biological_process def: "Any process that prevents the activation of neuroepithelial cell differentiation. Neuroepithelial cell differentiation is the process by which epiblast cells acquire specialized features of neuroepithelial cells." [GOC:dph, PMID:16678814] synonym: "negative regulation of neural plate formation" NARROW [GOC:dph, GOC:tb] synonym: "repression of premature neural plate formation" NARROW [GOC:dph, GOC:tairtb] is_a: GO:0022603 ! regulation of anatomical structure morphogenesis is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:0045995 ! regulation of embryonic development is_a: GO:0048505 ! regulation of timing of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060563 ! neuroepithelial cell differentiation relationship: negatively_regulates GO:0060563 ! neuroepithelial cell differentiation [Term] id: GO:0002086 name: diaphragm contraction namespace: biological_process def: "A process whereby force is generated within involuntary skeletal muscle tissue, resulting in a change in muscle geometry. This process occurs in the diaphragm. Force generation involves a chemo-mechanical energy conversion step that is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis. The diaphragm is a striated muscle that is necessary for the process of respiratory gaseous exchange." [GOC:dph, GOC:mtg_muscle, PMID:12458206] is_a: GO:0003011 ! involuntary skeletal muscle contraction is_a: GO:0003016 ! respiratory system process [Term] id: GO:0002087 name: regulation of respiratory gaseous exchange by neurological system process namespace: biological_process def: "A process carried out by the nervous system that is required for the proper control of respiratory gaseous exchange. This process occurs in the respiratory center of the brain in vertebrates." [GOC:dph, GOC:tb, PMID:12458206] synonym: "neurological control of breathing" EXACT [GOC:dph, GOC:tb] is_a: GO:0044065 ! regulation of respiratory system process is_a: GO:0050877 ! neurological system process [Term] id: GO:0002088 name: lens development in camera-type eye namespace: biological_process def: "The process whose specific outcome is the progression of the lens over time, from its formation to the mature structure. The lens is a transparent structure in the eye through which light is focused onto the retina. An example of this process is found in Mus musculus." [GOC:dph, ISBN:0582064333] synonym: "lens development" EXACT [] synonym: "lens development in camera-style eye" EXACT [] is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0043010 ! camera-type eye development [Term] id: GO:0002089 name: lens morphogenesis in camera-type eye namespace: biological_process def: "The process by which the anatomical structures of the lens are generated and organized. Morphogenesis pertains to the creation of form. The lens is a transparent structure in the eye through which light is focused onto the retina. An example of this process is found in Mus musculus." [GOC:dph, GOC:mtg_sensu] synonym: "lens morphogenesis" EXACT [] synonym: "lens morphogenesis in camera-style eye" EXACT [] is_a: GO:0009653 ! anatomical structure morphogenesis relationship: part_of GO:0002088 ! lens development in camera-type eye relationship: part_of GO:0048593 ! camera-type eye morphogenesis [Term] id: GO:0002090 name: regulation of receptor internalization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of receptor internalization." [GOC:hjd] is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0048259 ! regulation of receptor-mediated endocytosis is_a: GO:0060255 ! regulation of macromolecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0031623 ! receptor internalization relationship: regulates GO:0031623 ! receptor internalization [Term] id: GO:0002091 name: negative regulation of receptor internalization namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of receptor internalization." [GOC:hjd] synonym: "down regulation of receptor internalization" EXACT [] synonym: "down-regulation of receptor internalization" EXACT [] synonym: "downregulation of receptor internalization" EXACT [] synonym: "inhibition of receptor internalization" NARROW [] is_a: GO:0002090 ! regulation of receptor internalization is_a: GO:0010605 ! negative regulation of macromolecule metabolic process is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0048261 ! negative regulation of receptor-mediated endocytosis intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0031623 ! receptor internalization relationship: negatively_regulates GO:0031623 ! receptor internalization [Term] id: GO:0002092 name: positive regulation of receptor internalization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of receptor internalization." [GOC:hjd] synonym: "activation of receptor internalization" NARROW [] synonym: "stimulation of receptor internalization" NARROW [] synonym: "up regulation of receptor internalization" EXACT [] synonym: "up-regulation of receptor internalization" EXACT [] synonym: "upregulation of receptor internalization" EXACT [] is_a: GO:0002090 ! regulation of receptor internalization is_a: GO:0010604 ! positive regulation of macromolecule metabolic process is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0048260 ! positive regulation of receptor-mediated endocytosis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0031623 ! receptor internalization relationship: positively_regulates GO:0031623 ! receptor internalization [Term] id: GO:0002093 name: auditory receptor cell morphogenesis namespace: biological_process def: "Any process that alters the size or shape of an auditory receptor cell." [GOC:dph, GOC:tb] synonym: "hair cell morphogenesis" BROAD [GO:dph] is_a: GO:0048598 ! embryonic morphogenesis is_a: GO:0048667 ! cell morphogenesis involved in neuron differentiation relationship: part_of GO:0042472 ! inner ear morphogenesis relationship: part_of GO:0060117 ! auditory receptor cell development [Term] id: GO:0002094 name: polyprenyltransferase activity namespace: molecular_function def: "Catalysis of the transfer of multiple prenyl groups from one compound (donor) to another (acceptor)." [GOC:hjd] subset: gosubset_prok is_a: GO:0004659 ! prenyltransferase activity [Term] id: GO:0002095 name: caveolar macromolecular signaling complex namespace: cellular_component def: "A complex composed of proteins required for beta adrenergic receptor activation of protein kinase A. It includes the Cav 12. subunit of L-type calcium channel, protein kinase A regulatory subunit 2(PKAR2), adenyl cyclase, beta-adrenergic receptor, G-alpha-S, protein phosphatase 2A (PP2A) and caveolin 3 (CAV3)." [PMID:16648270] synonym: "caveolar macromolecular signalling complex" EXACT [] is_a: GO:0043234 ! protein complex is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0005901 ! caveola [Term] id: GO:0002096 name: polkadots namespace: cellular_component def: "A punctate, filamentous structure composed of Bcl10 that appears in the cytoplasm of T-cells shortly after T-cell receptor stimulation. Polkadots stands for Punctate Oligomeric Killing and Activating DOmains Transducing Signals." [PMID:14724296, PMID:16495340] comment: Note that polkadots also contains some amount of MALT1. Interaction with MALT1 is required for formation of the polkadots. is_a: GO:0043234 ! protein complex is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0002097 name: tRNA wobble base modification namespace: biological_process def: "The process whereby the nucleotide at position 34 in the anticodon of a tRNA is post-transcriptionally modified." [GOC:hjd, ISBN:155581073X] is_a: GO:0006400 ! tRNA modification [Term] id: GO:0002098 name: tRNA wobble uridine modification namespace: biological_process def: "The process whereby a uridine in position 34 of a tRNA is post-transcriptionally modified." [GOC:hjd, ISBN:155581073X] is_a: GO:0002097 ! tRNA wobble base modification [Term] id: GO:0002099 name: tRNA wobble guanine modification namespace: biological_process def: "The process whereby a guanine in t position 34 of a tRNA is post-transcriptionally modified." [GOC:hjd, ISBN:155581073X] is_a: GO:0002097 ! tRNA wobble base modification [Term] id: GO:0002100 name: tRNA wobble adenosine to inosine editing namespace: biological_process def: "The process whereby an adenosine in position 34 of a tRNA is post-transcriptionally corverted to inosine." [GOC:hjd, ISBN:155581073X] is_a: GO:0002097 ! tRNA wobble base modification [Term] id: GO:0002101 name: tRNA wobble cytosine modification namespace: biological_process def: "The process whereby a cytosine in position 34 of a tRNA is post-transcriptionally modified." [GOC:hjd, ISBN:155581073X] is_a: GO:0002097 ! tRNA wobble base modification [Term] id: GO:0002102 name: podosome namespace: cellular_component def: "An actin-rich adhesion structure characterized by formation upon cell substrate contact and localization at the substrate-attached part of the cell, contain an F-actin-rich core surrounded by a ring structure containing proteins such as vinculin and talin, and have a diameter of 0.5 mm." [PMID:12837608, PMID:15890982] comment: Note that podosomes can be distinguished from other F-actin-rich structures or from other matrix contacts. For example, focal adhesions and focal contacts do not display a core structure of F-actin. Unlike focal adhesions, podosome assembly does not require de novo protein synthesis. However, most of the podosome ring components are found in focal adhesions and other cell-matrix contacts. Podosomes are typically found in cells that cross tissue boundaries, recruited to the leading edge of migrating cells, and are often sites of extracellular matrix degradation. xref: Wikipedia:Podosome is_a: GO:0043232 ! intracellular non-membrane-bounded organelle is_a: GO:0043234 ! protein complex is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0015629 ! actin cytoskeleton [Term] id: GO:0002103 name: endonucleolytic cleavage of tetracistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 4.5S-rRNA, 5S-rRNA) namespace: biological_process def: "Endonucleolytic cleavage of a pre-rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, Large Subunit (LSU) the 4.5S rRNA, and the 5S rRNA in that order from 5' to 3' along the primary transcript. Primary ribosomal RNA transcripts with four genes, in this order, are produced in the chloroplasts of vascular plants. Note that the use of the word tetracistronic refers only to the number of mature rRNA molecules which will be produced from the primary transcript and ignores tRNAs that may also be present within the primary transcript." [GOC:curators] is_a: GO:0000478 ! endonucleolytic cleavage involved in rRNA processing [Term] id: GO:0002104 name: endonucleolytic cleaveage between 4.5S rRNA and 5S rRNA of tetracistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 4.5S-rRNA, 5S-rRNA) namespace: biological_process def: "Endonucleolytic cleavage between the 5S rRNA and the 4.5S rRNA of an rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, Large Subunit (LSU) the 4.5S rRNA, and the 5S rRNA in that order from 5' to 3' along the primary transcript. Note that the use of the word tetracistronic refers only to the number of mature rRNA molecules which will be produced from the primary transcript and ignores tRNAs that may also be present within the primary transcript." [GOC:curators] is_a: GO:0002103 ! endonucleolytic cleavage of tetracistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 4.5S-rRNA, 5S-rRNA) [Term] id: GO:0002105 name: endonucleolytic cleaveage between LSU-rRNA and 4.5S rRNA of tetracistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 4.5S-rRNA, 5S-rRNA) namespace: biological_process def: "Endonucleolytic cleavage between the LSU-rRNA and the 4.5S rRNA of an rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, Large Subunit (LSU) the 4.5S rRNA, and the 5S rRNA in that order from 5' to 3' along the primary transcript. Note that the use of the word tetracistronic refers only to the number of mature rRNA molecules which will be produced from the primary transcript and ignores tRNAs that may also be present within the primary transcript." [GOC:curators] is_a: GO:0002103 ! endonucleolytic cleavage of tetracistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 4.5S-rRNA, 5S-rRNA) [Term] id: GO:0002106 name: endonucleolytic cleaveage between SSU-rRNA and LSU-rRNA of tetracistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 4.5S-rRNA, 5S-rRNA) namespace: biological_process def: "Endonucleolytic cleavages between the SSU-rRNA and the LSU-rRNA of an rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, Large Subunit (LSU) the 4.5S rRNA, and the 5S rRNA in that order from 5' to 3' along the primary transcript. These cleavages liberate tRNAs from the polycistronic transcript as well as separating the SSU and LSU containing transcript. Note that the use of the word tetracistronic refers only to the number of mature rRNA molecules which will be produced from the primary transcript and ignores tRNAs that may also be present within the primary transcript." [GOC:curators] is_a: GO:0002103 ! endonucleolytic cleavage of tetracistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 4.5S-rRNA, 5S-rRNA) [Term] id: GO:0002107 name: generation of mature 3'-end of 5S rRNA generated by RNA polymerase III namespace: biological_process def: "The removal of extra uridine residues from the 3' end of a 5S pre-rRNA generated by transcription by RNA polymerase III to generate the mature 3'-end." [GOC:hjd, PMID:16387655, PMID:1748637, PMID:1902221, PMID:8389357] is_a: GO:0000481 ! maturation of 5S rRNA is_a: GO:0031125 ! rRNA 3'-end processing [Term] id: GO:0002108 name: maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA,5S) namespace: biological_process def: "Any process involved in the maturation of a precursor Large SubUnit (LSU) ribosomal RNA (rRNA) molecule into a mature LSU-rRNA molecule from the pre-rRNA molecule originally produced as a tricistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, Large Subunit (LSU) the 5S rRNA in that order from 5' to 3' along the primary transcript." [GOC:curators] is_a: GO:0000470 ! maturation of LSU-rRNA [Term] id: GO:0002109 name: maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA,5S) namespace: biological_process def: "Any process involved in the maturation of a precursor Small SubUnit (SSU) ribosomal RNA (rRNA) molecule into a mature SSU-rRNA molecule from the pre-rRNA molecule originally produced as a tricistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, Large Subunit (LSU) the 5S rRNA in that order from 5' to 3' along the primary transcript." [GOC:curators] is_a: GO:0030490 ! maturation of SSU-rRNA [Term] id: GO:0002110 name: cotranscriptional mitochondrial rRNA nucleotide insertion namespace: biological_process def: "The insertion of one or two non-coded nucleotides during the transcription of a mitochondrial rRNA. Such additions are known to occur in myxomycetes such as Physarum, Didymium, and Stemonitis." [GOC:curators, ISBN:1555811337 "Modification and Editing of RNA", PMID:8306965] is_a: GO:0000154 ! rRNA modification is_a: GO:0070705 ! RNA nucleotide insertion [Term] id: GO:0002111 name: BRCA2-BRAF35 complex namespace: cellular_component def: "A heterodimeric complex of BRCA2 and BRAF35 (BRCA2-associated factor 35). The BRCA2-BRAF35 complex is often associated with condensed chromatin during mitosis." [GOC:hjd, PMID:11207365] is_a: GO:0043234 ! protein complex is_a: GO:0044428 ! nuclear part [Term] id: GO:0002112 name: interleukin-33 receptor binding namespace: molecular_function def: "Interacting selectively and non-covalently with the interleukin-33 receptor." [GOC:hjd] synonym: "IL-33" NARROW [GOC:mah] synonym: "interleukin-33 receptor ligand" NARROW [GOC:mah] is_a: GO:0005126 ! cytokine receptor binding [Term] id: GO:0002113 name: interleukin-33 binding namespace: molecular_function def: "Interacting selectively and non-covalently with interleukin-33." [GOC:hjd] synonym: "IL-33 binding" EXACT [GOC:mah] is_a: GO:0019955 ! cytokine binding [Term] id: GO:0002114 name: interleukin-33 receptor activity namespace: molecular_function def: "Combining with interleukin-33 to initiate a change in cell activity." [GOC:hjd] synonym: "IL-33 receptor activity" EXACT [GOC:mah] synonym: "IL-33R" EXACT [GOC:mah] is_a: GO:0002113 ! interleukin-33 binding is_a: GO:0004896 ! cytokine receptor activity [Term] id: GO:0002115 name: store-operated calcium entry namespace: biological_process def: "A calcium ion entry mechanism in the plasma membrane activated by the depletion of calcium ion from the internal calcium ion store in the endoplasmic reticulum." [GOC:hjd, PMID:11120592, PMID:17956991] comment: SOCE is initiated by response to stiumlation of membrane receptors leading to the hydrolysis ofphosphatidylinositol bisphosphate (PIP2), inositol 1,4,5-trisphosphate (IP3) generation, and IP3-mediated calcium ion release from the endoplasmic reticulum. synonym: "calcium ion import" BROAD [] synonym: "capacitative calcium entry" EXACT [] synonym: "SOCE" EXACT [] synonym: "store-operated calcium import" EXACT [] is_a: GO:0006816 ! calcium ion transport [Term] id: GO:0002116 name: semaphorin receptor complex namespace: cellular_component def: "A stable binary complex of a neurophilin and a plexin, together forming a functional semaphorin receptor." [GOC:hjd, PMID:10934324, PMID:12367632, PMID:12613544] synonym: "plexin-neurophilin complex" EXACT [] is_a: GO:0043235 ! receptor complex [Term] id: GO:0002117 name: amphibian larval development namespace: biological_process def: "The process whose specific outcome is the progression of the amphibian larva over time, from its formation to the mature structure. Amphibian larvae, sometimes called pollywogs or tadpoles, hatch from eggs and begin to grow limbs and other adult physical features at various times, depending on the species, before they metamorphose into the adult form." [GOC:bf, GOC:go_curators, http://www.livingunderworld.org/biology/] is_a: GO:0002164 ! larval development [Term] id: GO:0002118 name: aggressive behavior namespace: biological_process def: "A behavioral interaction between organisms in which one organism has the intention of inflicting physical damage on another individual." [GOC:hjd] synonym: "aggression" EXACT [] xref: Wikipedia:Aggression is_a: GO:0051705 ! behavioral interaction between organisms [Term] id: GO:0002119 name: nematode larval development namespace: biological_process def: "The process whose specific outcome is the progression of the nematode larva over time, from its formation to the mature structure. Nematode larval development begins with the newly hatched first-stage larva (L1) and ends with the end of the last larval stage (for example the fourth larval stage (L4) in C. elegans). Each stage of nematode larval development is characterized by proliferation of specific cell lineages and an increase in body size without alteration of the basic body plan. Nematode larval stages are separated by molts in which each stage-specific exoskeleton, or cuticle, is shed and replaced anew." [GOC:ems, GOC:kmv] is_a: GO:0002164 ! larval development [Term] id: GO:0002120 name: predatory aggressive behavior namespace: biological_process def: "Aggressive behavior involving attack on prey by a predator, characterized by lack of threatening displays, silence, and no sex differences." [GOC:hjd] synonym: "predatory aggression" EXACT [] is_a: GO:0002118 ! aggressive behavior [Term] id: GO:0002121 name: inter-male aggressive behavior namespace: biological_process def: "Aggressive behavior based on competition between males of the same species over access to resources such as females, dominance, status, etc. and characterized by noise, threats, and is often less injurious." [GOC:hjd] synonym: "inter-male aggression" EXACT [] is_a: GO:0002118 ! aggressive behavior [Term] id: GO:0002122 name: fear-induced aggressive behavior namespace: biological_process def: "Aggressive behavior associated with attempts to flee from a threat." [GOC:hjd] synonym: "fear-induced aggression" EXACT [] is_a: GO:0002118 ! aggressive behavior [Term] id: GO:0002123 name: irritable aggressive behavior namespace: biological_process def: "Aggressive behavior induced by frustration and directed against an available target." [GOC:hjd] synonym: "irritable aggression" EXACT [] is_a: GO:0002118 ! aggressive behavior [Term] id: GO:0002124 name: territorial aggressive behavior namespace: biological_process def: "Aggressive behavior performed in defence of a fixed area against intruders, typically conspecifics." [GOC:hjd] synonym: "territorial aggression" EXACT [] is_a: GO:0002118 ! aggressive behavior [Term] id: GO:0002125 name: maternal aggressive behavior namespace: biological_process def: "Aggressive behavior of a female to protect her offspring from a threat." [GOC:hjd] comment: Paternal aggression also exists. Serves to protect the offspring from intruders. synonym: "maternal aggression" EXACT [] is_a: GO:0002118 ! aggressive behavior [Term] id: GO:0002126 name: instrumental aggressive behavior namespace: biological_process def: "Aggressive behavior directed towards obtaining some goal, considered to be a learned response to a situation." [GOC:hjd] synonym: "instrumental aggression" EXACT [] is_a: GO:0002118 ! aggressive behavior [Term] id: GO:0002127 name: wobble base cytosine methylation namespace: biological_process def: "The process whereby the base of cytosine at position 34 in the anticodon of a tRNA is post-transcriptionally methylated at the C5 position." [GOC:hjd, ISBN:155581073X] synonym: "wobble position m5C biosynthesis" EXACT [] is_a: GO:0002101 ! tRNA wobble cytosine modification is_a: GO:0030488 ! tRNA methylation [Term] id: GO:0002128 name: tRNA nucleoside ribose methylation namespace: biological_process def: "The process by which the sugar of a nucleoside in tRNA is modified at the 2'O position." [GOC:hjd, ISBN:155581073X] is_a: GO:0030488 ! tRNA methylation [Term] id: GO:0002129 name: wobble position guanine ribose methylation namespace: biological_process def: "The process whereby the ribose of guanosine at position 34 in the anticodon of a tRNA is post-transcriptionally methylated at the 2'-O position." [GOC:hjd, ISBN:155581073X] is_a: GO:0002130 ! wobble position ribose methylation [Term] id: GO:0002130 name: wobble position ribose methylation namespace: biological_process def: "The process whereby the ribose base of the nucleotide at position 34 in the anticodon of a tRNA is post-transcriptionally methylated at the 2'O position." [GOC:hjd, ISBN:155581073X] is_a: GO:0002128 ! tRNA nucleoside ribose methylation [Term] id: GO:0002131 name: wobble position cytosine ribose methylation namespace: biological_process def: "The process whereby the ribose of cytidine at position 34 in the anticodon of a tRNA is post-transcriptionally methylated at the 2'-O position." [GOC:hjd, ISBN:155581073X] is_a: GO:0002130 ! wobble position ribose methylation [Term] id: GO:0002132 name: wobble position uridine ribose methylation namespace: biological_process def: "The process whereby the ribose of uridine at position 34 in the anticodon of a tRNA is post-transcriptionally methylated at the 2'-O position." [GOC:hjd, ISBN:155581073X] is_a: GO:0002130 ! wobble position ribose methylation [Term] id: GO:0002133 name: polycystin complex namespace: cellular_component def: "A stable heterodimeric complex composed of polycystin-1 and polycystin-2." [GOC:hjd, PMID:11901144] comment: Different forms of the complex differing in type of N-glycosylation of polycystin-1 can exist (endoglycosidase sensitive and endoglycosidase resistant). is_a: GO:0043234 ! protein complex [Term] id: GO:0002134 name: UTP binding namespace: molecular_function def: "Interacting selectively and non-covalently with UTP, uridine 5'-triphosphate." [GOC:hjd, ISBN:0198506732 "Oxford Dictionary"] is_a: GO:0032557 ! pyrimidine ribonucleotide binding [Term] id: GO:0002135 name: CTP binding namespace: molecular_function def: "Interacting selectively and non-covalently with CTP, cytidine 5'-triphosphate." [GOC:hjd, ISBN:0124020607 "The Anatomical Basis of Mouse Development"] is_a: GO:0032557 ! pyrimidine ribonucleotide binding [Term] id: GO:0002136 name: wobble base lysidine biosynthesis namespace: biological_process def: "The process whereby the carbonyl of cytosine at position 34 of a tRNA is post-transcriptionally replaced by lysine." [PMID:15894617] comment: Exclusively located at the anticodon wobble position (i.e., position 34) of eubacterial and some organellar tRNAIle2. This modification converts the codon specificity from AUG to AUA, and it also converts the aminoacylation specificity of the tRNA from methionine to isoleucine. Requires ATP. is_a: GO:0002101 ! tRNA wobble cytosine modification [Term] id: GO:0002137 name: nuclear cluster namespace: cellular_component def: "Discrete hetero-chromatin-containing foci in interphase nuclei, which comprise clusters of centromeric DNA (as defined by gamma-satellite sequences and the abundance of heterochromatin protein 1 (HP-1) ." [PMID:9413993] is_a: GO:0044428 ! nuclear part relationship: part_of GO:0031618 ! nuclear centromeric heterochromatin created_by: hjd creation_date: 2009-04-22T12:51:32Z [Term] id: GO:0002138 name: retinoic acid biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the biosynthesis of retinoic acid, one of the three components that makes up vitamin A." [GOC:hjd] synonym: "retinoic acid anabolic process" EXACT [] is_a: GO:0042573 ! retinoic acid metabolic process is_a: GO:0044249 ! cellular biosynthetic process created_by: hjd creation_date: 2009-05-01T10:53:24Z [Term] id: GO:0002139 name: stereocilia coupling link namespace: cellular_component def: "A structure involved in coupling stereocilia to one another in sensory hair cells There are four morphologically distinct types: tip links, horizontal top connectors, shaft connectors and ankle links. Tip links and horizontal top connectors are the only inter-stereocilia links associated with mature cochlea, whereas ankle links appear during development of the auditory hair bundle." [PMID:16775142] is_a: GO:0044464 ! cell part created_by: hjd creation_date: 2009-05-06T10:25:38Z [Term] id: GO:0002140 name: stereocilia tip link namespace: cellular_component def: "A stereocilia link that is formed by a fine filament running more or less vertically upward from the tip of each shorter stereocilium to attach at a higher point on its adjacent taller neighbor. Tilting the bundle puts tension on the filaments, which pull on mechanically gated ion channels in the membrane of the stereocilia." [PMID:1108787] is_a: GO:0002139 ! stereocilia coupling link created_by: hjd creation_date: 2009-05-06T10:28:10Z [Term] id: GO:0002141 name: stereocilia ankle link namespace: cellular_component def: "A stereocilia coupling link that is composed of a fine filament present in developing stereocilia that couples the bases of individual stereocilia to one another. They are not present in mature stereocilia." [PMID:17567809] is_a: GO:0002139 ! stereocilia coupling link created_by: hjd creation_date: 2009-05-06T10:31:56Z [Term] id: GO:0002142 name: stereocilia ankle link complex namespace: cellular_component def: "A complex of proteins that connect growing stereocilia in developing cochlear hair cells, composed of Vlgr1, usherin, vezatin, and whirlin." [PMID:16775142] is_a: GO:0043234 ! protein complex relationship: part_of GO:0002141 ! stereocilia ankle link created_by: hjd creation_date: 2009-05-06T10:33:57Z [Term] id: GO:0002143 name: wobble position uridine thiolation namespace: biological_process def: "The process whereby a uridine residue at position 34 in the anticodon of a tRNA is post-transcriptionally thiolated at the C2 position. This process involves transfer of a sulfur from cysteine to position C2 by several steps." [PMID:16871210] comment: In E. coli, the first step of the reaction is reductive elimination of sulfur from L-cysteine by IscS cysteine desulfurase to form an enzyme-bound cysteine-persulfide intermediate. Then, five essential gene products, TusA, TusB, TusC, TusD and TusE, mediate a sulfur relay that delivers the terminal sulfur of persulfide from IscS to MnmA12. The last protein, MnmA catalyzes the transfer of the sulfur from IscS to an ATP activated U34 of the tRNA. synonym: "tRNA wobble uridine thiolation" EXACT [GOC:mah] synonym: "wobble position s2U biosynthesis" EXACT [] is_a: GO:0002098 ! tRNA wobble uridine modification is_a: GO:0034227 ! tRNA thio-modification created_by: hjd creation_date: 2009-05-06T05:05:40Z [Term] id: GO:0002144 name: cytosolic tRNA wobble base thiouridylase complex namespace: cellular_component def: "A complex of two proteins involved in the thiolation of U34 in glutamate, lysine, and glutamine tRNAs of eukaryotes." [PMID:18391219] synonym: "Cut1-Cut2 complex" NARROW [] synonym: "tRNA thiouridylase" BROAD [] is_a: GO:0043234 ! protein complex is_a: GO:0044445 ! cytosolic part created_by: hjd creation_date: 2009-05-08T02:32:55Z [Term] id: GO:0002145 name: 4-amino-5-hydroxymethyl-2-methylpyrimidine diphosphatase activity namespace: molecular_function def: "4-amino-5-hydroxymethyl-2-methylpyrimidine diphosphate + water = 2-methyl-4-amino-5-hydroxymethyl pyrimidine monophosphate + phosphate." [GOC:hjd] synonym: "HMP-PP diphosphatase" EXACT [] synonym: "HMP-PP pyrophosphatase" EXACT [] is_a: GO:0016462 ! pyrophosphatase activity created_by: hjd creation_date: 2009-06-10T11:21:35Z [Term] id: GO:0002146 name: steroid hormone receptor nuclear translocation namespace: biological_process def: "The directed movement of a steroid hormone receptor into the nucleus." [GOC:hjd] is_a: GO:0000060 ! protein import into nucleus, translocation created_by: hjd creation_date: 2009-07-09T02:34:42Z [Term] id: GO:0002147 name: glucocorticoid receptor nuclear translocation namespace: biological_process def: "The directed movement of a glucocorticoid receptor into the nucleus." [GOC:hjd] is_a: GO:0002146 ! steroid hormone receptor nuclear translocation relationship: part_of GO:0042921 ! glucocorticoid receptor signaling pathway created_by: hjd creation_date: 2009-07-09T02:36:09Z [Term] id: GO:0002148 name: hypochlorous acid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving hypochlorous acid." [GOC:add, PMID:176150, PMIG:10085024] synonym: "HClO metabolic process" EXACT [] synonym: "HOCl metabolic process" EXACT [] synonym: "hypochlorite metabolic process" RELATED [] synonym: "hypochlorous acid metabolism" EXACT [] is_a: GO:0070276 ! halogen metabolic process created_by: hjd creation_date: 2009-10-13T10:27:48Z [Term] id: GO:0002149 name: hypochlorous acid biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of hypochlorous acid." [GOC:add, PMID:10085024, PMID:176150] comment: Note that this reaction is catalyzed by myeloperoxidase in neutrophils. synonym: "HClO biosynthetic process" EXACT [] synonym: "HOCl biosynthetic process" EXACT [] synonym: "hypochlorite biosynthetic process" RELATED [] synonym: "hypochlorous acid biosynthesis" EXACT [] is_a: GO:0002148 ! hypochlorous acid metabolic process created_by: hjd creation_date: 2009-10-13T10:32:35Z [Term] id: GO:0002150 name: hypochlorous acid catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of hypochlorous acid." [GOC:add] synonym: "HClO catabolic process" EXACT [] synonym: "HOCl catabolic process" EXACT [] synonym: "hypochlorite catabolic process" RELATED [] synonym: "hypochlorous acid catabolism" EXACT [] is_a: GO:0002148 ! hypochlorous acid metabolic process created_by: hjd creation_date: 2009-10-13T10:36:09Z [Term] id: GO:0002151 name: G-quadruplex RNA binding namespace: molecular_function def: "Interacting selectively and non-covalently with G-quadruplex RNA structures, in which groups of four guanines adopt a flat, cyclic hydrogen-bonding arrangement known as a guanine tetrad." [PMID:18294969, PMID:18568163, PMID:19330720] comment: The structures of RNA and DNA G quartets differ regarding sugar conformation so that a protein binding to the RNA structure might not bind to the DNA structure. synonym: "G quadruplex binding" EXACT [GOC:mah] synonym: "G quartet binding" BROAD [GOC:hjd] synonym: "G quartet RNA binding" EXACT [GOC:hjd] synonym: "G-quartet binding" BROAD [GOC:mah] is_a: GO:0003723 ! RNA binding created_by: hjd creation_date: 2009-10-22T01:38:02Z [Term] id: GO:0002152 name: bile acid conjugation namespace: biological_process def: "The process whereby bile acids are covalently linked to taurine or glycine." [PMID:1094911, PMID:708413] comment: The bile acid is first activated using CoA by cholate-CoA ligase activity(GO:0047747), then conjugated to taurine or glycine by glycine N-choloyltransferase activity (GO:0047963; appears to use either glycine or taurine). is_a: GO:0008206 ! bile acid metabolic process created_by: hjd creation_date: 2009-10-29T01:41:51Z [Term] id: GO:0002153 name: steroid receptor RNA activator RNA binding namespace: molecular_function def: "Selectively interacting with the steroid receptor RNA activator RNA (SRA). SRA enhances steroid hormone receptor transcriptional activity as an RNA transcript by an indirect mechanism that does not involve SRA-steroid receptor binding." [PMID:10199399, PMID:15180993] comment: Note: there is also evidence that the RNA itself may code a protein (solution structure of mouse steroid receptor RNA activator 1 (SRA1) protein submitted to PDB by Riken). synonym: "SRA binding" EXACT [] is_a: GO:0003727 ! single-stranded RNA binding created_by: hjd creation_date: 2009-11-16T02:18:55Z [Term] id: GO:0002154 name: thyroid hormone mediated signaling pathway namespace: biological_process def: "A series of molecular signals mediated by the detection of a thyroid hormone." [GOC:hjd] is_a: GO:0009755 ! hormone-mediated signaling pathway created_by: hjd creation_date: 2009-11-19T12:36:29Z [Term] id: GO:0002155 name: regulation of thyroid hormone mediated signaling pathway namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a thyroid hormone mediated signaling pathway." [GOC:hjd] is_a: GO:0035466 ! regulation of signaling pathway is_a: GO:0048583 ! regulation of response to stimulus is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002154 ! thyroid hormone mediated signaling pathway relationship: regulates GO:0002154 ! thyroid hormone mediated signaling pathway created_by: hjd creation_date: 2009-11-19T12:37:46Z [Term] id: GO:0002156 name: negative regulation of thyroid hormone mediated signaling pathway namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of thyroid hormone mediated signaling pathway." [GOC:hjd] is_a: GO:0002155 ! regulation of thyroid hormone mediated signaling pathway is_a: GO:0035467 ! negative regulation of signaling pathway is_a: GO:0048585 ! negative regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002154 ! thyroid hormone mediated signaling pathway relationship: negatively_regulates GO:0002154 ! thyroid hormone mediated signaling pathway created_by: hjd creation_date: 2009-11-19T12:41:48Z [Term] id: GO:0002157 name: positive regulation of thyroid hormone mediated signaling pathway namespace: biological_process def: "Any process that increases the frequency, rate or extent of thyroid hormone mediated signaling pathway." [GOC:hjd] is_a: GO:0002155 ! regulation of thyroid hormone mediated signaling pathway is_a: GO:0035468 ! positive regulation of signaling pathway is_a: GO:0048584 ! positive regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002154 ! thyroid hormone mediated signaling pathway relationship: positively_regulates GO:0002154 ! thyroid hormone mediated signaling pathway created_by: hjd creation_date: 2009-11-19T12:42:57Z [Term] id: GO:0002158 name: osteoclast proliferation namespace: biological_process def: "The multiplication or reproduction of osteoclasts, resulting in the expansion of an osteoclast cell population. An osteoclast is a specialized phagocytic cell associated with the absorption and removal of the mineralized matrix of bone tissue, which typically differentiates from monocytes." [CL:0000092, GOC:hjd] is_a: GO:0070661 ! leukocyte proliferation created_by: hjd creation_date: 2010-02-03T01:50:37Z [Term] id: GO:0002159 name: desmosome assembly namespace: biological_process def: "A cellular process that results in the aggregation, arrangement and bonding together of a set of components to form a desmosome. A desmosome is a patch-like intercellular junctions found in vertebrate tissues, consisting of parallel zones of two cell membranes, separated by an space of 25-35 nm, and having dense fibrillar plaques in the subjacent cytoplasm." [GOC:hjd, ISBN:0198506732] comment: Desmosomes link two cells together; hemidesmosomes attach one cell to the extracellular matrix. is_a: GO:0007043 ! cell-cell junction assembly created_by: hjd creation_date: 2010-02-09T10:46:30Z [Term] id: GO:0002160 name: desmosome maintenance namespace: biological_process def: "The maintenance of a desmosome. A desmosome is a patch-like intercellular junctions found in vertebrate tissues, consisting of parallel zones of two cell membranes, separated by an interspace of 25-35 nm, and having dense fibrillar plaques in the subjacent cytoplasm." [GOC:hjd, ISBN:0198506732] comment: Desmosomes link two cells together; hemidesmosomes attach one cell to the extracellular matrix. is_a: GO:0045217 ! cell-cell junction maintenance created_by: hjd creation_date: 2010-02-09T10:50:59Z [Term] id: GO:0002161 name: aminoacyl-tRNA editing activity namespace: molecular_function def: "The hydrolysis of an incorrectly aminoacylated tRNA." [GOC:hjd, PMID:14663147, PMID:16087889] synonym: "amino acid proofreading activity" RELATED [] synonym: "aminoacyl-tRNA hydrolysis activity" RELATED [] is_a: GO:0004091 ! carboxylesterase activity relationship: part_of GO:0006450 ! regulation of translational fidelity created_by: hjd creation_date: 2010-02-12T03:06:56Z [Term] id: GO:0002162 name: dystroglycan binding namespace: molecular_function def: "Interacting selectively and non-covalently with dystroglycan. Dystroglycan is glycoprotein found in non-muscle tissues as well as in muscle tissues, often in association with dystrophin. The native dystroglycan cleaved into two non-covalently associated subunits, alpha (N-terminal) and beta (C-terminal)." [GOC:hjd] is_a: GO:0001948 ! glycoprotein binding created_by: hjd creation_date: 2010-02-22T02:17:58Z [Term] id: GO:0002163 name: alpha-dystroglycan binding namespace: molecular_function def: "Interacting selectively and non-covalently with alpha-dystroglycan. Alpha-dystroglycan is extracellular protein derived from cleavage of dystroglycan." [GOC:hjd] is_a: GO:0002162 ! dystroglycan binding created_by: hjd creation_date: 2010-02-22T02:19:16Z [Term] id: GO:0002164 name: larval development namespace: biological_process def: "The process whose specific outcome is the progression of the larva over time, from its formation to the mature structure. The larva is the early, immature form of any animal when more or less of a metamorphosis takes place, before the assumption of the mature shape." [GOC:jid, http://cancerweb.ncl.ac.uk] is_a: GO:0009791 ! post-embryonic development [Term] id: GO:0002165 name: instar larval or pupal development namespace: biological_process def: "The process whose specific outcome is the progression of the instar larva or pupa over time, from its formation to the mature structure. An example of this process is found in Drosophila melanogaster." [GOC:jid, GOC:mtg_sensu] is_a: GO:0009791 ! post-embryonic development [Term] id: GO:0002166 name: beta-dystroglycan binding namespace: molecular_function def: "Interacting selectively and non-covalently with beta-dystroglycan. Beta-dystroglycan is a transmembrane protein derived from cleavage of dystroglycan." [GOC:hjd] is_a: GO:0002162 ! dystroglycan binding created_by: hjd creation_date: 2010-02-22T02:20:08Z [Term] id: GO:0002167 name: VRK3/VHR/ERK complex namespace: cellular_component def: "A ternary complex consisting of VRK3 , VHR (Dusp3), and ERK1 (Mapk3) existing in neuronal cells, and is involved in regulation of the ERK signaling pathway." [GOC:hjd, PMID:16845380] is_a: GO:0043234 ! protein complex created_by: hjd creation_date: 2010-03-04T01:15:05Z [Term] id: GO:0002168 name: instar larval development namespace: biological_process def: "The process whose specific outcome is the progression of the larva over time, from its formation to the mature structure. This begins with the newly hatched first-instar larva, through its maturation to the end of the last larval stage. An example of this process is found in Drosophila melanogaster." [GOC:bf, GOC:mtg_sensu] is_a: GO:0002164 ! larval development is_a: GO:0002165 ! instar larval or pupal development [Term] id: GO:0002169 name: 3-methylcrotonyl-CoA carboxylase complex, mitochondrial namespace: cellular_component def: "A heterodimeric complex having 3-methylcrotonyl-CoA carboxylase activity. The alpha subunit has a covalently bound biotin essential for the ATP-dependent carboxylation. The beta subunit possess carboxyltransferase activity which presumably is essential for binding to 3-methylcrotonyl-CoA." [GOC:hjd, PMID:15868465] is_a: GO:0043234 ! protein complex is_a: GO:0044429 ! mitochondrial part created_by: hjd creation_date: 2010-03-15T04:58:08Z [Term] id: GO:0002170 name: high affinity IgA receptor activity namespace: molecular_function def: "Combining with high affinity with an immunoglobulin of an IgA isotype via the Fc region to initiate a change in cell activity." [GOC:hjd] is_a: GO:0019766 ! IgA receptor activity created_by: hjd creation_date: 2010-05-06T05:00:11Z [Term] id: GO:0002171 name: low affinity IgA receptor activity namespace: molecular_function def: "Combining with low affinity with an immunoglobulin of an IgA isotype via the Fc region to initiate a change in cell activity." [GOC:hjd] is_a: GO:0019766 ! IgA receptor activity created_by: hjd creation_date: 2010-05-06T05:01:41Z [Term] id: GO:0002172 name: high affinity IgM receptor activity namespace: molecular_function def: "Combining with high affinity with an immunoglobulin of an IgM isotype via the Fc region to initiate a change in cell activity." [GOC:hjd] is_a: GO:0001793 ! IgM receptor activity created_by: hjd creation_date: 2010-05-06T05:03:26Z [Term] id: GO:0002173 name: low affinity IgM receptor activity namespace: molecular_function def: "Combining with low affinity with an immunoglobulin of an IgM isotype via the Fc region to initiate a change in cell activity." [GOC:hjd] is_a: GO:0001793 ! IgM receptor activity created_by: hjd creation_date: 2010-05-06T05:04:24Z [Term] id: GO:0002200 name: somatic diversification of immune receptors namespace: biological_process def: "The somatic process allowing for the production of immune receptors whose specificity is not encoded in the germline genomic sequences." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:16102575, PMID:16166509] comment: Note that this process covers somatic recombination, gene conversion, hypermutation, N-region addition, and alternate splicing processes of immune receptor diversification. is_a: GO:0002376 ! immune system process relationship: part_of GO:0002520 ! immune system development [Term] id: GO:0002201 name: somatic diversification of DSCAM-based immune receptors namespace: biological_process def: "The somatic process by means of which sequence diversity of the DSCAM-based immune receptors of insects is generated." [GOC:add, PMID:16261174] comment: Note that this type of immune receptor may not be limited to insects. is_a: GO:0002200 ! somatic diversification of immune receptors [Term] id: GO:0002202 name: somatic diversification of variable lymphocyte receptors of jawless fish namespace: biological_process def: "The somatic process by means of which sequence diversity of the variable lymphocyte receptors (VLR) of jawless fish is generated." [GOC:add, PMID:16373579] comment: Note that jawless fish refers to both lampreys (Petremyzontidae, ncbi_taxonomy_id:7746) and hagfish (Myxinidae, ncbi_taxonomy_id:7762). is_a: GO:0002200 ! somatic diversification of immune receptors [Term] id: GO:0002203 name: proteolysis by cytosolic proteases associated with antigen processing and presentation namespace: biological_process def: "The hydrolysis of a peptide bond or bonds within a protein by cytosolic resident proteases during antigen processing and presentation." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15224092, PMID:15771591] comment: Note that a separate term covers proteolysis by the proteasome complex (proteasomal proteolysis associated with antigen processing and presentation ; GO:0002497). is_a: GO:0002496 ! proteolysis associated with antigen processing and presentation [Term] id: GO:0002204 name: somatic recombination of immunoglobulin genes involved in immune response namespace: biological_process def: "The process by which immunoglobulin genes are formed through recombination of the germline genetic elements, also known as immunoglobulin gene segments, within a single locus following the induction of and contributing to an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "somatic recombination of antibody genes during immune response" RELATED [] synonym: "somatic recombination of immunoglobulin genes during immune response" RELATED [GOC:dph] is_a: GO:0002208 ! somatic diversification of immunoglobulins involved in immune response is_a: GO:0016447 ! somatic recombination of immunoglobulin gene segments [Term] id: GO:0002205 name: somatic hypermutation of immunoglobulin genes involved in immune response namespace: biological_process def: "Mutations occurring somatically that result in amino acid changes in the rearranged V regions of immunoglobulins following the induction of and contributing to an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:11205333, PMID:14991701] synonym: "somatic hypermutation of antibody genes during immune response" RELATED [] synonym: "somatic hypermutation of immunoglobulin genes during immune response" RELATED [GOC:dph] is_a: GO:0002208 ! somatic diversification of immunoglobulins involved in immune response is_a: GO:0016446 ! somatic hypermutation of immunoglobulin genes relationship: part_of GO:0002344 ! B cell affinity maturation [Term] id: GO:0002206 name: gene conversion of immunoglobulin genes namespace: biological_process def: "The somatic process by which immunoglobulin genes are diversified through the mechanism of gene conversion." [GOC:add, PMID:14991701] synonym: "gene conversion of antibody genes" EXACT [] is_a: GO:0002565 ! somatic diversification of immune receptors via gene conversion is_a: GO:0016445 ! somatic diversification of immunoglobulins [Term] id: GO:0002207 name: gene conversion of immunoglobulin genes involved in immune response namespace: biological_process def: "The somatic process by which immunoglobulin genes are diversified through the mechanism of gene conversion following the induction of and contributing to an immune response." [GOC:add, PMID:14991701] synonym: "gene conversion of antibody genes during immune response" RELATED [] synonym: "gene conversion of immunoglobulin genes during immune response" RELATED [GOC:dph] is_a: GO:0002206 ! gene conversion of immunoglobulin genes is_a: GO:0002208 ! somatic diversification of immunoglobulins involved in immune response [Term] id: GO:0002208 name: somatic diversification of immunoglobulins involved in immune response namespace: biological_process def: "The somatic process by means of which sequence diversity of immunoglobulins is generated after the induction and contributing to an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:14991701] synonym: "somatic diversification of antibodies during immune response" RELATED [] synonym: "somatic diversification of immunoglobulins during immune response" RELATED [GOC:dph] is_a: GO:0016445 ! somatic diversification of immunoglobulins relationship: part_of GO:0002381 ! immunoglobulin production involved in immunoglobulin mediated immune response [Term] id: GO:0002209 name: behavioral defense response namespace: biological_process def: "A behavioral response seeking to protect an organism from an a perceived external threat to that organism." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05] comment: This term was added by GO_REF:0000022. synonym: "behavioural defense response" EXACT [] is_a: GO:0006952 ! defense response is_a: GO:0007610 ! behavior [Term] id: GO:0002210 name: behavioral response to wounding namespace: biological_process def: "A behavioral response resulting from wounding." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05] comment: This term was added by GO_REF:0000022. synonym: "behavioural response to wounding" EXACT [] is_a: GO:0007610 ! behavior is_a: GO:0009611 ! response to wounding [Term] id: GO:0002211 name: behavioral defense response to insect namespace: biological_process def: "A behavioral response seeking to protect an organism from an a perceived external threat from an insect or insects to that organism." [GOC:add] synonym: "behavioural defense response to insect" EXACT [] is_a: GO:0002209 ! behavioral defense response is_a: GO:0002213 ! defense response to insect [Term] id: GO:0002212 name: behavioral defense response to nematode namespace: biological_process def: "A behavioral response seeking to protect an organism from an a perceived external threat from a nematode or nematodes to that organism." [GOC:add, PMID:14506883] synonym: "behavioural defense response to nematode" EXACT [] is_a: GO:0002209 ! behavioral defense response is_a: GO:0002215 ! defense response to nematode [Term] id: GO:0002213 name: defense response to insect namespace: biological_process alt_id: GO:0002214 def: "A response to protect an organism from a directly detected or perceived external threat from an insect or insects to that organism." [GOC:add] synonym: "physiological defense response to insect" EXACT [] is_a: GO:0006952 ! defense response is_a: GO:0009625 ! response to insect [Term] id: GO:0002215 name: defense response to nematode namespace: biological_process alt_id: GO:0002216 def: "A response to protect an organism from a directly detected or perceived external threat from a nematode or nematodes, which results in restriction of damage to the organism attacked or prevention/recovery from the infection caused by the attack." [GOC:add, PMID:11516579, PMID:14506883] synonym: "physiological defense response to nematode" EXACT [] is_a: GO:0006952 ! defense response is_a: GO:0009624 ! response to nematode [Term] id: GO:0002218 name: activation of innate immune response namespace: biological_process alt_id: GO:0002219 def: "Any process that initiates an innate immune response. Innate immune responses are defense responses mediated by germline encoded components that directly recognize components of potential pathogens. Examples of this process include activation of the hypersensitive response of Arabidopsis thaliana and activation of any NOD or TLR signaling pathway in vertebrate species." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, GOC:mtg_sensu, ISBN:0781735149 "Fundamental Immunology", PMID:15199967, PMID:16177805] comment: This term was added by GO_REF:0000022. is_a: GO:0002253 ! activation of immune response is_a: GO:0045089 ! positive regulation of innate immune response [Term] id: GO:0002220 name: innate immune response activating cell surface receptor signaling pathway namespace: biological_process def: "Any series of molecular signals leading to activation of the innate immune response generated as a consequence of binding to a cell surface receptor." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15199967] synonym: "activation of innate immune response by cell surface receptor signaling pathway" EXACT [] synonym: "innate immune response activating cell surface receptor signalling pathway" EXACT [] is_a: GO:0002429 ! immune response-activating cell surface receptor signaling pathway is_a: GO:0002758 ! innate immune response-activating signal transduction [Term] id: GO:0002221 name: pattern recognition receptor signaling pathway namespace: biological_process def: "Any series of molecular signals generated as a consequence of binding to a cell surface or intracellular pattern recognition receptor (PRR). Such receptors bind for molecular patterns based on a repeating or polymeric structures, like those of polysaccharides or peptidoglycans, which are sometimes associated with potential pathogens." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15199967] synonym: "PAMP receptor signaling pathway" EXACT [ISBN:0781735149 "Fundamental Immunology", PMID:15199967, PMID:15728447] synonym: "pathogen receptor signaling pathway" EXACT [ISBN:0781735149 "Fundamental Immunology", PMID:15199967, PMID:15728447] synonym: "pathogen receptor signalling pathway" EXACT [ISBN:0781735149 "Fundamental Immunology", PMID:15199967, PMID:15728447] synonym: "PRR signaling pathway" EXACT [ISBN:0781735149 "Fundamental Immunology", PMID:15199967, PMID:15728447] is_a: GO:0002758 ! innate immune response-activating signal transduction [Term] id: GO:0002222 name: stimulatory killer cell immunoglobulin-like receptor signaling pathway namespace: biological_process def: "Any series of molecular signals generated as a consequence of binding to a killer cell immunoglobulin-like receptor capable of cellular activation." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. synonym: "stimulatory killer cell immunoglobulin-like receptor signalling pathway" EXACT [] synonym: "stimulatory KIR signaling pathway" EXACT [ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002220 ! innate immune response activating cell surface receptor signaling pathway [Term] id: GO:0002223 name: stimulatory C-type lectin receptor signaling pathway namespace: biological_process def: "Any series of molecular signals generated as a consequence of binding to a C-type lectin receptor capable of cellular activation." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. synonym: "stimulatory C-type lectin receptor signalling pathway" EXACT [] synonym: "stimulatory Ly49 family receptor signaling pathway." NARROW [ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002220 ! innate immune response activating cell surface receptor signaling pathway [Term] id: GO:0002224 name: toll-like receptor signaling pathway namespace: biological_process def: "Any series of molecular signals generated as a consequence of binding to a toll-like receptor. Toll-like receptors directly bind pattern motifs from a variety of microbial sources to initiate innate immune response." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology", PMID:12467241, PMID:12524386, PMID:12855817, PMID:15585605, PMID:15728447] comment: This term was added by GO_REF:0000022. Note that the vertebrate toll-like receptors, unlike the Drosophila Toll molecule, directly bind their ligands. The Drosophila Toll molecule requires the Sptzle factor to bind microbial ligands and then the receptor in order to initiate innate immune responses. synonym: "TLR signaling pathway" EXACT [ISBN:0781735149 "Fundamental Immunology"] synonym: "toll-like receptor signalling pathway" EXACT [] is_a: GO:0002221 ! pattern recognition receptor signaling pathway [Term] id: GO:0002225 name: positive regulation of antimicrobial peptide production namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antimicrobial peptide production." [GOC:add, PMID:11807545] synonym: "activation of antimicrobial peptide production" NARROW [] synonym: "antimicrobial peptide induction" EXACT [] synonym: "stimulation of antimicrobial peptide production" NARROW [] synonym: "up regulation of antimicrobial peptide production" EXACT [] synonym: "up-regulation of antimicrobial peptide production" EXACT [] synonym: "upregulation of antimicrobial peptide production" EXACT [] is_a: GO:0002702 ! positive regulation of production of molecular mediator of immune response is_a: GO:0002784 ! regulation of antimicrobial peptide production intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002775 ! antimicrobial peptide production relationship: positively_regulates GO:0002775 ! antimicrobial peptide production [Term] id: GO:0002227 name: innate immune response in mucosa namespace: biological_process def: "Any process of the innate immune response that takes place in the mucosal tissues." [GOC:add, PMID:10719665, PMID:15971105] is_a: GO:0002385 ! mucosal immune response is_a: GO:0045087 ! innate immune response [Term] id: GO:0002228 name: natural killer cell mediated immunity namespace: biological_process def: "The promotion of an immune response by natural killer cells through direct recognition of target cells or through the release of cytokines." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. synonym: "NK cell mediated immunity" EXACT [] is_a: GO:0002449 ! lymphocyte mediated immunity is_a: GO:0045087 ! innate immune response [Term] id: GO:0002229 name: defense response to oomycetes namespace: biological_process def: "Reactions triggered in response to the presence of oomycetes that act to protect the cell or organism." [GOC:add, PMID:16497589] is_a: GO:0002239 ! response to oomycetes is_a: GO:0006952 ! defense response [Term] id: GO:0002230 name: positive regulation of defense response to virus by host namespace: biological_process def: "Any host process that results in the promotion of antiviral immune response mechanisms, thereby limiting viral replication." [GOC:add, GOC:dph, GOC:tb, ISBN:0781735149 "Fundamental Immunology"] synonym: "activation of antiviral response by host" NARROW [] synonym: "positive regulation of antiviral response by host" EXACT [GOC:dph, GOC:tb] synonym: "stimulation of antiviral response by host" NARROW [] synonym: "up regulation of antiviral response by host" EXACT [] synonym: "up-regulation of antiviral response by host" EXACT [] synonym: "upregulation of antiviral response by host" EXACT [] is_a: GO:0050691 ! regulation of defense response to virus by host [Term] id: GO:0002231 name: detection of oomycetes namespace: biological_process def: "The series of events in which a stimulus from an oomycetes is received and converted into a molecular signal." [GOC:add, PMID:15922649] is_a: GO:0002239 ! response to oomycetes is_a: GO:0009581 ! detection of external stimulus is_a: GO:0009595 ! detection of biotic stimulus [Term] id: GO:0002232 name: leukocyte chemotaxis involved in inflammatory response namespace: biological_process def: "The movement of an immune cell in response to an external stimulus contributing to an inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "immune cell chemotaxis during inflammatory response" RELATED [] synonym: "leucocyte chemotaxis during inflammatory response" RELATED [] synonym: "leukocyte chemotaxis during inflammatory response" RELATED [GOC:dph] is_a: GO:0002523 ! leukocyte migration involved in inflammatory response is_a: GO:0030595 ! leukocyte chemotaxis [Term] id: GO:0002233 name: leukocyte chemotaxis involved in immune response namespace: biological_process def: "The movement of an immune cell in response to an external stimulus a part of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "immune cell chemotaxis during immune response" EXACT [] synonym: "leucocyte chemotaxis during immune response" EXACT [] is_a: GO:0002522 ! leukocyte migration involved in immune response is_a: GO:0030595 ! leukocyte chemotaxis [Term] id: GO:0002234 name: detection of endoplasmic reticulum overloading namespace: biological_process def: "The series of events in which a stimulus generated by the accumulation of normal or misfolded proteins in the endoplasmic reticulum is received and converted into a molecular signal." [GOC:add, PMID:10390516] synonym: "detection of ER overloading" EXACT [] is_a: GO:0006983 ! ER overload response is_a: GO:0009595 ! detection of biotic stimulus [Term] id: GO:0002235 name: detection of unfolded protein namespace: biological_process def: "The series of events in which an unfolded protein stimulus is received and converted into a molecular signal." [GOC:add, PMID:15226511, PMID:7765470] is_a: GO:0006986 ! response to unfolded protein is_a: GO:0009593 ! detection of chemical stimulus is_a: GO:0009595 ! detection of biotic stimulus [Term] id: GO:0002236 name: detection of misfolded protein namespace: biological_process def: "The series of events in which a misfolded protein stimulus is received and converted into a molecular signal." [GOC:add, PMID:15226511] is_a: GO:0009593 ! detection of chemical stimulus is_a: GO:0009595 ! detection of biotic stimulus is_a: GO:0051788 ! response to misfolded protein [Term] id: GO:0002237 name: response to molecule of bacterial origin namespace: biological_process def: "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus by molecules of bacterial origin such as peptides derived from bacterial flagellin." [GOC:rl, GOC:sm] synonym: "response to bacteria associated molecule" EXACT [] synonym: "response to bacterial associated molecule" EXACT [] synonym: "response to bacterium associated molecule" EXACT [] is_a: GO:0009607 ! response to biotic stimulus is_a: GO:0010033 ! response to organic substance relationship: part_of GO:0009617 ! response to bacterium [Term] id: GO:0002238 name: response to molecule of fungal origin namespace: biological_process def: "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus by molecules of fungal origin such as chito-octamer oligosaccharide." [GOC:rl, GOC:sm] synonym: "response to fungus associated molecule" EXACT [] is_a: GO:0009607 ! response to biotic stimulus is_a: GO:0010033 ! response to organic substance relationship: part_of GO:0009620 ! response to fungus [Term] id: GO:0002239 name: response to oomycetes namespace: biological_process def: "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 stimulus from an oomycetes." [GOC:add, PMID:16497589] is_a: GO:0051707 ! response to other organism [Term] id: GO:0002240 name: response to molecule of oomycetes origin namespace: biological_process def: "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus by molecules of oomycetes origin." [GOC:rl, GOC:sm] synonym: "response to oomycetes associated molecule" EXACT [] is_a: GO:0009607 ! response to biotic stimulus relationship: part_of GO:0002239 ! response to oomycetes [Term] id: GO:0002241 name: response to parasitic plant namespace: biological_process def: "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 stimulus from a parasitic plant." [GOC:add, PMID:16547862] is_a: GO:0009608 ! response to symbiont [Term] id: GO:0002242 name: defense response to parasitic plant namespace: biological_process def: "Reactions triggered in response to the presence of a parasitic plant that act to protect an organism." [GOC:add] is_a: GO:0002241 ! response to parasitic plant is_a: GO:0006952 ! defense response [Term] id: GO:0002243 name: detection of parasitic plant namespace: biological_process def: "The series of events in which a stimulus from a parasitic plant is received and converted into a molecular signal." [GOC:add, PMID:16547862] is_a: GO:0002241 ! response to parasitic plant is_a: GO:0009602 ! detection of symbiont [Term] id: GO:0002244 name: hemopoietic progenitor cell differentiation namespace: biological_process def: "The process whereby precursor cell type acquires the specialized features of a hemopoietic progenitor cell, a class of cell types including myeloid progenitor cells and lymphoid progenitor cells." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:16551251] synonym: "haematopoietic progenitor cell differentiation" EXACT [] synonym: "haemopoietic progenitor cell differentiation" EXACT [] synonym: "hematopoietic progenitor cell differentiation" RELATED [] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0030097 ! hemopoiesis [Term] id: GO:0002246 name: wound healing involved in inflammatory response namespace: biological_process def: "The series of events that restore integrity to damaged tissue that contribute to an inflammatory response." [GOC:jal, ISBN:0721601871] synonym: "healing during inflammatory response" RELATED [GOC:dph] synonym: "inflammatory response wound healing" RELATED [GOC:dph] is_a: GO:0042060 ! wound healing relationship: part_of GO:0006954 ! inflammatory response [Term] id: GO:0002247 name: clearance of damaged tissue involved in inflammatory response wound healing namespace: biological_process def: "The series of events leading to removal of necrotic debris that contribute to an inflammatory response." [GOC:jal, ISBN:0721601871] synonym: "clearance of damaged tissue during inflammatory response" RELATED [GOC:dph] is_a: GO:0048771 ! tissue remodeling relationship: part_of GO:0002246 ! wound healing involved in inflammatory response [Term] id: GO:0002248 name: connective tissue replacement involved in inflammatory response wound healing namespace: biological_process def: "The series of events leading to growth of connective tissue when loss of tissues that are incapable of regeneration occurs, or when fibrinous exudate cannot be adequately cleared that contribute to an inflammatory response." [GOC:jal, ISBN:0721601871] synonym: "connective tissue replacement during inflammatory response" RELATED [GOC:dph] synonym: "fibrosis during inflammatory response" NARROW [ISBN:0721601871] is_a: GO:0048771 ! tissue remodeling relationship: part_of GO:0002246 ! wound healing involved in inflammatory response [Term] id: GO:0002249 name: lymphocyte anergy namespace: biological_process def: "Any process contributing to lymphocyte anergy, a state of functional inactivation." [GOC:add] is_a: GO:0002507 ! tolerance induction [Term] id: GO:0002250 name: adaptive immune response namespace: biological_process def: "An immune response based on directed amplification of specific receptors for antigen produced through a somatic diversification process, and allowing for enhanced response to subsequent exposures to the same antigen (immunological memory)." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. synonym: "acquired immune response" EXACT [ISBN:068340007X "Stedman's Medical Dictionary"] xref: Wikipedia:Adaptive_immune_system is_a: GO:0006955 ! immune response [Term] id: GO:0002251 name: organ or tissue specific immune response namespace: biological_process def: "An immune response taking place in an organ or tissues such as the liver, brain, mucosa, or nervous system tissues." [GO_REF:0000022, GOC:jal, GOC:mtg_15nov05] comment: This term was added by GO_REF:0000022. synonym: "immune response in organ or tissue" EXACT [] is_a: GO:0006955 ! immune response [Term] id: GO:0002252 name: immune effector process namespace: biological_process def: "Any process of the immune system that occurs as part of an immune response." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. is_a: GO:0002376 ! immune system process relationship: part_of GO:0006955 ! immune response [Term] id: GO:0002253 name: activation of immune response namespace: biological_process def: "Any process that initiates an immune response." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. is_a: GO:0002376 ! immune system process is_a: GO:0050778 ! positive regulation of immune response [Term] id: GO:0002254 name: kinin cascade namespace: biological_process def: "A series of reactions that takes place outside the cell that occur as a result of by-products of tissue damage, including collagen, cartilage, and basement membrane. The ultimate product of the kinin cascade include kallidin and bradykinin, agents known to induce smooth muscle contraction, vasoconstriction, and increased vascular permeability." [GOC:jal, ISBN:0721601871, PMID:11842287, PMID:14501145] is_a: GO:0002526 ! acute inflammatory response [Term] id: GO:0002255 name: tissue kallikrein-kinin cascade namespace: biological_process def: "A series of reactions that takes place outside the cell initiated by the action of tissue (glandular) kallikreins on low molecular weight kininogen in response to tissue damage. Tissue kallikreins are present in glandular tissues and their fluids, such as the salivary glands, sweat glands, pancreas, and kidney. The ultimate products of the tissue kallikrein-kinin cascade include kallidin and bradykinin, agents known to induce smooth muscle contraction, vasoconstriction, and increased vascular permeability." [GOC:add, PMID:11842287, PMID:14501145] synonym: "glandular kallikrein-kinin cascade" EXACT [] is_a: GO:0002254 ! kinin cascade [Term] id: GO:0002256 name: regulation of kinin cascade namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of the kinin cascade." [GOC:jal] is_a: GO:0002673 ! regulation of acute inflammatory response intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002254 ! kinin cascade relationship: regulates GO:0002254 ! kinin cascade [Term] id: GO:0002257 name: negative regulation of kinin cascade namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate, or extent of the kinin cascade." [GOC:jal] synonym: "down regulation of kinin cascade" EXACT [] synonym: "down-regulation of kinin cascade" EXACT [] synonym: "downregulation of kinin cascade" EXACT [] synonym: "inhibition of kinin cascade" NARROW [] is_a: GO:0002256 ! regulation of kinin cascade is_a: GO:0002674 ! negative regulation of acute inflammatory response intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002254 ! kinin cascade relationship: negatively_regulates GO:0002254 ! kinin cascade [Term] id: GO:0002258 name: positive regulation of kinin cascade namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of the kinin cascade." [GOC:jal] synonym: "activation of kinin cascade" NARROW [] synonym: "stimulation of kinin cascade" NARROW [] synonym: "up regulation of kinin cascade" EXACT [] synonym: "up-regulation of kinin cascade" EXACT [] synonym: "upregulation of kinin cascade" EXACT [] is_a: GO:0002256 ! regulation of kinin cascade is_a: GO:0002675 ! positive regulation of acute inflammatory response intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002254 ! kinin cascade relationship: positively_regulates GO:0002254 ! kinin cascade [Term] id: GO:0002259 name: endothelial cell activation within high endothelial venule involved in immune response namespace: biological_process def: "A change in the morphology or behavior of an endothelial cell within a high endothelial venule resulting from exposure to an activating factor such as a cellular or soluble ligand, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "endothelial cell activation within high endothelial venule during immune response" RELATED [GOC:tb] is_a: GO:0002264 ! endothelial cell activation involved in immune response [Term] id: GO:0002260 name: lymphocyte homeostasis namespace: biological_process def: "The process of regulating the proliferation and elimination of lymphocytes such that the total number of lymphocytes within a whole or part of an organism is stable over time in the absence of an outside stimulus." [GOC:add, PMID:15826826, PMID:16319493, PMID:16551252, PMID:16551262] is_a: GO:0001776 ! leukocyte homeostasis [Term] id: GO:0002261 name: mucosal lymphocyte homeostasis namespace: biological_process def: "The process of regulating the proliferation and elimination of lymphocytes such that the total number of lymphocytes within the mucosal tissue of an organism is stable over time in the absence of an outside stimulus." [GOC:add, PMID:15609020] is_a: GO:0002260 ! lymphocyte homeostasis [Term] id: GO:0002262 name: myeloid cell homeostasis namespace: biological_process def: "The process of regulating the proliferation and elimination of myeloid cells such that the total number of myeloid cells within a whole or part of an organism is stable over time in the absence of an outside stimulus." [GOC:add] is_a: GO:0001776 ! leukocyte homeostasis [Term] id: GO:0002263 name: cell activation involved in immune response namespace: biological_process def: "A change in the morphology or behavior of a cell resulting from exposure to an activating factor such as a cellular or soluble ligand, leading to the initiation or perpetuation of an immune response." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. synonym: "cell activation during immune response" RELATED [GOC:tb] is_a: GO:0001775 ! cell activation relationship: part_of GO:0006955 ! immune response [Term] id: GO:0002264 name: endothelial cell activation involved in immune response namespace: biological_process def: "A change in the morphology or behavior of an endothelial cell resulting from exposure to an activating factor such as a cellular or soluble ligand, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "endothelial cell activation during immune response" RELATED [GOC:tb] is_a: GO:0002263 ! cell activation involved in immune response is_a: GO:0042118 ! endothelial cell activation [Term] id: GO:0002265 name: astrocyte activation involved in immune response namespace: biological_process def: "A change in the morphology or behavior of an astrocyte resulting from exposure to an activating factor such as a cellular or soluble ligand, leading to the initiation or perpetuation of an immune response." [GOC:add, PMID:11138785] synonym: "astrocyte activation during immune response" RELATED [GOC:tb] is_a: GO:0002263 ! cell activation involved in immune response is_a: GO:0048143 ! astrocyte activation [Term] id: GO:0002266 name: follicular dendritic cell activation namespace: biological_process def: "A change in the morphology or behavior of a follicular dendritic cell resulting from exposure to an activating factor such as a cellular or soluble ligand." [GOC:add, PMID:15606789] is_a: GO:0001775 ! cell activation [Term] id: GO:0002267 name: follicular dendritic cell activation involved in immune response namespace: biological_process def: "A change in the morphology or behavior of a follicular dendritic cell resulting from exposure to an activating factor such as a cellular or soluble ligand, leading to the initiation or perpetuation of an immune response." [GOC:add, PMID:15606789] synonym: "follicular dendritic cell activation during immune response" RELATED [GOC:tb] is_a: GO:0002263 ! cell activation involved in immune response is_a: GO:0002266 ! follicular dendritic cell activation [Term] id: GO:0002268 name: follicular dendritic cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized precursor cell acquires the specialized features of a follicular dendritic cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002266 ! follicular dendritic cell activation is_a: GO:0030154 ! cell differentiation [Term] id: GO:0002269 name: leukocyte activation involved in inflammatory response namespace: biological_process def: "A change in the morphology or behavior of a leukocyte resulting from exposure to an activating factor such as a cellular or soluble ligand, leading to the initiation or perpetuation of an inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "immune cell activation during inflammatory response" RELATED [] synonym: "leukocyte activation during inflammatory response" RELATED [GOC:tb] is_a: GO:0045321 ! leukocyte activation relationship: part_of GO:0006954 ! inflammatory response [Term] id: GO:0002270 name: plasmacytoid dendritic cell activation namespace: biological_process def: "A change in the morphology or behavior of a plasmacytoid dendritic cell resulting from exposure to an activating factor such as a cellular or soluble ligand." [GOC:add, PMID:15990333, PMID:16174109] is_a: GO:0045321 ! leukocyte activation [Term] id: GO:0002271 name: plasmacytoid dendritic cell activation involved in immune response namespace: biological_process def: "A change in the morphology or behavior of a plasmacytoid dendritic cell resulting from exposure to an activating factor such as a cellular or soluble ligand, leading to the initiation or perpetuation of an immune response." [GOC:add, PMID:15990333, PMID:16174109] synonym: "plasmacytoid dendritic cell activation during immune response" RELATED [GOC:tb] is_a: GO:0002270 ! plasmacytoid dendritic cell activation is_a: GO:0002366 ! leukocyte activation involved in immune response [Term] id: GO:0002272 name: plasmacytoid dendritic cell differentiation involved in immune response namespace: biological_process def: "The process whereby an immature plasmacytoid dendritic cell acquires the specialized features of a mature plasmacytoid dendritic cell contributing to an immune response." [GOC:add, PMID:15990333] synonym: "plasmacytoid dendritic cell differentiation during immune response" RELATED [GOC:dph] is_a: GO:0002271 ! plasmacytoid dendritic cell activation involved in immune response is_a: GO:0002273 ! plasmacytoid dendritic cell differentiation [Term] id: GO:0002273 name: plasmacytoid dendritic cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized hemopoietic precursor cell acquires the specialized features of a plasmacytoid dendritic cell." [GOC:add, PMID:15990333, PMID:16174108] is_a: GO:0002270 ! plasmacytoid dendritic cell activation is_a: GO:0002521 ! leukocyte differentiation [Term] id: GO:0002274 name: myeloid leukocyte activation namespace: biological_process def: "A change in the morphology or behavior of a myeloid leukocyte resulting from exposure to an activating factor such as a cellular or soluble ligand." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "myeloid leucocyte activation" EXACT [] is_a: GO:0045321 ! leukocyte activation [Term] id: GO:0002275 name: myeloid cell activation involved in immune response namespace: biological_process def: "A change in the morphology or behavior of a myeloid cell resulting from exposure to an activating factor such as a cellular or soluble ligand, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "myeloid cell activation during immune response" RELATED [GOC:tb] is_a: GO:0002274 ! myeloid leukocyte activation is_a: GO:0002366 ! leukocyte activation involved in immune response [Term] id: GO:0002276 name: basophil activation involved in immune response namespace: biological_process def: "A change in morphology and behavior of a basophil resulting from exposure to a cytokine, chemokine, soluble factor, or to (at least in mammals) an antigen which the basophil has specifically bound via IgE bound to Fc-epsilonRI receptors, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "basophil activation during immune response" RELATED [GOC:tb] is_a: GO:0002275 ! myeloid cell activation involved in immune response is_a: GO:0045575 ! basophil activation [Term] id: GO:0002277 name: myeloid dendritic cell activation involved in immune response namespace: biological_process def: "The change in morphology and behavior of a myeloid dendritic cell resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "myeloid dendritic cell activation during immune response" RELATED [GOC:tb] is_a: GO:0001773 ! myeloid dendritic cell activation is_a: GO:0002275 ! myeloid cell activation involved in immune response [Term] id: GO:0002278 name: eosinophil activation involved in immune response namespace: biological_process def: "The change in morphology and behavior of a eosinophil resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "eosinophil activation during immune response" RELATED [GOC:tb] is_a: GO:0002275 ! myeloid cell activation involved in immune response is_a: GO:0043307 ! eosinophil activation [Term] id: GO:0002279 name: mast cell activation involved in immune response namespace: biological_process def: "The change in morphology and behavior of a mast cell resulting from exposure to a cytokine, chemokine, soluble factor, or to (at least in mammals) an antigen which the mast cell has specifically bound via IgE bound to Fc-epsilonRI receptors, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "mast cell activation during immune response" RELATED [GOC:tb] is_a: GO:0002275 ! myeloid cell activation involved in immune response is_a: GO:0045576 ! mast cell activation [Term] id: GO:0002280 name: monocyte activation involved in immune response namespace: biological_process def: "The change in morphology and behavior of a monocyte resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:16551245] synonym: "monocyte activation during immune response" RELATED [GOC:tb] is_a: GO:0002275 ! myeloid cell activation involved in immune response is_a: GO:0042117 ! monocyte activation [Term] id: GO:0002281 name: macrophage activation involved in immune response namespace: biological_process def: "A change in morphology and behavior of a macrophage resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "macrophage activation during immune response" RELATED [GOC:tb] is_a: GO:0002275 ! myeloid cell activation involved in immune response is_a: GO:0042116 ! macrophage activation [Term] id: GO:0002282 name: microglial cell activation involved in immune response namespace: biological_process def: "The change in morphology and behavior of a microglial cell resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "microglial cell activation during immune response" RELATED [GOC:tb] is_a: GO:0001774 ! microglial cell activation is_a: GO:0002281 ! macrophage activation involved in immune response [Term] id: GO:0002283 name: neutrophil activation involved in immune response namespace: biological_process def: "The change in morphology and behavior of a neutrophil resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "neutrophil activation during immune response" RELATED [GOC:tb] is_a: GO:0002275 ! myeloid cell activation involved in immune response is_a: GO:0042119 ! neutrophil activation [Term] id: GO:0002284 name: myeloid dendritic cell differentiation involved in immune response namespace: biological_process def: "The process whereby an immature myeloid dendritic cell acquires the specialized features of a mature myeloid dendritic cell as part of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "myeloid dendritic cell differentiation during immune response" RELATED [GOC:tb] is_a: GO:0002277 ! myeloid dendritic cell activation involved in immune response is_a: GO:0043011 ! myeloid dendritic cell differentiation [Term] id: GO:0002285 name: lymphocyte activation involved in immune response namespace: biological_process def: "A change in morphology and behavior of a lymphocyte resulting from exposure to a specific antigen, mitogen, cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "lymphocyte activation during immune response" RELATED [GOC:tb] is_a: GO:0002366 ! leukocyte activation involved in immune response is_a: GO:0046649 ! lymphocyte activation [Term] id: GO:0002286 name: T cell activation involved in immune response namespace: biological_process def: "The change in morphology and behavior of a mature or immature T cell resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "T cell activation during immune response" RELATED [GOC:tb] synonym: "T lymphocyte activation during immune response" RELATED [] synonym: "T-cell activation during immune response" RELATED [] synonym: "T-lymphocyte activation during immune response" RELATED [] is_a: GO:0002285 ! lymphocyte activation involved in immune response is_a: GO:0042110 ! T cell activation [Term] id: GO:0002287 name: alpha-beta T cell activation involved in immune response namespace: biological_process def: "The change in morphology and behavior of an alpha-beta T cell resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "alpha-beta T cell activation during immune response" RELATED [GOC:tb] synonym: "alpha-beta T lymphocyte activation during immune response" RELATED [] synonym: "alpha-beta T-cell activation during immune response" RELATED [] synonym: "alpha-beta T-lymphocyte activation during immune response" RELATED [] is_a: GO:0002286 ! T cell activation involved in immune response is_a: GO:0046631 ! alpha-beta T cell activation [Term] id: GO:0002288 name: NK T cell activation involved in immune response namespace: biological_process def: "The change in morphology and behavior of a mature or immature natural killer T cell resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific, leading to the initiation or perpetuation of an immune response." [GOC:add, PMID:15771592] synonym: "natural killer T lymphocyte activation during immune response" RELATED [] synonym: "natural killer T-cell activation during immune response" RELATED [] synonym: "natural killer T-lymphocyte activation during immune response" RELATED [] synonym: "NK T cell activation during immune response" RELATED [GOC:tb] synonym: "NK T lymphocyte activation during immune response" RELATED [] synonym: "NK T-cell activation during immune response" RELATED [] synonym: "NK T-lymphocyte activation during immune response" RELATED [] is_a: GO:0002287 ! alpha-beta T cell activation involved in immune response is_a: GO:0051132 ! NK T cell activation [Term] id: GO:0002289 name: NK T cell proliferation involved in immune response namespace: biological_process def: "The expansion of a NK T cell population by cell division as part of an immune response." [GOC:add, PMID:15771592] synonym: "natural killer T lymphocyte proliferation during immune response" RELATED [] synonym: "natural killer T-cell proliferation during immune response" RELATED [] synonym: "natural killer T-lymphocyte proliferation during immune response" RELATED [] synonym: "NK T cell proliferation during immune response" RELATED [GOC:tb] synonym: "NK T lymphocyte proliferation during immune response" RELATED [] synonym: "NK T-cell proliferation during immune response" RELATED [] synonym: "NK T-lymphocyte proliferation during immune response" RELATED [] is_a: GO:0001866 ! NK T cell proliferation is_a: GO:0002288 ! NK T cell activation involved in immune response is_a: GO:0002310 ! alpha-beta T cell proliferation involved in immune response [Term] id: GO:0002290 name: gamma-delta T cell activation involved in immune response namespace: biological_process def: "The change in morphology and behavior of a gamma-delta T cell resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific, leading to the initiation or perpetuation of an immune response." [GOC:add, PMID:8717523] synonym: "gamma-delta T cell activation during immune response" RELATED [GOC:tb] synonym: "gamma-delta T lymphocyte activation during immune response" RELATED [] synonym: "gamma-delta T-cell activation during immune response" RELATED [] synonym: "gamma-delta T-lymphocyte activation during immune response" RELATED [] is_a: GO:0002286 ! T cell activation involved in immune response is_a: GO:0046629 ! gamma-delta T cell activation [Term] id: GO:0002291 name: T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell namespace: biological_process def: "The change in morphology and behavior of a mature or immature T cell resulting from exposure to an antigen for which its T cell receptor is specific bound to an MHC molecule on an antigen presenting cell, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "T lymphocyte activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell" EXACT [] synonym: "T-cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell" EXACT [] synonym: "T-lymphocyte activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell" EXACT [] is_a: GO:0002286 ! T cell activation involved in immune response [Term] id: GO:0002292 name: T cell differentiation involved in immune response namespace: biological_process def: "The process whereby an antigenically nave T cell acquires the specialized features of an effector, regulatory, or memory T cell as part of an immune response. Effector T cells include cells which provide T cell help or exhibit cytotoxicity towards other cells." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "T cell differentiation during immune response" RELATED [GOC:tb] synonym: "T lymphocyte differentiation during immune response" RELATED [] synonym: "T-cell differentiation during immune response" RELATED [] synonym: "T-lymphocyte differentiation during immune response" RELATED [] is_a: GO:0002286 ! T cell activation involved in immune response is_a: GO:0030217 ! T cell differentiation [Term] id: GO:0002293 name: alpha-beta T cell differentiation involved in immune response namespace: biological_process def: "The process whereby an antigenically nave alpha-beta T cell acquires the specialized features of an effector, regulatory, or memory T cell during an immune response. Effector T cells include cells which provide T cell help or exhibit cytotoxicity towards other cells." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "alpha-beta T cell differentiation during immune response" RELATED [GOC:tb] synonym: "alpha-beta T lymphocyte differentiation during immune response" RELATED [] synonym: "alpha-beta T-cell differentiation during immune response" RELATED [] synonym: "alpha-beta T-lymphocyte differentiation during immune response" RELATED [] is_a: GO:0002287 ! alpha-beta T cell activation involved in immune response is_a: GO:0002292 ! T cell differentiation involved in immune response is_a: GO:0046632 ! alpha-beta T cell differentiation [Term] id: GO:0002294 name: CD4-positive, alpha-beta T cell differentiation involved in immune response namespace: biological_process def: "The process whereby an antigenically nave CD4-positive, alpha-beta T cell acquires the specialized features of an effector, regulatory, or memory T cell as part of an immune response. Effector T cells include cells which provide T cell help or exhibit cytotoxicity towards other cells." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "CD4-positive, alpha-beta T cell differentiation during immune response" RELATED [GOC:tb] synonym: "CD4-positive, alpha-beta T lymphocyte differentiation during immune response" RELATED [] synonym: "CD4-positive, alpha-beta T-cell differentiation during immune response" RELATED [] synonym: "CD4-positive, alpha-beta T-lymphocyte differentiation during immune response" RELATED [] is_a: GO:0002293 ! alpha-beta T cell differentiation involved in immune response is_a: GO:0043367 ! CD4-positive, alpha beta T cell differentiation [Term] id: GO:0002295 name: T-helper cell lineage commitment namespace: biological_process def: "The process whereby a CD4-positive, alpha-beta T cell becomes committed to becoming a T-helper cell, a CD4-positive, alpha-beta T cell specialized to promote various immunological processes." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "T-helper cell fate commitment" EXACT [] synonym: "Th0 lineage commitment" RELATED [ISBN:0781735149 "Fundamental Immunology"] synonym: "Thp lineage commitment" RELATED [ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002360 ! T cell lineage commitment relationship: part_of GO:0042093 ! T-helper cell differentiation [Term] id: GO:0002296 name: T-helper 1 cell lineage commitment namespace: biological_process def: "The process whereby a CD4-positive, alpha-beta T cell becomes committed to becoming a T-helper 1 cell, a CD4-positive, alpha-beta T cell specialized to promote immunological processes often associated with resistance to intracellular bacteria, fungi, and protozoa, and pathological conditions such as arthritis." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "T-helper 1 cell fate commitment" EXACT [ISBN:0781735149 "Fundamental Immunology"] synonym: "Th1 cell lineage commitment" EXACT [ISBN:0781735149 "Fundamental Immunology"] synonym: "Th1 fate commitment" EXACT [ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002295 ! T-helper cell lineage commitment relationship: part_of GO:0045063 ! T-helper 1 cell differentiation [Term] id: GO:0002297 name: T-helper 2 cell lineage commitment namespace: biological_process def: "The process whereby a CD4-positive, alpha-beta T cell becomes committed to becoming a T-helper 2 cell, a CD4-positive, alpha-beta T cell specialized to promote immunological processes often associated with resistance to extracellular organisms such as helminths, enhanced production of particular antibody isotypes, and pathological conditions such as allergy." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "T-helper 2 cell fate commitment" EXACT [ISBN:0781735149 "Fundamental Immunology"] synonym: "Th2 fate commitment" EXACT [ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002295 ! T-helper cell lineage commitment relationship: part_of GO:0045064 ! T-helper 2 cell differentiation [Term] id: GO:0002298 name: CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation involved in immune response namespace: biological_process def: "The process whereby an antigenically nave CD4-positive, alpha-beta T cell acquires the specialized features of a CD4-positive, CD25-positive, alpha-beta regulatory T cell as part of an immune response." [GOC:add, PMID:12093005] synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation during immune response" RELATED [GOC:tb] synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T lymphocyte differentiation during immune response" RELATED [] synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T-cell differentiation during immune response" RELATED [] synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T-lymphocyte differentiation during immune response" RELATED [] is_a: GO:0002294 ! CD4-positive, alpha-beta T cell differentiation involved in immune response is_a: GO:0002361 ! CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation [Term] id: GO:0002299 name: alpha-beta intraepithelial T cell differentiation namespace: biological_process def: "The process whereby a precursor cell type acquires the specialized features of an alpha-beta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "alpha-beta intraepithelial T lymphocyte differentiation" EXACT [] synonym: "alpha-beta intraepithelial T-cell differentiation" EXACT [] synonym: "alpha-beta intraepithelial T-lymphocyte differentiation" EXACT [] is_a: GO:0046632 ! alpha-beta T cell differentiation [Term] id: GO:0002300 name: CD8-positive, alpha-beta intraepithelial T cell differentiation namespace: biological_process def: "The process whereby a precursor cell type acquires the specialized features of a CD8-positive, alpha-beta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "CD8-positive, alpha-beta intraepithelial T lymphocyte differentiation" EXACT [] synonym: "CD8-positive, alpha-beta intraepithelial T-cell differentiation" EXACT [] synonym: "CD8-positive, alpha-beta intraepithelial T-lymphocyte differentiation" EXACT [] is_a: GO:0002299 ! alpha-beta intraepithelial T cell differentiation is_a: GO:0043374 ! CD8-positive, alpha-beta T cell differentiation [Term] id: GO:0002301 name: CD4-positive, alpha-beta intraepithelial T cell differentiation namespace: biological_process def: "The process whereby a precursor cell type acquires the specialized features of a CD4-positive, alpha-beta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "CD4-positive, alpha-beta intraepithelial T lymphocyte differentiation" EXACT [] synonym: "CD4-positive, alpha-beta intraepithelial T-cell differentiation" EXACT [] synonym: "CD4-positive, alpha-beta intraepithelial T-lymphocyte differentiation" EXACT [] is_a: GO:0002299 ! alpha-beta intraepithelial T cell differentiation is_a: GO:0043367 ! CD4-positive, alpha beta T cell differentiation [Term] id: GO:0002302 name: CD8-positive, alpha-beta T cell differentiation involved in immune response namespace: biological_process def: "The process whereby an antigenically nave CD8-positive, alpha-beta T cell acquires the specialized features of an effector, regulatory, or memory T cell as part of an immune response. Effector T cells include cells which provide T cell help or exhibit cytotoxicity towards other cells." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "CD8-positive, alpha-beta T cell differentiation during immune response" RELATED [GOC:tb] synonym: "CD8-positive, alpha-beta T lymphocyte differentiation during immune response" RELATED [] synonym: "CD8-positive, alpha-beta T-cell differentiation during immune response" RELATED [] synonym: "CD8-positive, alpha-beta T-lymphocyte differentiation during immune response" RELATED [] is_a: GO:0002293 ! alpha-beta T cell differentiation involved in immune response is_a: GO:0043374 ! CD8-positive, alpha-beta T cell differentiation [Term] id: GO:0002303 name: gamma-delta T cell differentiation involved in immune response namespace: biological_process def: "The process whereby an antigenically nave gamma-delta T cell acquires the specialized features of an effector, regulatory, or memory T cell and contributes to an immune response. Effector T cells include cells which provide T cell help or exhibit cytotoxicity towards other cells." [GOC:add] synonym: "gamma-delta T cell differentiation during immune response" RELATED [GOC:dph] synonym: "gamma-delta T lymphocyte differentiation during immune response" RELATED [] synonym: "gamma-delta T-cell differentiation during immune response" RELATED [] synonym: "gamma-delta T-lymphocyte differentiation during immune response" RELATED [] is_a: GO:0002290 ! gamma-delta T cell activation involved in immune response is_a: GO:0002292 ! T cell differentiation involved in immune response is_a: GO:0042492 ! gamma-delta T cell differentiation [Term] id: GO:0002304 name: gamma-delta intraepithelial T cell differentiation namespace: biological_process def: "The process whereby a precursor cell type acquires the specialized features of a gamma-delta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "gamma-delta intraepithelial T lymphocyte differentiation" EXACT [] synonym: "gamma-delta intraepithelial T-cell differentiation" EXACT [] synonym: "gamma-delta intraepithelial T-lymphocyte differentiation" EXACT [] is_a: GO:0042492 ! gamma-delta T cell differentiation [Term] id: GO:0002305 name: CD8-positive, gamma-delta intraepithelial T cell differentiation namespace: biological_process def: "The process whereby a precursor cell type acquires the specialized features of a CD8-positive, gamma-delta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "CD8-positive, gamma-delta intraepithelial T lymphocyte differentiation" EXACT [] synonym: "CD8-positive, gamma-delta intraepithelial T-cell differentiation" EXACT [] synonym: "CD8-positive, gamma-delta intraepithelial T-lymphocyte differentiation" EXACT [] is_a: GO:0002304 ! gamma-delta intraepithelial T cell differentiation [Term] id: GO:0002306 name: CD4-positive gamma-delta intraepithelial T cell differentiation namespace: biological_process def: "The process whereby a precursor cell type acquires the specialized features of a CD4-positive, gamma-delta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "CD4-positive, gamma-delta intraepithelial T lymphocyte differentiation" EXACT [] synonym: "CD4-positive, gamma-delta intraepithelial T-cell differentiation" EXACT [] synonym: "CD4-positive, gamma-delta intraepithelial T-lymphocyte differentiation" EXACT [] is_a: GO:0002304 ! gamma-delta intraepithelial T cell differentiation [Term] id: GO:0002307 name: CD8-positive, alpha-beta regulatory T cell differentiation namespace: biological_process def: "The process whereby a precursor cell type acquires the specialized features of a CD8-positive, alpha-beta regulatory T cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "CD8-positive, alpha-beta regulatory T lymphocyte differentiation" EXACT [] synonym: "CD8-positive, alpha-beta regulatory T-cell differentiation" EXACT [] synonym: "CD8-positive, alpha-beta regulatory T-lymphocyte differentiation" EXACT [] is_a: GO:0043374 ! CD8-positive, alpha-beta T cell differentiation is_a: GO:0045066 ! regulatory T cell differentiation [Term] id: GO:0002308 name: CD8-positive, alpha-beta cytotoxic T cell differentiation namespace: biological_process def: "The process whereby a precursor cell type acquires the specialized features of a CD8-positive, alpha-beta cytotoxic T cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "CD8-positive, alpha-beta cytotoxic T lymphocyte differentiation" EXACT [] synonym: "CD8-positive, alpha-beta cytotoxic T-cell differentiation" EXACT [] synonym: "CD8-positive, alpha-beta cytotoxic T-lymphocyte differentiation" EXACT [] is_a: GO:0043374 ! CD8-positive, alpha-beta T cell differentiation is_a: GO:0045065 ! cytotoxic T cell differentiation [Term] id: GO:0002309 name: T cell proliferation involved in immune response namespace: biological_process def: "The expansion of a T cell population by cell division as part of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "T cell proliferation during immune response" RELATED [GOC:tb] synonym: "T lymphocyte proliferation during immune response" RELATED [] synonym: "T-cell proliferation during immune response" RELATED [] synonym: "T-lymphocyte proliferation during immune response" RELATED [] is_a: GO:0002286 ! T cell activation involved in immune response is_a: GO:0042098 ! T cell proliferation [Term] id: GO:0002310 name: alpha-beta T cell proliferation involved in immune response namespace: biological_process def: "The expansion of an alpha-beta T cell population by cell division as part of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "alpha-beta T cell proliferation during immune response" RELATED [GOC:tb] synonym: "alpha-beta T lymphocyte proliferation during immune response" RELATED [] synonym: "alpha-beta T-cell proliferation during immune response" RELATED [] synonym: "alpha-beta T-lymphocyte proliferation during immune response" RELATED [] is_a: GO:0002287 ! alpha-beta T cell activation involved in immune response is_a: GO:0002309 ! T cell proliferation involved in immune response is_a: GO:0046633 ! alpha-beta T cell proliferation [Term] id: GO:0002311 name: gamma-delta T cell proliferation involved in immune response namespace: biological_process def: "The expansion of a gamma-delta T cell population by cell division as part of an immune response." [GOC:add] synonym: "gamma-delta T cell proliferation during immune response" RELATED [GOC:tb] synonym: "gamma-delta T lymphocyte proliferation during immune response" RELATED [] synonym: "gamma-delta T-cell proliferation during immune response" RELATED [] synonym: "gamma-delta T-lymphocyte proliferation during immune response" RELATED [] is_a: GO:0002290 ! gamma-delta T cell activation involved in immune response is_a: GO:0002309 ! T cell proliferation involved in immune response is_a: GO:0046630 ! gamma-delta T cell proliferation [Term] id: GO:0002312 name: B cell activation involved in immune response namespace: biological_process def: "The change in morphology and behavior of a mature or immature B cell during an immune response, resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific." [GOC:jal] synonym: "B cell activation during immune response" RELATED [GOC:tb] synonym: "B lymphocyte activation during immune response" RELATED [] synonym: "B-cell activation during immune response" RELATED [] synonym: "B-lymphocyte activation during immune response" RELATED [] is_a: GO:0002285 ! lymphocyte activation involved in immune response is_a: GO:0042113 ! B cell activation [Term] id: GO:0002313 name: mature B cell differentiation involved in immune response namespace: biological_process def: "The process whereby a nave B cell acquires the specialized features of a mature or memory B cell during an immune response." [GOC:jal] synonym: "mature B cell differentiation during immune response" RELATED [GOC:tb] synonym: "mature B lymphocyte differentiation during immune response" RELATED [] synonym: "mature B-cell differentiation during immune response" RELATED [] synonym: "mature B-lymphocyte differentiation during immune response" RELATED [] is_a: GO:0002312 ! B cell activation involved in immune response is_a: GO:0002335 ! mature B cell differentiation [Term] id: GO:0002314 name: germinal center B cell differentiation namespace: biological_process def: "The process whereby a B cell in the spleen acquires the specialized features of a germinal center B cell. Germinal center B cells are rapidly cycling B cells which have downregulated IgD expression and exhibit high levels of binding by peanut agglutinin (PNA)." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "germinal center B lymphocyte differentiation" EXACT [] synonym: "germinal center B-cell differentiation" EXACT [] synonym: "germinal center B-lymphocyte differentiation" EXACT [] is_a: GO:0002313 ! mature B cell differentiation involved in immune response [Term] id: GO:0002315 name: marginal zone B cell differentiation namespace: biological_process def: "The process whereby a B cell in the spleen acquires the specialized features of a marginal zone B cell. Marginal zone B cells are localized in a distinct anatomical region of the spleen that represents the major antigen-filtering and scavenging area (by specialized macrophages resident there). It appears that they are preselected to express a BCR repertoire similar to B-1 B cells, biased toward bacterial cell wall constituents and senescent self-components (such as oxidized LDL)." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "marginal zone B lymphocyte differentiation" EXACT [] synonym: "marginal zone B-cell differentiation" EXACT [] synonym: "marginal zone B-lymphocyte differentiation" EXACT [] is_a: GO:0002313 ! mature B cell differentiation involved in immune response [Term] id: GO:0002316 name: follicular B cell differentiation namespace: biological_process def: "The process whereby a B cell in the spleen acquires the specialized features of a follicular B cell. Follicular B cells are major population of mature recirculating B cells in the spleen and are located in the B-cell follicle region." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "follicular B lymphocyte differentiation" EXACT [] synonym: "follicular B-cell differentiation" EXACT [] synonym: "follicular B-lymphocyte differentiation" EXACT [] is_a: GO:0002313 ! mature B cell differentiation involved in immune response [Term] id: GO:0002317 name: plasma cell differentiation namespace: biological_process def: "The process whereby a B cell acquires the specialized features of a plasma cell. A plasma cell is a lymphocyte which develops from a B cell and produces high amounts of antibody." [GOC:jal] is_a: GO:0002313 ! mature B cell differentiation involved in immune response [Term] id: GO:0002318 name: myeloid progenitor cell differentiation namespace: biological_process def: "The process whereby a precursor cell type acquires the specialized features of a myeloid progenitor cell. Myeloid progenitor cells include progenitor cells for any of the myeloid lineages." [GOC:add, PMID:16551264] is_a: GO:0002244 ! hemopoietic progenitor cell differentiation [Term] id: GO:0002319 name: memory B cell differentiation namespace: biological_process def: "The process whereby a B cell acquires the specialized features of a memory B cell. Memory B cells are cells that can respond rapidly to antigen re-exposure by production of high-affinity antibody." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "memory B lymphocyte differentiation" EXACT [] synonym: "memory B-cell differentiation" EXACT [] synonym: "memory B-lymphocyte differentiation" EXACT [] is_a: GO:0002313 ! mature B cell differentiation involved in immune response [Term] id: GO:0002320 name: lymphoid progenitor cell differentiation namespace: biological_process def: "The process whereby a precursor cell type acquires the specialized features of a lymphoid progenitor cell. Lymphoid progenitor cells include progenitor cells for any of the lymphoid lineages." [GOC:add, PMID:16551251, PMID:16551264] is_a: GO:0002244 ! hemopoietic progenitor cell differentiation [Term] id: GO:0002321 name: natural killer cell progenitor differentiation namespace: biological_process def: "The process whereby a precursor cell type acquires the specialized features of a natural killer cell progenitor." [GOC:add, PMID:16551251, PMID:16551264] is_a: GO:0002320 ! lymphoid progenitor cell differentiation [Term] id: GO:0002322 name: B cell proliferation involved in immune response namespace: biological_process def: "The expansion of a B cell population by cell division following B cell activation during an immune response." [GOC:jal] synonym: "B cell proliferation during immune response" RELATED [GOC:tb] synonym: "B lymphocyte proliferation during immune response" RELATED [] synonym: "B-cell proliferation during immune response" RELATED [] synonym: "B-lymphocyte proliferation during immune response" RELATED [] is_a: GO:0002312 ! B cell activation involved in immune response is_a: GO:0042100 ! B cell proliferation [Term] id: GO:0002323 name: natural killer cell activation involved in immune response namespace: biological_process def: "The change in morphology and behavior of a natural killer cell resulting from exposure a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, PMID:15032583] synonym: "natural killer cell activation during immune response" RELATED [GOC:tb] synonym: "NK cell activation during immune response" RELATED [] is_a: GO:0002285 ! lymphocyte activation involved in immune response is_a: GO:0030101 ! natural killer cell activation [Term] id: GO:0002324 name: natural killer cell proliferation involved in immune response namespace: biological_process def: "The expansion of a natural killer cell population by cell division as part of an immune response." [GOC:add, PMID:15032583] synonym: "natural killer cell proliferation during immune response" RELATED [GOC:tb] synonym: "NK cell proliferation during immune response" RELATED [] is_a: GO:0001787 ! natural killer cell proliferation is_a: GO:0002323 ! natural killer cell activation involved in immune response [Term] id: GO:0002325 name: natural killer cell differentiation involved in immune response namespace: biological_process def: "The process whereby a nave natural killer cell acquires the specialized features of an effector natural killer T cell as part of an immune response." [GOC:add, PMID:11698225] synonym: "natural killer cell differentiation during immune response" RELATED [GOC:tb] synonym: "NK cell differentiation during immune response" RELATED [] is_a: GO:0001779 ! natural killer cell differentiation is_a: GO:0002323 ! natural killer cell activation involved in immune response [Term] id: GO:0002326 name: B cell lineage commitment namespace: biological_process def: "The process whereby a lymphoid progenitor cell becomes committed to become any type of B cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "B lymphocyte lineage commitment" EXACT [] synonym: "B-cell lineage commitment" EXACT [] synonym: "B-lymphocyte lineage commitment" EXACT [] is_a: GO:0045165 ! cell fate commitment relationship: part_of GO:0030183 ! B cell differentiation [Term] id: GO:0002327 name: immature B cell differentiation namespace: biological_process def: "The process whereby a precursor cell type acquires the specialized features of an immature B cell." [GOC:jal, ISBN:0781735149 "Fundamental Immunology", PMID:16551251] synonym: "immature B lymphocyte differentiation" EXACT [] synonym: "immature B-cell differentiation" EXACT [] synonym: "immature B-lymphocyte differentiation" EXACT [] is_a: GO:0030183 ! B cell differentiation [Term] id: GO:0002328 name: pro-B cell differentiation namespace: biological_process def: "The process whereby a precursor cell type acquires the specialized features of a pro-B cell. Pro-B cells are the earliest stage of the B cell lineage and undergo heavy chain D and J gene rearrangements, although they are not fully committed." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "pro-B lymphocyte differentiation" EXACT [] is_a: GO:0002320 ! lymphoid progenitor cell differentiation [Term] id: GO:0002329 name: pre-B cell differentiation namespace: biological_process def: "The process whereby a precursor cell type acquires the specialized features of a pre-B cell. Pre-B cells follow the pro-B cell stage of immature B cell differentiation and undergo rearrangement of heavy chain V, D, and J gene segments." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "pre-B lymphocyte differentiation" EXACT [] is_a: GO:0002327 ! immature B cell differentiation [Term] id: GO:0002330 name: pre-B cell receptor expression namespace: biological_process def: "The process leading up to expression of the pre-B cell receptor on the surface of pre-B cells, including expression of the surrogate light chain, association of the surrogate light chain with heavy chain, and expression of the complete pre-B cell receptor on the cell surface." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002329 ! pre-B cell differentiation [Term] id: GO:0002331 name: pre-B cell allelic exclusion namespace: biological_process def: "Expression of a single heavy chain allele during pre-B cell differentiation." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "pre-B lymphocyte allelic exclusion" EXACT [] is_a: GO:0002329 ! pre-B cell differentiation [Term] id: GO:0002332 name: transitional stage B cell differentiation namespace: biological_process def: "The process whereby immature B cells from the bone marrow become mature B cells in the spleen. Transitional stage B cells are subdivided into transitional one (T1) and transitional two (T2) stages and are short-lived and functionally incompetent." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "transitional stage B lymphocyte differentiation" EXACT [] synonym: "transitional stage B-cell differentiation" EXACT [] synonym: "transitional stage B-lymphocyte differentiation" EXACT [] is_a: GO:0002327 ! immature B cell differentiation [Term] id: GO:0002333 name: transitional one stage B cell differentiation namespace: biological_process def: "The process whereby immature B cells from the bone marrow acquire the specialized features of T1 stage B cells in the spleen. T1 stage B cells do not express either CD23 or CD21." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "T1 stage B cell differentiation" EXACT [] synonym: "transitional one stage B lymphocyte differentiation" EXACT [] synonym: "transitional one stage B-cell differentiation" EXACT [] synonym: "transitional one stage B-lymphocyte differentiation" EXACT [] is_a: GO:0002332 ! transitional stage B cell differentiation [Term] id: GO:0002334 name: transitional two stage B cell differentiation namespace: biological_process def: "The process whereby immature B cells from the bone marrow acquire the specialized features of T2 stage B cells in the spleen. T2 stage B cells express CD23 but not CD21." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "T2 stage B cell differentiation" EXACT [] synonym: "transitional two stage B lymphocyte differentiation" EXACT [] synonym: "transitional two stage B-cell differentiation" EXACT [] synonym: "transitional two stage B-lymphocyte differentiation" EXACT [] is_a: GO:0002332 ! transitional stage B cell differentiation [Term] id: GO:0002335 name: mature B cell differentiation namespace: biological_process def: "The process whereby transitional stage B cells acquire the specialized features of mature B cells in the spleen." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "mature B lymphocyte differentiation" EXACT [] synonym: "mature B-cell differentiation" EXACT [] synonym: "mature B-lymphocyte differentiation" EXACT [] is_a: GO:0030183 ! B cell differentiation [Term] id: GO:0002336 name: B-1 B cell lineage commitment namespace: biological_process def: "The process by which an immature B cell becomes committed to become a B-1 B cell." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "B-1 B lymphocyte lineage commitment" EXACT [] synonym: "B-1 B-cell lineage commitment" EXACT [] synonym: "B-1 B-lymphocyte lineage commitment" EXACT [] is_a: GO:0002326 ! B cell lineage commitment relationship: part_of GO:0001923 ! B-1 B cell differentiation [Term] id: GO:0002337 name: B-1a B cell differentiation namespace: biological_process def: "The process whereby B cells acquire the specialized features of B-1a B cells. B-1a B cells are B-1 cells that express CD5 and arise from fetal liver precursors." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "B-1a B lymphocyte differentiation" EXACT [] synonym: "B-1a B-cell differentiation" EXACT [] synonym: "B-1a B-lymphocyte differentiation" EXACT [] is_a: GO:0001923 ! B-1 B cell differentiation [Term] id: GO:0002338 name: B-1b B cell differentiation namespace: biological_process def: "The process whereby B cells acquire the specialized features of B-1b B cells. B-1b B cells are B-1 cells that do not express CD5." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "B-1b B lymphocyte differentiation" EXACT [] synonym: "B-1b B-cell differentiation" EXACT [] synonym: "B-1b B-lymphocyte differentiation" EXACT [] is_a: GO:0001923 ! B-1 B cell differentiation [Term] id: GO:0002339 name: B cell selection namespace: biological_process def: "The process dependent upon B cell antigen receptor signaling in response to self or foreign antigen through which B cells are selected for survival." [GOC:jal] synonym: "B lymphocyte selection" EXACT [] synonym: "B-cell selection" EXACT [] synonym: "B-lymphocyte selection" EXACT [] is_a: GO:0002376 ! immune system process relationship: part_of GO:0030183 ! B cell differentiation [Term] id: GO:0002340 name: central B cell selection namespace: biological_process def: "Any B cell selection process that occurs in the bone marrow." [GOC:jal] synonym: "central B lymphocyte selection" EXACT [] synonym: "central B-cell selection" EXACT [] synonym: "central B-lymphocyte selection" EXACT [] is_a: GO:0002339 ! B cell selection [Term] id: GO:0002341 name: central B cell anergy namespace: biological_process def: "Any process contributing to anergy, a state of functional inactivation that occurs as part of tolerance induction, in B cells in the bone marrow." [GOC:jal] synonym: "central B lymphocyte anergy" EXACT [] synonym: "central B-cell anergy" EXACT [] synonym: "central B-lymphocyte anergy" EXACT [] is_a: GO:0002515 ! B cell anergy relationship: part_of GO:0002340 ! central B cell selection relationship: part_of GO:0002510 ! central B cell tolerance induction [Term] id: GO:0002342 name: central B cell deletion namespace: biological_process def: "The deletion of B cells by apoptosis occurring as part of central tolerance induction and B cell selection." [GOC:add, GOC:jal] synonym: "central B lymphocyte deletion" EXACT [] synonym: "central B-cell deletion" EXACT [] synonym: "central B-lymphocyte deletion" EXACT [] is_a: GO:0002516 ! B cell deletion relationship: part_of GO:0002340 ! central B cell selection relationship: part_of GO:0002510 ! central B cell tolerance induction [Term] id: GO:0002343 name: peripheral B cell selection namespace: biological_process def: "Any B cell selection process that occurs in the periphery." [GOC:jal] synonym: "peripheral B lymphocyte selection" EXACT [] synonym: "peripheral B-cell selection" EXACT [] synonym: "peripheral B-lymphocyte selection" EXACT [] is_a: GO:0002339 ! B cell selection [Term] id: GO:0002344 name: B cell affinity maturation namespace: biological_process def: "The process by which B cells produce antibodies with increased antigen affinity. This is accomplished by somatic hypermutation and selection for B cells which produce higher affinity antibodies to antigen." [GO_REF:0000022, GOC:jal, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. synonym: "B lymphocyte affinity maturation" EXACT [] synonym: "B-cell affinity maturation" EXACT [] synonym: "B-lymphocyte affinity maturation" EXACT [] is_a: GO:0002343 ! peripheral B cell selection relationship: part_of GO:0002381 ! immunoglobulin production involved in immunoglobulin mediated immune response [Term] id: GO:0002345 name: peripheral B cell receptor editing namespace: biological_process def: "The process that takes place mainly in germinal center B cells in which a large number of mutations are generated in the heavy chain and light chain V-region genes and their immediately surrounding introns in order to increase antibody diversity and contribute to affinity maturation." [GOC:jal] synonym: "peripheral B lymphocyte receptor editing" EXACT [] synonym: "peripheral B-cell receptor editing" EXACT [] synonym: "peripheral B-lymphocyte receptor editing" EXACT [] is_a: GO:0002452 ! B cell receptor editing [Term] id: GO:0002346 name: B cell positive selection namespace: biological_process def: "Any process by which B cells are selected to survive based on signaling through the B cell antigen receptor." [GOC:jal] synonym: "B lymphocyte positive selection" EXACT [] synonym: "B-cell positive selection" EXACT [] synonym: "B-lymphocyte positive selection" EXACT [] is_a: GO:0002339 ! B cell selection [Term] id: GO:0002347 name: response to tumor cell namespace: biological_process def: "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 stimulus from a tumor cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:16730260] is_a: GO:0009607 ! response to biotic stimulus [Term] id: GO:0002348 name: central B cell positive selection namespace: biological_process def: "Any process leading to positive selection of B cells in the bone marrow. Positive selection is the process by which B or T cells are selected to survive based on signaling through their antigen receptors." [GOC:jal] synonym: "central B lymphocyte positive selection" EXACT [] synonym: "central B-cell positive selection" EXACT [] synonym: "central B-lymphocyte positive selection" EXACT [] is_a: GO:0002340 ! central B cell selection is_a: GO:0002346 ! B cell positive selection [Term] id: GO:0002349 name: histamine production involved in inflammatory response namespace: biological_process def: "The synthesis or release of histamine following a stimulus as part of an inflammatory response, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:16730260] synonym: "histamine production involved in acute inflammatory response" BROAD [] is_a: GO:0002532 ! production of molecular mediator involved in inflammatory response [Term] id: GO:0002350 name: peripheral B cell positive selection namespace: biological_process def: "Any process leading to positive selection of B cells in the periphery. Positive selection is the process by which B or T cells are selected to survive based on signaling through their antigen receptors." [GOC:jal] synonym: "peripheral B lymphocyte positive selection" EXACT [] synonym: "peripheral B-cell positive selection" EXACT [] synonym: "peripheral B-lymphocyte positive selection" EXACT [] is_a: GO:0002343 ! peripheral B cell selection is_a: GO:0002346 ! B cell positive selection [Term] id: GO:0002351 name: serotonin production involved in inflammatory response namespace: biological_process def: "The synthesis or release of serotonin following a stimulus as part of an inflammatory response, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:16730260] synonym: "serotonin production involved in acute inflammatory response" BROAD [] is_a: GO:0002532 ! production of molecular mediator involved in inflammatory response [Term] id: GO:0002352 name: B cell negative selection namespace: biological_process def: "Any process leading to negative selection in B cells. Mechanisms of negative selection include anergy and deletion." [GOC:jal] synonym: "B lymphocyte negative selection" EXACT [] synonym: "B-cell negative selection" EXACT [] synonym: "B-lymphocyte negative selection" EXACT [] is_a: GO:0002339 ! B cell selection [Term] id: GO:0002353 name: plasma kallikrein-kinin cascade namespace: biological_process def: "A series of reactions that takes place outside the cell occurring in response to tissue damage and initiated within blood plasma by the action of activated Factor XII (Hageman Factor) on prekallikrein to convert it to plasma kallikrein, and the subsequent reaction of plasma kallikrein with high molecular weight kininogen. The ultimate product of the plasma kallikrein-kinin cascade is bradykinin, an agent known to induce smooth muscle contraction, vasoconstriction, and increased vascular permeability." [GOC:add, ISBN:0721601871, PMID:11842287, PMID:14501145] is_a: GO:0002254 ! kinin cascade [Term] id: GO:0002354 name: central B cell negative selection namespace: biological_process def: "Any process leading to negative selection of B cells in the bone marrow." [GOC:jal] synonym: "central B lymphocyte negative selection" EXACT [] synonym: "central B-cell negative selection" EXACT [] synonym: "central B-lymphocyte negative selection" EXACT [] is_a: GO:0002340 ! central B cell selection is_a: GO:0002352 ! B cell negative selection [Term] id: GO:0002355 name: detection of tumor cell namespace: biological_process def: "The series of events in which a stimulus from a tumor cell is received and converted into a molecular signal." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:16730260] is_a: GO:0002347 ! response to tumor cell is_a: GO:0009595 ! detection of biotic stimulus [Term] id: GO:0002356 name: peripheral B cell negative selection namespace: biological_process def: "Any process leading to negative selection of B cells in the periphery." [GOC:jal] synonym: "peripheral B lymphocyte negative selection" EXACT [] synonym: "peripheral B-cell negative selection" EXACT [] synonym: "peripheral B-lymphocyte negative selection" EXACT [] is_a: GO:0002343 ! peripheral B cell selection is_a: GO:0002352 ! B cell negative selection [Term] id: GO:0002357 name: defense response to tumor cell namespace: biological_process def: "Reactions triggered in response to the presence of a tumor cell that act to protect the cell or organism." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:16730260] is_a: GO:0002347 ! response to tumor cell is_a: GO:0006952 ! defense response [Term] id: GO:0002358 name: B cell homeostatic proliferation namespace: biological_process def: "The non-specific expansion of B cell populations within a whole or part of an organism to reach to a total number of B cells which will then remain stable over time in the absence of an external stimulus." [GOC:jal] synonym: "B lymphocyte homeostatic proliferation" EXACT [] synonym: "B-cell homeostatic proliferation" EXACT [] synonym: "B-lymphocyte homeostatic proliferation" EXACT [] is_a: GO:0042100 ! B cell proliferation [Term] id: GO:0002359 name: B-1 B cell proliferation namespace: biological_process def: "The expansion of a B-1 B cell by cell division. Follows B cell activation." [GOC:jal] synonym: "B-1 B lymphocyte proliferation" EXACT [] synonym: "B-1 B-cell proliferation" EXACT [] synonym: "B-1 B-lymphocyte proliferation" EXACT [] is_a: GO:0042100 ! B cell proliferation [Term] id: GO:0002360 name: T cell lineage commitment namespace: biological_process def: "The process by which a lymphoid progenitor cell becomes committed to becoming any type of T cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "T lymphocyte lineage commitment" EXACT [] synonym: "T-cell lineage commitment" EXACT [] synonym: "T-lymphocyte lineage commitment" EXACT [] is_a: GO:0045165 ! cell fate commitment relationship: part_of GO:0030217 ! T cell differentiation [Term] id: GO:0002361 name: CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation namespace: biological_process def: "The process whereby a precursor cell type acquires the specialized features of a CD4-positive, CD25-positive, alpha-beta regulatory T cell." [GOC:add, PMID:15207821] synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T lymphocyte differentiation" EXACT [] synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T-cell differentiation" EXACT [] synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T-lymphocyte differentiation" EXACT [] is_a: GO:0043367 ! CD4-positive, alpha beta T cell differentiation is_a: GO:0045066 ! regulatory T cell differentiation [Term] id: GO:0002362 name: CD4-positive, CD25-positive, alpha-beta regulatory T cell lineage commitment namespace: biological_process def: "The process by which a CD4-positive, alpha-beta T cell becomes committed to becoming a CD4-positive, CD25-positive, alpha-beta regulatory T cell." [GOC:add, PMID:15207821] synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T lymphocyte lineage commitment" EXACT [] synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T-cell lineage commitment" EXACT [] synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T-lymphocyte lineage commitment" EXACT [] is_a: GO:0002360 ! T cell lineage commitment relationship: part_of GO:0002361 ! CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation [Term] id: GO:0002363 name: alpha-beta T cell lineage commitment namespace: biological_process def: "The process by which a pro-T cell becomes committed to becoming an alpha-beta T cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "alpha-beta T lymphocyte lineage commitment" EXACT [] synonym: "alpha-beta T-cell lineage commitment" EXACT [] synonym: "alpha-beta T-lymphocyte lineage commitment" EXACT [] is_a: GO:0002360 ! T cell lineage commitment relationship: part_of GO:0046632 ! alpha-beta T cell differentiation [Term] id: GO:0002364 name: NK T cell lineage commitment namespace: biological_process def: "The process by which a pro-T cell becomes committed to becoming an NK T cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "natural killer T lymphocyte lineage commitment" EXACT [] synonym: "natural killer T-cell lineage commitment" EXACT [] synonym: "natural killer T-lymphocyte lineage commitment" EXACT [] synonym: "NK T lymphocyte lineage commitment" EXACT [] synonym: "NK T-cell lineage commitment" EXACT [] synonym: "NK T-lymphocyte lineage commitment" EXACT [] is_a: GO:0002360 ! T cell lineage commitment relationship: part_of GO:0001865 ! NK T cell differentiation [Term] id: GO:0002365 name: gamma-delta T cell lineage commitment namespace: biological_process def: "The process by which a pro-T cell becomes committed to becoming a gamma-delta T cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "gamma-delta T lymphocyte lineage commitment" EXACT [] synonym: "gamma-delta T-cell lineage commitment" EXACT [] synonym: "gamma-delta T-lymphocyte lineage commitment" EXACT [] is_a: GO:0002360 ! T cell lineage commitment relationship: part_of GO:0042492 ! gamma-delta T cell differentiation [Term] id: GO:0002366 name: leukocyte activation involved in immune response namespace: biological_process def: "A change in morphology and behavior of a leukocyte resulting from exposure to a specific antigen, mitogen, cytokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "immune cell activation during immune response" RELATED [] synonym: "leucocyte activation during immune response" RELATED [] synonym: "leukocyte activation during immune response" RELATED [GOC:tb] is_a: GO:0002263 ! cell activation involved in immune response is_a: GO:0045321 ! leukocyte activation [Term] id: GO:0002367 name: cytokine production involved in immune response namespace: biological_process def: "The appearance of a cytokine due to biosynthesis or secretion following a cellular stimulus contributing to an immune response, resulting in an increase in its intracellular or extracellular levels." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. Note that this term is intended for use when a gene product is seen to cause apparent increases in intracellular or extracellular cytokine levels, without specific regard as to whether the increase is due to increased biosynthesis, increased secretion of preexisting cytokine molecules, or increased conversion from precursor molecules. synonym: "cytokine production during immune response" RELATED [GOC:dph] is_a: GO:0001816 ! cytokine production is_a: GO:0002440 ! production of molecular mediator of immune response [Term] id: GO:0002368 name: B cell cytokine production namespace: biological_process def: "Any process that contributes to cytokine production by a B cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "B lymphocyte cytokine production" EXACT [] synonym: "B-cell cytokine production" EXACT [] synonym: "B-lymphocyte cytokine production" EXACT [] is_a: GO:0002367 ! cytokine production involved in immune response is_a: GO:0019724 ! B cell mediated immunity [Term] id: GO:0002369 name: T cell cytokine production namespace: biological_process def: "Any process that contributes to cytokine production by a T cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "T lymphocyte cytokine production" EXACT [] synonym: "T-cell cytokine production" EXACT [] synonym: "T-lymphocyte cytokine production" EXACT [] is_a: GO:0002367 ! cytokine production involved in immune response is_a: GO:0002456 ! T cell mediated immunity [Term] id: GO:0002370 name: natural killer cell cytokine production namespace: biological_process def: "Any process that contributes to cytokine production by a natural killer cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "NK cell cytokine production" EXACT [] is_a: GO:0002228 ! natural killer cell mediated immunity is_a: GO:0002367 ! cytokine production involved in immune response [Term] id: GO:0002371 name: dendritic cell cytokine production namespace: biological_process def: "Any process that contributes to cytokine production by a dendritic cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002367 ! cytokine production involved in immune response [Term] id: GO:0002372 name: myeloid dendritic cell cytokine production namespace: biological_process def: "Any process that contributes to cytokine production by a myeloid dendritic cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002371 ! dendritic cell cytokine production is_a: GO:0061082 ! myeloid leukocyte cytokine production [Term] id: GO:0002373 name: plasmacytoid dendritic cell cytokine production namespace: biological_process def: "Any process that contributes to cytokine production by a plasmacytoid dendritic cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002371 ! dendritic cell cytokine production [Term] id: GO:0002374 name: cytokine secretion involved in immune response namespace: biological_process def: "The regulated release of cytokines from a cell or group of cells that contributes to an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "cytokine secretion during immune response" RELATED [GOC:dph] is_a: GO:0050663 ! cytokine secretion relationship: part_of GO:0002367 ! cytokine production involved in immune response [Term] id: GO:0002375 name: cytokine biosynthetic process involved in immune response namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a cytokine that contributes to an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "cytokine biosynthetic process during immune response" RELATED [GOC:dph] is_a: GO:0042089 ! cytokine biosynthetic process relationship: part_of GO:0002367 ! cytokine production involved in immune response [Term] id: GO:0002376 name: immune system process namespace: biological_process def: "Any process involved in the development or functioning of the immune system, an organismal system for calibrated responses to potential internal or invasive threats." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05] comment: Note that this term is a direct child of 'biological_process ; GO:0008150' because some immune system processes are types of cellular process (GO:0009987), whereas others are types of multicellular organism process (GO:0032501). This term was added by GO_REF:0000022. subset: goslim_pir xref: Wikipedia:Immune_system is_a: GO:0008150 ! biological_process [Term] id: GO:0002377 name: immunoglobulin production namespace: biological_process def: "The appearance of immunoglobulin due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "antibody production" EXACT [] is_a: GO:0002440 ! production of molecular mediator of immune response [Term] id: GO:0002378 name: immunoglobulin biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of immunoglobulin." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "antibody biosynthesis" EXACT [] synonym: "antibody biosynthetic process" EXACT [] is_a: GO:0009059 ! macromolecule biosynthetic process relationship: part_of GO:0002377 ! immunoglobulin production [Term] id: GO:0002379 name: immunoglobulin biosynthetic process involved in immune response namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of immunoglobulin contributing to an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "antibody biosynthesis during immune response" RELATED [] synonym: "antibody biosynthetic process during immune response" RELATED [] synonym: "immunoglobulin biosynthetic process during immune response" RELATED [GOC:dph] is_a: GO:0002378 ! immunoglobulin biosynthetic process relationship: part_of GO:0002381 ! immunoglobulin production involved in immunoglobulin mediated immune response [Term] id: GO:0002380 name: immunoglobulin secretion involved in immune response namespace: biological_process def: "The regulated release of immunoglobulins from a B cell or plasma cell contributing to an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:9185563] synonym: "antibody secretion during immune response" RELATED [] synonym: "immunoglobulin secretion during immune response" RELATED [goc:dph] is_a: GO:0048305 ! immunoglobulin secretion relationship: part_of GO:0002381 ! immunoglobulin production involved in immunoglobulin mediated immune response [Term] id: GO:0002381 name: immunoglobulin production involved in immunoglobulin mediated immune response namespace: biological_process def: "The appearance of immunoglobulin due to biosynthesis or secretion following a cellular stimulus during an immune response, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "antibody production during immune response" RELATED [] synonym: "immunoglobulin production during immune response" RELATED [GOC:dph] synonym: "immunoglobulin production involved in immune response" RELATED [GOC:dph] is_a: GO:0002377 ! immunoglobulin production relationship: part_of GO:0016064 ! immunoglobulin mediated immune response [Term] id: GO:0002382 name: regulation of tissue kallikrein-kinin cascade namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of the tissue kallikrein-kinin cascade." [GOC:add] synonym: "regulation of glandular kallikrein-kinin cascade" EXACT [] is_a: GO:0002256 ! regulation of kinin cascade intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002255 ! tissue kallikrein-kinin cascade relationship: regulates GO:0002255 ! tissue kallikrein-kinin cascade [Term] id: GO:0002383 name: immune response in brain or nervous system namespace: biological_process def: "An immune response taking place in the brain or nervous system." [GO_REF:0000022, GOC:jal, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. is_a: GO:0002251 ! organ or tissue specific immune response [Term] id: GO:0002384 name: hepatic immune response namespace: biological_process def: "An immune response taking place in the liver." [GO_REF:0000022, GOC:jal, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. is_a: GO:0002251 ! organ or tissue specific immune response [Term] id: GO:0002385 name: mucosal immune response namespace: biological_process def: "An immune response taking place in mucosal tissues, including those of the intestinal tract, nasal and upper respiratory tract, and genital tract." [GO_REF:0000022, GOC:jal, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. is_a: GO:0002251 ! organ or tissue specific immune response [Term] id: GO:0002386 name: immune response in mucosal-associated lymphoid tissue namespace: biological_process def: "Immune response taking place in the mucosal-associated lymphoid tissue (MALT). Mucosal-associated lymphoid tissue is typically found as nodules associated with mucosal epithelia with distinct internal structures including B- and T-zones for the activation of lymphocytes." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "immune response in MALT" EXACT [] is_a: GO:0002385 ! mucosal immune response [Term] id: GO:0002387 name: immune response in gut-associated lymphoid tissue namespace: biological_process def: "Immune response taking place in the gut-associated lymphoid tissue (GALT). GALT includes Peyer's patches, appendix, and solitary lymph nodules." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "immune response in GALT" EXACT [] is_a: GO:0002386 ! immune response in mucosal-associated lymphoid tissue [Term] id: GO:0002388 name: immune response in Peyer's patch namespace: biological_process def: "Immune response taking place in the Peyer's patch, nodular lymphoid structures on the serosal surface of the small intestine." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002387 ! immune response in gut-associated lymphoid tissue [Term] id: GO:0002389 name: tolerance induction in Peyer's patch namespace: biological_process def: "Tolerance induction taking place in the Peyer's patches." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002388 ! immune response in Peyer's patch is_a: GO:0002394 ! tolerance induction in gut-associated lymphoid tissue [Term] id: GO:0002390 name: platelet activating factor production namespace: biological_process def: "The synthesis or release of platelet activating factor following a stimulus, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001816 ! cytokine production [Term] id: GO:0002391 name: platelet activating factor production involved in inflammatory response namespace: biological_process def: "The synthesis or release of platelet activating factor following a stimulus as part of an inflammatory response, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "platelet activating factor production involved in acute inflammatory response" BROAD [] is_a: GO:0002390 ! platelet activating factor production is_a: GO:0002534 ! cytokine production involved in inflammatory response [Term] id: GO:0002392 name: platelet activating factor secretion namespace: biological_process def: "The regulated release of platelet activating factor by a cell or group of cells." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0050663 ! cytokine secretion [Term] id: GO:0002393 name: production of lysosomal enzymes involved in inflammatory response namespace: biological_process def: "The synthesis or release of lysosomal enzymes following a stimulus as part of a inflammatory response, resulting in an increase in intracellular or extracellular levels." [GOC:add] synonym: "production of lysosomal enzymes involved in acute inflammatory response" BROAD [] is_a: GO:0002532 ! production of molecular mediator involved in inflammatory response [Term] id: GO:0002394 name: tolerance induction in gut-associated lymphoid tissue namespace: biological_process def: "Tolerance induction taking place in the gut-associated lymphoid tissue (GALT)." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "oral tolerance" RELATED [] synonym: "tolerance induction in GALT" EXACT [] is_a: GO:0002387 ! immune response in gut-associated lymphoid tissue is_a: GO:0002401 ! tolerance induction in mucosal-associated lymphoid tissue [Term] id: GO:0002395 name: immune response in nasopharyngeal-associated lymphoid tissue namespace: biological_process def: "An immune response taking place in the nasopharyngeal-associated lymphoid tissue (NALT). NALT includes the tonsils and adenoids." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "immune response in NALT" EXACT [] is_a: GO:0002386 ! immune response in mucosal-associated lymphoid tissue [Term] id: GO:0002396 name: MHC protein complex assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form an MHC protein complex." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15771591, PMID:15928678] is_a: GO:0043623 ! cellular protein complex assembly [Term] id: GO:0002397 name: MHC class I protein complex assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form an MHC class I protein complex. Class I here refers to classical class I molecules." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15771591] is_a: GO:0002396 ! MHC protein complex assembly [Term] id: GO:0002398 name: MHC class Ib protein complex assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form an MHC class Ib protein complex. Class Ib here refers to non-classical class I molecules." [GOC:add, PMID:15928678, PMID:15928680] is_a: GO:0002396 ! MHC protein complex assembly [Term] id: GO:0002399 name: MHC class II protein complex assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form an MHC class II protein complex." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15771591] is_a: GO:0002396 ! MHC protein complex assembly [Term] id: GO:0002400 name: tolerance induction in nasopharyngeal-associated lymphoid tissue namespace: biological_process def: "Tolerance induction taking place in the nasopharyngeal-associated lymphoid tissue (NALT)." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "nasal tolerance" RELATED [] synonym: "tolerance induction in NALT" EXACT [] is_a: GO:0002395 ! immune response in nasopharyngeal-associated lymphoid tissue is_a: GO:0002401 ! tolerance induction in mucosal-associated lymphoid tissue [Term] id: GO:0002401 name: tolerance induction in mucosal-associated lymphoid tissue namespace: biological_process def: "Tolerance induction taking place in the mucosal-associated lymphoid tissue (MALT)." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "tolerance induction in MALT" EXACT [] is_a: GO:0002386 ! immune response in mucosal-associated lymphoid tissue is_a: GO:0002427 ! mucosal tolerance induction [Term] id: GO:0002402 name: B cell tolerance induction in mucosal-associated lymphoid tissue namespace: biological_process def: "Tolerance induction taking place in the mucosal-associated lymphoid tissue (MALT) mediated by B cells." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "B cell tolerance induction in MALT" EXACT [] is_a: GO:0002401 ! tolerance induction in mucosal-associated lymphoid tissue is_a: GO:0002451 ! peripheral B cell tolerance induction [Term] id: GO:0002403 name: T cell tolerance induction in mucosal-associated lymphoid tissue namespace: biological_process def: "Tolerance induction taking place in the mucosal-associated lymphoid tissue (MALT) mediated by T cells." [GOC:jal, ISBN:0781735149 "Fundamental Immunology", PMID:16551263] synonym: "T cell tolerance induction in MALT" EXACT [] is_a: GO:0002401 ! tolerance induction in mucosal-associated lymphoid tissue is_a: GO:0002458 ! peripheral T cell tolerance induction [Term] id: GO:0002404 name: antigen sampling in mucosal-associated lymphoid tissue namespace: biological_process def: "The process initiating the mucosal immune response which entails the apical-to-basolateral delivery of soluble and particulate antigens to underlying mucosal-associated lymphoid tissue." [GOC:jal, PMID:11896763, PMID:12843411, PMID:15681746] synonym: "antigen sampling in MALT" EXACT [] synonym: "antigen transport in MALT" RELATED [] synonym: "antigen transport in mucosal-associated lymphoid tissue" RELATED [] is_a: GO:0002376 ! immune system process relationship: part_of GO:0002386 ! immune response in mucosal-associated lymphoid tissue [Term] id: GO:0002405 name: antigen sampling by dendritic cells in mucosal-associated lymphoid tissue namespace: biological_process def: "The process of antigen sampling carried out by dendritic cells in the mucosal-associated lymphoid tissue." [GOC:jal, PMID:11896763, PMID:15681746] synonym: "antigen sampling by dendritic cells in MALT" EXACT [] is_a: GO:0002404 ! antigen sampling in mucosal-associated lymphoid tissue relationship: part_of GO:0002468 ! dendritic cell antigen processing and presentation [Term] id: GO:0002406 name: antigen sampling by M cells in mucosal-associated lymphoid tissue namespace: biological_process def: "The process of antigen samples carried out by M cells in the mucosal-associated lymphoid tissue." [GOC:jal, PMID:11896763] synonym: "antigen sampling by M cells in MALT" EXACT [] is_a: GO:0002404 ! antigen sampling in mucosal-associated lymphoid tissue [Term] id: GO:0002407 name: dendritic cell chemotaxis namespace: biological_process def: "The movement of a dendritic cell in response to an external stimulus." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15814331, PMID:16056255] is_a: GO:0030595 ! leukocyte chemotaxis [Term] id: GO:0002408 name: myeloid dendritic cell chemotaxis namespace: biological_process def: "The movement of a myeloid dendritic cell in response to an external stimulus." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15814331, PMID:16056255] is_a: GO:0002407 ! dendritic cell chemotaxis [Term] id: GO:0002409 name: Langerhans cell chemotaxis namespace: biological_process def: "The movement of a Langerhans cell in response to an external stimulus." [GOC:add, PMID:16056255, PMID:16387601] is_a: GO:0002408 ! myeloid dendritic cell chemotaxis [Term] id: GO:0002410 name: plasmacytoid dendritic cell chemotaxis namespace: biological_process def: "The movement of a plasmacytoid dendritic cell in response to an external stimulus." [GOC:add, PMID:15159375, PMID:15814331] is_a: GO:0002407 ! dendritic cell chemotaxis [Term] id: GO:0002411 name: T cell tolerance induction to tumor cell namespace: biological_process def: "A process of tolerance induction dependent on T cells which leads to immunological tolerance of a tumor." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:16730260] is_a: GO:0002413 ! tolerance induction to tumor cell is_a: GO:0002424 ! T cell mediated immune response to tumor cell is_a: GO:0002458 ! peripheral T cell tolerance induction [Term] id: GO:0002412 name: antigen transcytosis by M cells in mucosal-associated lymphoid tissue namespace: biological_process def: "The process of antigen transcytosis carried out by M cells in the mucosal-associated lymphoid tissue (MALT). Transcytosis is the process of the directed movement of endocytosed material through the cell and its exocytosis from the plasma membrane at the opposite side. M cells are specialized epithelia cells with a microfold structure that are adept at moving antigens from the gut lumen to antigen presenting cells in the MALT." [GOC:jal, ISBN:0781735149 "Fundamental Immunology", PMID:12843411] synonym: "antigen transcytosis by M cells in MALT" EXACT [] synonym: "antigen transport by M cells in MALT" EXACT [] synonym: "antigen transport by M cells in mucosal-associated lymphoid tissue" EXACT [] is_a: GO:0045056 ! transcytosis relationship: part_of GO:0002406 ! antigen sampling by M cells in mucosal-associated lymphoid tissue [Term] id: GO:0002413 name: tolerance induction to tumor cell namespace: biological_process def: "A process of tolerance induction which leads to immunological tolerance of a tumor." [GOC:add] is_a: GO:0002418 ! immune response to tumor cell is_a: GO:0002465 ! peripheral tolerance induction [Term] id: GO:0002414 name: immunoglobulin transcytosis in epithelial cells namespace: biological_process def: "The process of transporting immunoglobulin, via transcytosis, from one side of an epithelial cell to the other." [GOC:add, ISBN:0781735149 "Fundamental Immunology", ISBN:081533642X, PMID:16048543] is_a: GO:0045056 ! transcytosis [Term] id: GO:0002415 name: immunoglobulin transcytosis in epithelial cells mediated by polymeric immunoglobulin receptor namespace: biological_process def: "The process of transporting polymeric IgA and polymeric IgM immunoglobulin, via transcytosis mediated by the polymeric immunoglobulin receptor (pIgR), from the basolateral surface to apical surface of an epithelial cell. At the apical surface the immunoglobulin binding portion of the pIgRis cleaved and remains bound to the transported immunoglobulin as secretory component (SC). The same process is used for the transport and excretion of IgA immune complexes to the luminal surface of the mucosa." [GOC:add, ISBN:0781735149 "Fundamental Immunology", ISBN:081533642X, PMID:16048543] synonym: "antibody transcytosis mediated by pIgR" EXACT [] synonym: "immunoglobulin transcytosis mediated by pIgR" EXACT [] is_a: GO:0002414 ! immunoglobulin transcytosis in epithelial cells relationship: part_of GO:0002386 ! immune response in mucosal-associated lymphoid tissue [Term] id: GO:0002416 name: IgG immunoglobulin transcytosis in epithelial cells mediated by FcRn immunoglobulin receptor namespace: biological_process def: "The process of transporting IgG immunoglobulin, via transcytosis using the FcRn (also known as the neonatal Fc receptor; gene name FCGRT), from apical surface of an epithelial cell to the basolateral surface or vice versa depending on the location. This process is used for uptake of IgG from the milk in the gut in rodents, for transplacental transport of IgG from mother to embryo in humans, and for maintenance of a steady-state distribution of IgG across epithelial boundaries in general in adult mammals." [GOC:add, ISBN:0781735149 "Fundamental Immunology", ISBN:081533642X] synonym: "IgG antibody transcytosis in epithelial cells mediated by FcRn immunoglobulin receptor" EXACT [] synonym: "IgG immunoglobulin transcytosis in epithelial cells mediated by neonatal immunoglobulin receptor" EXACT [] is_a: GO:0002414 ! immunoglobulin transcytosis in epithelial cells [Term] id: GO:0002417 name: B cell antigen processing and presentation mediated by B cell receptor uptake of antigen namespace: biological_process def: "B cell antigen processing and presentation which is initiated by uptake of antigen bound to the B cell receptor." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15771591] synonym: "B lymphocyte antigen processing and presentation mediated by B cell receptor uptake of antigen" EXACT [] synonym: "B-cell antigen processing and presentation mediated by B cell receptor uptake of antigen" EXACT [] synonym: "B-lymphocyte antigen processing and presentation mediated by B cell receptor uptake of antigen" EXACT [] is_a: GO:0002450 ! B cell antigen processing and presentation is_a: GO:0002751 ! antigen processing and presentation following receptor mediated endocytosis [Term] id: GO:0002418 name: immune response to tumor cell namespace: biological_process def: "An immune system process that functions in the response of an organism to a tumor cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:16730260] is_a: GO:0002347 ! response to tumor cell is_a: GO:0006955 ! immune response [Term] id: GO:0002419 name: T cell mediated cytotoxicity directed against tumor cell target namespace: biological_process def: "The directed killing of a tumor cell by a T cell through the release of granules containing cytotoxic mediators or through the engagement of death receptors." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:16730260] comment: Note that either or both mechanisms mentioned in the definition may be used in this process. Note that both granule release and the engagement of death receptors on target cells result in induction of apoptosis in the target cell. synonym: "T lymphocyte mediated cytotoxicity directed against tumor cell target" EXACT [] synonym: "T-cell mediated cytotoxicity directed against tumor cell target" EXACT [] synonym: "T-lymphocyte mediated cytotoxicity directed against tumor cell target" EXACT [] is_a: GO:0001913 ! T cell mediated cytotoxicity is_a: GO:0002424 ! T cell mediated immune response to tumor cell [Term] id: GO:0002420 name: natural killer cell mediated cytotoxicity directed against tumor cell target namespace: biological_process def: "The directed killing of a tumor cell by a natural killer cell through the release of granules containing cytotoxic mediators or through the engagement of death receptors." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:16730260] comment: Note that either or both mechanisms mentioned in the definition may be used in this process. Note that both granule release and the engagement of death receptors on target cells result in induction of apoptosis in the target cell. synonym: "NK cell mediated cytotoxicity directed against tumor cell target" EXACT [] is_a: GO:0002423 ! natural killer cell mediated immune response to tumor cell is_a: GO:0042267 ! natural killer cell mediated cytotoxicity [Term] id: GO:0002421 name: B cell antigen processing and presentation following pinocytosis namespace: biological_process def: "B cell antigen processing and presentation which is initiated by uptake of antigen via pinocytosis." [GOC:add, PMID:7543530] synonym: "B lymphocyte antigen processing and presentation following pinocytosis" EXACT [] synonym: "B-cell antigen processing and presentation following pinocytosis" EXACT [] synonym: "B-lymphocyte antigen processing and presentation following pinocytosis" EXACT [] is_a: GO:0002450 ! B cell antigen processing and presentation is_a: GO:0002746 ! antigen processing and presentation following pinocytosis [Term] id: GO:0002422 name: immune response in urogenital tract namespace: biological_process def: "An immune response taking place in the urogenital tract. The urogenital tract." [GOC:jal] is_a: GO:0002385 ! mucosal immune response [Term] id: GO:0002423 name: natural killer cell mediated immune response to tumor cell namespace: biological_process def: "An immune response mediated by a natural killer cell triggered in response to the presence of a tumor cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:16730260] is_a: GO:0002228 ! natural killer cell mediated immunity is_a: GO:0002418 ! immune response to tumor cell [Term] id: GO:0002424 name: T cell mediated immune response to tumor cell namespace: biological_process def: "An immune response mediated by a T cell triggered in response to the presence of a tumor cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:16730260] comment: Note that this term includes tolerogenic responses to tumor cells mediated by responding T cells. is_a: GO:0002418 ! immune response to tumor cell is_a: GO:0002456 ! T cell mediated immunity [Term] id: GO:0002425 name: tolerance induction in urogenital tract namespace: biological_process def: "Tolerance induction taking place in the urogenital tract." [GOC:jal] is_a: GO:0002422 ! immune response in urogenital tract is_a: GO:0002427 ! mucosal tolerance induction [Term] id: GO:0002426 name: immunoglobulin production in mucosal tissue namespace: biological_process def: "The synthesis and release of immunoglobulin in the mucosal tissue." [GOC:jal] synonym: "antibody production in mucosal tissue " EXACT [] is_a: GO:0002381 ! immunoglobulin production involved in immunoglobulin mediated immune response relationship: part_of GO:0002385 ! mucosal immune response [Term] id: GO:0002427 name: mucosal tolerance induction namespace: biological_process def: "Tolerance induction taking place in the mucosal tissues." [GOC:jal] is_a: GO:0002385 ! mucosal immune response is_a: GO:0002462 ! tolerance induction to nonself antigen [Term] id: GO:0002428 name: antigen processing and presentation of peptide antigen via MHC class Ib namespace: biological_process def: "The process by which an antigen-presenting cell expresses peptide antigen in association with an MHC class Ib protein complex on its cell surface. The peptide antigen may originate from an endogenous or exogenous protein. Class Ib here refers to non-classical class I molecules, such as those of the HLA-E family." [GOC:add, PMID:15928678] synonym: "peptide antigen processing and presentation via MHC class Ib" EXACT [] is_a: GO:0002475 ! antigen processing and presentation via MHC class Ib is_a: GO:0048002 ! antigen processing and presentation of peptide antigen [Term] id: GO:0002429 name: immune response-activating cell surface receptor signaling pathway namespace: biological_process def: "A series of molecular signals initiated by the binding of an extracellular ligand to a receptor on the surface of a cell capable of activating or perpetuating an immune response." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. synonym: "activation of immune response by cell surface receptor signaling pathway" EXACT [] synonym: "immune response-activating cell surface receptor signalling pathway" EXACT [] is_a: GO:0002757 ! immune response-activating signal transduction is_a: GO:0002768 ! immune response-regulating cell surface receptor signaling pathway [Term] id: GO:0002430 name: complement receptor mediated signaling pathway namespace: biological_process def: "A series of molecular signals generated as a consequence of a component of the complement pathway binding to a complement receptor. Such components include both whole complement proteins and fragments of complement proteins generated through the activity of the complement pathway." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. synonym: "complement receptor mediated signalling pathway" EXACT [] synonym: "immune response-regulating cell surface receptor signalling pathway" BROAD [] is_a: GO:0002429 ! immune response-activating cell surface receptor signaling pathway [Term] id: GO:0002431 name: Fc receptor mediated stimulatory signaling pathway namespace: biological_process def: "A series of molecular signals generated as a consequence of a the binding of the Fc portion of an immunoglobulin by an Fc receptor capable of activating or perpetuating an immune response. The Fc portion of an immunoglobulin is its C-terminal constant region." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. synonym: "Fc receptor mediated stimulatory signalling pathway" EXACT [] synonym: "Fc-receptor mediated stimulatory signaling pathway" EXACT [] is_a: GO:0002429 ! immune response-activating cell surface receptor signaling pathway [Term] id: GO:0002432 name: granuloma formation namespace: biological_process def: "The formation of nodular inflammatory lesions, usually small or granular, firm, persistent, well-structured, and containing compactly grouped T lymphocytes and modified phagocytes such as epithelioid cells, giant cells, and other macrophages. Granuloma formation represents a chronic inflammatory response initiated by various infectious and noninfectious agents. The center of a granuloma consists of fused macrophages, which can become necrotic." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:068340007X "Stedman's Medical Dictionary", ISBN:0721601464, ISBN:081533642X] comment: This term was added by GO_REF:0000022. is_a: GO:0002252 ! immune effector process relationship: part_of GO:0002544 ! chronic inflammatory response [Term] id: GO:0002433 name: phagocytosis triggered by activation of immune response cell surface activating receptor namespace: biological_process def: "Phagocytosis occurring as the result of a ligand binding an immune response cell surface activating receptor." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. is_a: GO:0002252 ! immune effector process is_a: GO:0006909 ! phagocytosis [Term] id: GO:0002434 name: immune complex clearance namespace: biological_process def: "A process directed at removing immune complexes from the body. Immune complexes are clusters of antibodies bound to antigen, to which complement may also be fixed, and which may precipitate or remain in solution." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:068340007X "Stedman's Medical Dictionary"] comment: This term was added by GO_REF:0000022. is_a: GO:0002252 ! immune effector process [Term] id: GO:0002435 name: immune complex clearance by erythrocytes namespace: biological_process def: "The process of immune complex clearance by erythrocytes." [GOC:add, PMID:11414352] synonym: "immune complex clearance by RBCs" EXACT [CL:0000232] synonym: "immune complex clearance by red blood cells" EXACT [CL:0000232] is_a: GO:0002434 ! immune complex clearance [Term] id: GO:0002436 name: immune complex clearance by monocytes and macrophages namespace: biological_process def: "The process of immune complex clearance by monocytes or macrophages." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002434 ! immune complex clearance [Term] id: GO:0002437 name: inflammatory response to antigenic stimulus namespace: biological_process def: "An inflammatory response to an antigenic stimulus, which can be include any number of T cell or B cell epitopes." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0006954 ! inflammatory response is_a: GO:0006955 ! immune response [Term] id: GO:0002438 name: acute inflammatory response to antigenic stimulus namespace: biological_process def: "An acute inflammatory response to an antigenic stimulus. An acute inflammatory response occurs within a matter of minutes or hours, and either resolves within a few days or becomes a chronic inflammatory response." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. is_a: GO:0002437 ! inflammatory response to antigenic stimulus is_a: GO:0002526 ! acute inflammatory response [Term] id: GO:0002439 name: chronic inflammatory response to antigenic stimulus namespace: biological_process def: "A chronic inflammatory response to an antigenic stimulus. A chronic inflammatory response persists indefinitely during days, weeks, or months in the life of an individual." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002437 ! inflammatory response to antigenic stimulus is_a: GO:0002544 ! chronic inflammatory response [Term] id: GO:0002440 name: production of molecular mediator of immune response namespace: biological_process def: "The synthesis or release of any molecular mediator of the immune response following an immunological stimulus, resulting in an increase in its intracellular or extracellular levels." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. synonym: "production of cellular mediator of immune response" RELATED [] is_a: GO:0002252 ! immune effector process [Term] id: GO:0002441 name: histamine secretion involved in inflammatory response namespace: biological_process def: "The regulated release of histamine by a cell or group of cells as part of an inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "histamine secretion involved in acute inflammatory response" BROAD [] is_a: GO:0001821 ! histamine secretion is_a: GO:0046879 ! hormone secretion relationship: part_of GO:0002349 ! histamine production involved in inflammatory response [Term] id: GO:0002442 name: serotonin secretion involved in inflammatory response namespace: biological_process def: "The regulated release of serotonin by a cell or group of cells as part of an inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "serotonin secretion involved in acute inflammatory response" BROAD [] is_a: GO:0001820 ! serotonin secretion relationship: part_of GO:0002351 ! serotonin production involved in inflammatory response [Term] id: GO:0002443 name: leukocyte mediated immunity namespace: biological_process alt_id: GO:0019723 alt_id: GO:0042087 def: "Any process involved in the carrying out of an immune response by a leukocyte." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. synonym: "cell-mediated immune response" RELATED [] synonym: "cellular immune response" RELATED [] synonym: "immune cell effector process" EXACT [] synonym: "immune cell mediated immunity" EXACT [] synonym: "leucocyte immune effector process" EXACT [] synonym: "leucocyte mediated immunity" EXACT [] synonym: "leukocyte immune effector process" EXACT [] is_a: GO:0002252 ! immune effector process [Term] id: GO:0002444 name: myeloid leukocyte mediated immunity namespace: biological_process def: "Any process involved in the carrying out of an immune response by a myeloid leukocyte." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. synonym: "myeloid leucocyte immune effector process" EXACT [] synonym: "myeloid leucocyte mediated immunity" EXACT [] synonym: "myeloid leukocyte immune effector process" EXACT [] is_a: GO:0002443 ! leukocyte mediated immunity [Term] id: GO:0002445 name: type II hypersensitivity namespace: biological_process def: "An inflammatory response resulting in cell death or dysfunction mediated by activation of the classical complement pathway or induction of effector cell phagocytosis, cytolysis mechanisms via complement or Fc receptors following the binding of antibodies to cell surface antigens on a target cell, or mediated by the direct binding of antibody to cellular receptors." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] xref: Wikipedia:Type_II_hypersensitivity is_a: GO:0002444 ! myeloid leukocyte mediated immunity is_a: GO:0002524 ! hypersensitivity is_a: GO:0016064 ! immunoglobulin mediated immune response [Term] id: GO:0002446 name: neutrophil mediated immunity namespace: biological_process def: "Any process involved in the carrying out of an immune response by a neutrophil." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. is_a: GO:0002444 ! myeloid leukocyte mediated immunity [Term] id: GO:0002447 name: eosinophil mediated immunity namespace: biological_process def: "Any process involved in the carrying out of an immune response by an eosinophil." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. is_a: GO:0002444 ! myeloid leukocyte mediated immunity [Term] id: GO:0002448 name: mast cell mediated immunity namespace: biological_process def: "Any process involved in the carrying out of an immune response by a mast cell." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. is_a: GO:0002444 ! myeloid leukocyte mediated immunity [Term] id: GO:0002449 name: lymphocyte mediated immunity namespace: biological_process def: "Any process involved in the carrying out of an immune response by a lymphocyte." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. synonym: "cell-mediated immunity" BROAD [] synonym: "cellular immune response" BROAD [] is_a: GO:0002443 ! leukocyte mediated immunity [Term] id: GO:0002450 name: B cell antigen processing and presentation namespace: biological_process def: "The process by which a B cell expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15771591] synonym: "B lymphocyte antigen processing and presentation" EXACT [] synonym: "B-cell antigen processing and presentation" EXACT [] synonym: "B-lymphocyte antigen processing and presentation" EXACT [] is_a: GO:0019882 ! antigen processing and presentation relationship: part_of GO:0019724 ! B cell mediated immunity [Term] id: GO:0002451 name: peripheral B cell tolerance induction namespace: biological_process def: "Tolerance induction of mature B cells in the peripheral lymphoid tissues: the blood, lymph nodes, spleen, and mucosal-associated lymphoid tissue." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "peripheral B lymphocyte tolerance induction" EXACT [] synonym: "peripheral B-cell tolerance induction" EXACT [] synonym: "peripheral B-lymphocyte tolerance induction" EXACT [] is_a: GO:0002465 ! peripheral tolerance induction is_a: GO:0002514 ! B cell tolerance induction is_a: GO:0019724 ! B cell mediated immunity [Term] id: GO:0002452 name: B cell receptor editing namespace: biological_process def: "The process of replacing receptors on B cells, in which RAG gene expression allows continued light-chain gene rearrangement and expression of a new light change which combines with the previous heavy chain to form a new receptor." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "B lymphocyte receptor editing" EXACT [] synonym: "B-cell receptor editing" EXACT [] synonym: "B-lymphocyte receptor editing" EXACT [] is_a: GO:0016447 ! somatic recombination of immunoglobulin gene segments [Term] id: GO:0002453 name: peripheral B cell anergy namespace: biological_process def: "Any process contributing to anergy, a state of functional inactivation that occurs as part of tolerance induction, in peripheral B cells." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "peripheral B lymphocyte anergy" EXACT [] synonym: "peripheral B-cell anergy" EXACT [] synonym: "peripheral B-lymphocyte anergy" EXACT [] is_a: GO:0002515 ! B cell anergy relationship: part_of GO:0002451 ! peripheral B cell tolerance induction [Term] id: GO:0002454 name: peripheral B cell deletion namespace: biological_process def: "The deletion of B cells by apoptosis occurring as part of peripheral tolerance induction and B cell selection." [GOC:add, GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "peripheral B lymphocyte deletion" EXACT [] synonym: "peripheral B-cell deletion" EXACT [] synonym: "peripheral B-lymphocyte deletion" EXACT [] is_a: GO:0002516 ! B cell deletion relationship: part_of GO:0002451 ! peripheral B cell tolerance induction [Term] id: GO:0002455 name: humoral immune response mediated by circulating immunoglobulin namespace: biological_process def: "An immune response dependent upon secreted immunoglobulin. An example of this process is found in Mus musculus." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. synonym: "circulating antibody mediated immune response" EXACT [] synonym: "circulating immunoglobulin mediated immune response" EXACT [] synonym: "humoral defence mechanism" RELATED [] synonym: "humoral immune response mediated by circulating antibody" EXACT [] is_a: GO:0006959 ! humoral immune response is_a: GO:0016064 ! immunoglobulin mediated immune response [Term] id: GO:0002456 name: T cell mediated immunity namespace: biological_process def: "Any process involved in the carrying out of an immune response by a T cell." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. synonym: "cell-mediated immunity" BROAD [] synonym: "cellular immune response" BROAD [] synonym: "T lymphocyte mediated immunity" EXACT [] synonym: "T-cell mediated immunity" EXACT [] synonym: "T-lymphocyte mediated immunity" EXACT [] is_a: GO:0002449 ! lymphocyte mediated immunity is_a: GO:0002460 ! adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains [Term] id: GO:0002457 name: T cell antigen processing and presentation namespace: biological_process def: "The process by which a T cell expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." [GOC:add, PMID:11417857, PMID:15120183] synonym: "T lymphocyte antigen processing and presentation" EXACT [] synonym: "T-cell antigen processing and presentation" EXACT [] synonym: "T-lymphocyte antigen processing and presentation" EXACT [] is_a: GO:0019882 ! antigen processing and presentation relationship: part_of GO:0002456 ! T cell mediated immunity [Term] id: GO:0002458 name: peripheral T cell tolerance induction namespace: biological_process def: "Tolerance induction of T cells in the periphery, in this case, any location in the body other than the thymus." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "peripheral T lymphocyte tolerance induction" EXACT [] synonym: "peripheral T-cell tolerance induction" EXACT [] synonym: "peripheral T-lymphocyte tolerance induction" EXACT [] is_a: GO:0002456 ! T cell mediated immunity is_a: GO:0002465 ! peripheral tolerance induction is_a: GO:0002517 ! T cell tolerance induction [Term] id: GO:0002459 name: adaptive immune response based on somatic recombination of immune receptors built from leucine-rich repeat domains namespace: biological_process def: "An immune response based on directed amplification of specific receptors for antigen produced through a somatic diversification process that includes somatic recombination of variable lymphocyte receptors (VLR) incorporating leucine-rich repeat (LRR) domains, and allowing for enhanced responses upon subsequent exposures to the same antigen (immunological memory). Examples of this process are found in jawless fish, including the lampreys (Petromyzontidae) and hagfishes (Myxinidae)." [GOC:add, GOC:mtg_sensu, PMID:16373579] synonym: "adaptive immune response based on somatic recombination of variable lymphocyte receptors built from leucine-rich repeat domains" EXACT [] synonym: "adaptive immune response based on somatic recombination of VLR built from LRR domains" EXACT [] synonym: "adaptive immune response in jawless fish" EXACT [] is_a: GO:0002250 ! adaptive immune response [Term] id: GO:0002460 name: adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains namespace: biological_process def: "An immune response based on directed amplification of specific receptors for antigen produced through a somatic diversification process that includes somatic recombination of germline gene segments encoding immunoglobulin superfamily domains, and allowing for enhanced responses upon subsequent exposures to the same antigen (immunological memory). Recombined receptors for antigen encoded by immunoglobulin superfamily domains include T cell receptors and immunoglobulins (antibodies). An example of this is the adaptive immune response found in Mus musculus." [GOC:add, GOC:mtg_sensu, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002250 ! adaptive immune response [Term] id: GO:0002461 name: tolerance induction dependent upon immune response namespace: biological_process def: "Tolerance induction dependent upon an immune response, typically a response by a mature T or B cell in the periphery resulting tolerance towards an antigen via induction of anergy, cellular deletion, or regulatory T cell activation." [GO_REF:0000022, GOC:jal, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. synonym: "immune response-dependent tolerance induction" EXACT [] is_a: GO:0002460 ! adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains is_a: GO:0002507 ! tolerance induction [Term] id: GO:0002462 name: tolerance induction to nonself antigen namespace: biological_process def: "Tolerance induction in response to nonself antigens." [GO_REF:0000022, GOC:jal, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. is_a: GO:0002461 ! tolerance induction dependent upon immune response [Term] id: GO:0002463 name: central tolerance induction to nonself antigen namespace: biological_process def: "Tolerance induction to nonself antigens in the central lymphoid organs." [GOC:jal, PMID:12547504] is_a: GO:0002462 ! tolerance induction to nonself antigen is_a: GO:0002508 ! central tolerance induction [Term] id: GO:0002464 name: peripheral tolerance induction to nonself antigen namespace: biological_process def: "Tolerance induction to nonself antigens in the periphery." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002462 ! tolerance induction to nonself antigen is_a: GO:0002465 ! peripheral tolerance induction [Term] id: GO:0002465 name: peripheral tolerance induction namespace: biological_process def: "Tolerance induction in the peripheral lymphoid tissues: blood, lymph nodes, spleen, and mucosal-associated lymphoid tissues." [GO_REF:0000022, GOC:jal, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. is_a: GO:0002461 ! tolerance induction dependent upon immune response [Term] id: GO:0002466 name: peripheral tolerance induction to self antigen namespace: biological_process def: "Tolerance induction to self antigens in the peripheral lymphoid tissues: blood, lymph nodes, spleen, and mucosal-associated lymphoid tissues." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002465 ! peripheral tolerance induction is_a: GO:0002513 ! tolerance induction to self antigen [Term] id: GO:0002467 name: germinal center formation namespace: biological_process def: "The process by which germinal centers form. A germinal center is a specialized microenvironment formed when activated B cells enter lymphoid follicles. Germinal centers are the foci for B cell proliferation and somatic hypermutation." [GO_REF:0000022, GOC:jal, GOC:mtg_15nov05, ISBN:081533642X] comment: This term was added by GO_REF:0000022. is_a: GO:0002460 ! adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains [Term] id: GO:0002468 name: dendritic cell antigen processing and presentation namespace: biological_process def: "The process by which a dendritic cell expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15771591] is_a: GO:0019882 ! antigen processing and presentation [Term] id: GO:0002469 name: myeloid dendritic cell antigen processing and presentation namespace: biological_process def: "The process by which a myeloid dendritic cell expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15771591] is_a: GO:0002468 ! dendritic cell antigen processing and presentation [Term] id: GO:0002470 name: plasmacytoid dendritic cell antigen processing and presentation namespace: biological_process def: "The process by which a plasmacytoid dendritic cell expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15771591] is_a: GO:0002468 ! dendritic cell antigen processing and presentation [Term] id: GO:0002471 name: monocyte antigen processing and presentation namespace: biological_process def: "The process by which a monocyte expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." [GOC:add, PMID:11200054] is_a: GO:0019882 ! antigen processing and presentation [Term] id: GO:0002472 name: macrophage antigen processing and presentation namespace: biological_process def: "The process by which a macrophage expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15771591] is_a: GO:0019882 ! antigen processing and presentation [Term] id: GO:0002473 name: non-professional antigen presenting cell antigen processing and presentation namespace: biological_process def: "The process by which a non-professional antigen presenting cell expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex. Non-professional antigen presenting cells include all cell types but dendritic cells, B cells, T cells, monocytes, macrophages, and neutrophils." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15771591] is_a: GO:0019882 ! antigen processing and presentation [Term] id: GO:0002474 name: antigen processing and presentation of peptide antigen via MHC class I namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen on its cell surface in association with an MHC class I protein complex. Class I here refers to classical class I molecules." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15224092, PMID:15771591] synonym: "peptide antigen processing and presentation via MHC class I" EXACT [] is_a: GO:0048002 ! antigen processing and presentation of peptide antigen [Term] id: GO:0002475 name: antigen processing and presentation via MHC class Ib namespace: biological_process def: "The process by which an antigen-presenting cell expresses antigen (peptide or lipid) on its cell surface in association with an MHC class Ib protein complex. Class Ib here refers to non-classical class I molecules, such as those of the CD1 or HLA-E gene families." [GOC:add, PMID:15928678, PMID:15928680] is_a: GO:0019882 ! antigen processing and presentation [Term] id: GO:0002476 name: antigen processing and presentation of endogenous peptide antigen via MHC class Ib namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC class Ib protein complex. The peptide is typically a fragment of a larger endogenous protein which has been degraded within the cell. Class Ib here refers to non-classical class I molecules, such as those of the HLA-E gene family." [GOC:add, PMID:15928678] synonym: "endogenous peptide antigen processing and presentation via MHC class Ib" EXACT [] is_a: GO:0002428 ! antigen processing and presentation of peptide antigen via MHC class Ib is_a: GO:0002483 ! antigen processing and presentation of endogenous peptide antigen [Term] id: GO:0002477 name: antigen processing and presentation of exogenous peptide antigen via MHC class Ib namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of exogenous origin on its cell surface in association with an MHC class Ib protein complex. The peptide is typically a fragment of a larger exogenous protein which has been degraded within the cell. Class Ib here refers to non-classical class I molecules, such as those of the HLA-E gene family." [GOC:add, PMID:15928678] synonym: "exogenous peptide antigen processing and presentation via MHC class Ib" EXACT [] is_a: GO:0002428 ! antigen processing and presentation of peptide antigen via MHC class Ib is_a: GO:0002478 ! antigen processing and presentation of exogenous peptide antigen [Term] id: GO:0002478 name: antigen processing and presentation of exogenous peptide antigen namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of exogenous origin on its cell surface in association with an MHC protein complex. The peptide is typically a fragment of a larger exogenous protein which has been degraded within the cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "exogenous peptide antigen processing and presentation" EXACT [] is_a: GO:0019884 ! antigen processing and presentation of exogenous antigen is_a: GO:0048002 ! antigen processing and presentation of peptide antigen [Term] id: GO:0002479 name: antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of exogenous origin on its cell surface in association with an MHC class I protein complex following intracellular transport via a TAP (transporter associated with antigen processing) pathway. The peptide is typically a fragment of a larger exogenous protein which has been degraded within the cell and is dependent on TAP transport from the cytosol to ER for association with the MHC class I molecule. Class I here refers to classical class I molecules." [GOC:add, PMID:15224093, PMID:15771591, PMID:16181335] synonym: "cross presentation" BROAD [] synonym: "cross-presentation" BROAD [] synonym: "exogenous peptide antigen processing and presentation via MHC class I, TAP-dependent" EXACT [] synonym: "TAP-dependent antigen processing and presentation of exogenous peptide antigen via MHC class I" EXACT [] synonym: "TAP-dependent exogenous peptide antigen processing and presentation via MHC class I" EXACT [] is_a: GO:0042590 ! antigen processing and presentation of exogenous peptide antigen via MHC class I [Term] id: GO:0002480 name: antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of exogenous origin on its cell surface in association with an MHC class I protein complex following intracellular transport via a pathway not requiring TAP (transporter associated with antigen processing). The peptide is typically a fragment of a larger exogenous protein which has been degraded within the cell. Class I here refers to classical class I molecules." [GOC:add, PMID:15224093, PMID:15771591, PMID:16181335] synonym: "cross presentation" BROAD [] synonym: "cross-presentation" BROAD [] synonym: "exogenous peptide antigen processing and presentation via MHC class I, TAP-independent" EXACT [] synonym: "TAP-independent antigen processing and presentation of exogenous peptide antigen via MHC class I" EXACT [] synonym: "TAP-independent exogenous peptide antigen processing and presentation via MHC class I" EXACT [] is_a: GO:0042590 ! antigen processing and presentation of exogenous peptide antigen via MHC class I [Term] id: GO:0002481 name: antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of exogenous origin on its cell surface in association with an MHC class Ib protein complex following intracellular transport via a TAP (transporter associated with antigen processing) pathway. The peptide is typically a fragment of a larger exogenous protein which has been degraded within the cell and is dependent on TAP transport from the cytosol to ER for association with the MHC class Ib molecule. Class Ib here refers to non-classical class I molecules, such as those of the HLA-E gene family." [GOC:add, PMID:15928678] synonym: "exogenous peptide antigen processing and presentation via MHC class Ib, TAP-dependent" EXACT [] synonym: "TAP-dependent antigen processing and presentation of exogenous peptide antigen via MHC class Ib" EXACT [] synonym: "TAP-dependent exogenous peptide antigen processing and presentation via MHC class Ib" EXACT [] is_a: GO:0002477 ! antigen processing and presentation of exogenous peptide antigen via MHC class Ib [Term] id: GO:0002482 name: antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-independent namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of exogenous origin on its cell surface in association with an MHC class Ib protein complex following intracellular transport via a pathway not requiring TAP (transporter associated with antigen processing). The peptide is typically a fragment of a larger exogenous protein which has been degraded within the cell. Class Ib here refers to non-classical class I molecules, such as those of the HLA-E gene family." [GOC:add, PMID:15928678] synonym: "exogenous peptide antigen processing and presentation via MHC class Ib, TAP-independent" EXACT [] synonym: "TAP-independent antigen processing and presentation of exogenous peptide antigen via MHC class Ib" EXACT [] synonym: "TAP-independent exogenous peptide antigen processing and presentation via MHC class Ib" EXACT [] is_a: GO:0002477 ! antigen processing and presentation of exogenous peptide antigen via MHC class Ib [Term] id: GO:0002483 name: antigen processing and presentation of endogenous peptide antigen namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC protein complex. The peptide is typically a fragment of a larger endogenous protein which has been degraded within the cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "endogenous peptide antigen processing and presentation" EXACT [] is_a: GO:0019883 ! antigen processing and presentation of endogenous antigen is_a: GO:0048002 ! antigen processing and presentation of peptide antigen [Term] id: GO:0002484 name: antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC class I protein complex following intracellular transport via an ER pathway. The peptide is typically a fragment of a larger endogenous protein which has been degraded within the cell and becomes associated with the MHC class I molecule in the ER. Class I here refers to classical class I molecules." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:14647477, PMID:15771591] synonym: "endogenous peptide antigen processing and presentation via MHC class I via ER pathway" EXACT [] is_a: GO:0019885 ! antigen processing and presentation of endogenous peptide antigen via MHC class I [Term] id: GO:0002485 name: antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC class I protein complex following intracellular transport via a TAP-dependent ER pathway. The peptide is typically a fragment of a larger endogenous protein which has been degraded within the cell and becomes associated with the MHC class I molecule in the ER following TAP-dependent transport from the cytosol. Class I here refers to classical class I molecules." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:14647477, PMID:15771591] synonym: "endogenous peptide antigen processing and presentation via MHC class I via ER pathway, TAP-dependent" EXACT [] synonym: "TAP-dependent antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway" EXACT [] synonym: "TAP-dependent endogenous peptide antigen processing and presentation via MHC class I via ER pathway" EXACT [] is_a: GO:0002484 ! antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway [Term] id: GO:0002486 name: antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-independent namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC class I protein complex following intracellular transport via a TAP-independent ER pathway. The peptide is typically a fragment of a larger endogenous protein which has been degraded within the cell and becomes associated with the MHC class I molecule in the ER following transport from the cytosol via a TAP-independent pathway. Class I here refers to classical class I molecules." [GOC:add, PMID:14647477, PMID:15771591] synonym: "endogenous peptide antigen processing and presentation via MHC class I via ER pathway, TAP-independent" EXACT [] synonym: "TAP-independent antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway" EXACT [] synonym: "TAP-independent endogenous peptide antigen processing and presentation via MHC class I via ER pathway" EXACT [] is_a: GO:0002484 ! antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway [Term] id: GO:0002487 name: antigen processing and presentation of endogenous peptide antigen via MHC class I via endolysosomal pathway namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC class I protein complex. The peptide is typically a fragment of a larger endogenous protein which has been degraded within the cell and becomes associated with the MHC class I molecule in an endolysosome. Class I here refers to classical class I molecules." [GOC:add, PMID:10631943] synonym: "endogenous peptide antigen processing and presentation via MHC class I via endolysosomal pathway" EXACT [] is_a: GO:0019885 ! antigen processing and presentation of endogenous peptide antigen via MHC class I [Term] id: GO:0002488 name: antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC class Ib protein complex following intracellular transport via an ER pathway. The peptide is typically a fragment of a larger endogenous protein which has been degraded within the cell and becomes associated with the MHC class Ib molecule in the ER. Class Ib here refers to non-classical class I molecules, such as those of the HLA-E gene family." [GOC:add, PMID:15928678] synonym: "endogenous peptide antigen processing and presentation via MHC class Ib via ER pathway" EXACT [] is_a: GO:0002476 ! antigen processing and presentation of endogenous peptide antigen via MHC class Ib [Term] id: GO:0002489 name: antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC class Ib protein complex following intracellular transport via a TAP (transporter associated with antigen processing) pathway. The peptide is typically a fragment of a larger endogenous protein which has been degraded within the cell and is dependent on TAP transport from the cytosol to ER for association with the MHC class Ib molecule. Class Ib here refers to non-classical class I molecules, such as those of the HLA-E gene family." [GOC:add, PMID:15928678] synonym: "endogenous peptide antigen processing and presentation via MHC class Ib via ER pathway, TAP-dependent" EXACT [] synonym: "TAP-dependent antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway" EXACT [] synonym: "TAP-dependent endogenous peptide antigen processing and presentation via MHC class Ib via ER pathway" EXACT [] is_a: GO:0002488 ! antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway [Term] id: GO:0002490 name: antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-independent namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC class Ib protein complex following intracellular transport via a pathway not requiring TAP (transporter associated with antigen processing). The peptide is typically a fragment of a larger endogenous protein which has been degraded within the cell. Class Ib here refers to non-classical class I molecules, such as those of the HLA-E gene family." [GOC:add, PMID:15928678] synonym: "endogenous peptide antigen processing and presentation via MHC class Ib via ER pathway, TAP-independent" EXACT [] synonym: "TAP-independent antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway" EXACT [] synonym: "TAP-independent endogenous peptide antigen processing and presentation via MHC class Ib via ER pathway" EXACT [] is_a: GO:0002488 ! antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway [Term] id: GO:0002491 name: antigen processing and presentation of endogenous peptide antigen via MHC class II namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC class II protein complex. The peptide antigen is typically, but not always, processed from a whole protein." [GOC:add, PMID:15531770, PMID:16181338] synonym: "endogenous peptide antigen processing and presentation via MHC class II" EXACT [] is_a: GO:0002483 ! antigen processing and presentation of endogenous peptide antigen is_a: GO:0002495 ! antigen processing and presentation of peptide antigen via MHC class II [Term] id: GO:0002492 name: peptide antigen assembly with MHC class Ib protein complex namespace: biological_process def: "The binding of a peptide antigen to the antigen binding groove of an MHC class Ib protein complex. Class Ib here refers to non-classical class I molecules, such as those of the HLA-E gene family." [GOC:add, PMID:15928678] is_a: GO:0002501 ! peptide antigen assembly with MHC protein complex relationship: part_of GO:0002398 ! MHC class Ib protein complex assembly relationship: part_of GO:0002428 ! antigen processing and presentation of peptide antigen via MHC class Ib [Term] id: GO:0002493 name: lipid antigen assembly with MHC class Ib protein complex namespace: biological_process def: "The binding of a lipid antigen to the antigen binding groove of an MHC class Ib protein complex. Class Ib here refers to non-classical class I molecules, such as those of the CD1 gene family." [GOC:add, PMID:15928678, PMID:15928680] is_a: GO:0065005 ! protein-lipid complex assembly relationship: part_of GO:0002398 ! MHC class Ib protein complex assembly relationship: part_of GO:0048003 ! antigen processing and presentation of lipid antigen via MHC class Ib [Term] id: GO:0002494 name: lipid antigen transport namespace: biological_process def: "The directed movement of a lipid antigen into, out of, within or between cells by means of some external agent such as a transporter or pore." [GOC:add, PMID:15928678, PMID:15928680] is_a: GO:0006869 ! lipid transport relationship: part_of GO:0048003 ! antigen processing and presentation of lipid antigen via MHC class Ib [Term] id: GO:0002495 name: antigen processing and presentation of peptide antigen via MHC class II namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen on its cell surface in association with an MHC class II protein complex. The peptide antigen is typically, but not always, processed from a whole protein." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15531770, PMID:15771591] synonym: "peptide antigen processing and presentation via MHC class II" EXACT [] is_a: GO:0002504 ! antigen processing and presentation of peptide or polysaccharide antigen via MHC class II is_a: GO:0048002 ! antigen processing and presentation of peptide antigen [Term] id: GO:0002496 name: proteolysis associated with antigen processing and presentation namespace: biological_process def: "The hydrolysis of a peptide bond or bonds within a protein contributing to antigen processing and presentation." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15224092, PMID:15771591] is_a: GO:0051603 ! proteolysis involved in cellular protein catabolic process relationship: part_of GO:0048002 ! antigen processing and presentation of peptide antigen [Term] id: GO:0002497 name: proteasomal proteolysis associated with antigen processing and presentation namespace: biological_process def: "The hydrolysis of a peptide bond or bonds within a protein by the proteasome complex contributing to antigen processing and presentation." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15224092, PMID:15771591] is_a: GO:0002496 ! proteolysis associated with antigen processing and presentation is_a: GO:0043161 ! proteasomal ubiquitin-dependent protein catabolic process [Term] id: GO:0002498 name: proteolysis within endoplasmic reticulum associated with antigen processing and presentation namespace: biological_process def: "The hydrolysis of a peptide bond or bonds within a protein by ER resident proteases contributing to antigen processing and presentation." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15224092, PMID:15771591] synonym: "endoplasmic reticulum proteolysis associated with antigen processing and presentation" EXACT [] synonym: "ER proteolysis associated with antigen processing and presentation" EXACT [] synonym: "proteolysis within ER associated with antigen processing and presentation" EXACT [] is_a: GO:0002496 ! proteolysis associated with antigen processing and presentation [Term] id: GO:0002499 name: proteolysis within endosome associated with antigen processing and presentation namespace: biological_process def: "The hydrolysis of a peptide bond or bonds within a protein by endosomal resident proteases contributing to antigen processing and presentation." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15771591] synonym: "endosomal proteolysis associated with antigen processing and presentation" EXACT [] is_a: GO:0002496 ! proteolysis associated with antigen processing and presentation [Term] id: GO:0002500 name: proteolysis within lysosome associated with antigen processing and presentation namespace: biological_process def: "The hydrolysis of a peptide bond or bonds within a protein by lysosomal resident proteases contributing to antigen processing and presentation." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15771591] synonym: "lysosomal proteolysis associated with antigen processing and presentation" EXACT [] is_a: GO:0002496 ! proteolysis associated with antigen processing and presentation is_a: GO:0007039 ! vacuolar protein catabolic process [Term] id: GO:0002501 name: peptide antigen assembly with MHC protein complex namespace: biological_process def: "The binding of a peptide to the antigen binding groove of an MHC protein complex." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15771591] is_a: GO:0043623 ! cellular protein complex assembly relationship: part_of GO:0002396 ! MHC protein complex assembly relationship: part_of GO:0048002 ! antigen processing and presentation of peptide antigen [Term] id: GO:0002502 name: peptide antigen assembly with MHC class I protein complex namespace: biological_process def: "The binding of a peptide to the antigen binding groove of an MHC class I protein complex. Class I here refers to classical class I molecules." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15771591] is_a: GO:0002501 ! peptide antigen assembly with MHC protein complex relationship: part_of GO:0002397 ! MHC class I protein complex assembly relationship: part_of GO:0002474 ! antigen processing and presentation of peptide antigen via MHC class I [Term] id: GO:0002503 name: peptide antigen assembly with MHC class II protein complex namespace: biological_process def: "The binding of a peptide to the antigen binding groove of an MHC class II protein complex." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15771591] is_a: GO:0002501 ! peptide antigen assembly with MHC protein complex relationship: part_of GO:0002399 ! MHC class II protein complex assembly relationship: part_of GO:0002495 ! antigen processing and presentation of peptide antigen via MHC class II [Term] id: GO:0002504 name: antigen processing and presentation of peptide or polysaccharide antigen via MHC class II namespace: biological_process def: "The process by which an antigen-presenting cell expresses antigen (peptide or polysaccharide) on its cell surface in association with an MHC class II protein complex." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15531770, PMID:15771591, PMID:16153240] synonym: "peptide or polysaccharide antigen processing and presentation of via MHC class II" EXACT [] is_a: GO:0019882 ! antigen processing and presentation [Term] id: GO:0002505 name: antigen processing and presentation of polysaccharide antigen via MHC class II namespace: biological_process def: "The process by which an antigen-presenting cell expresses a polysaccharide antigen on its cell surface in association with an MHC class II protein complex." [GOC:add, PMID:16153240] synonym: "polysaccharide antigen processing and presentation via MHC class II" EXACT [] is_a: GO:0002504 ! antigen processing and presentation of peptide or polysaccharide antigen via MHC class II [Term] id: GO:0002506 name: polysaccharide assembly with MHC class II protein complex namespace: biological_process def: "The binding of a polysaccharide to the antigen binding groove of an MHC class II protein complex." [GOC:add, PMID:16153240] is_a: GO:0065006 ! protein-carbohydrate complex assembly relationship: part_of GO:0002399 ! MHC class II protein complex assembly relationship: part_of GO:0002505 ! antigen processing and presentation of polysaccharide antigen via MHC class II [Term] id: GO:0002507 name: tolerance induction namespace: biological_process def: "A process that directly activates any of the steps required for tolerance, a physiologic state in which the immune system does not react destructively against the components of an organism that harbors it or against antigens that are introduced to it." [GO_REF:0000022, GOC:jal, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. is_a: GO:0002376 ! immune system process [Term] id: GO:0002508 name: central tolerance induction namespace: biological_process def: "Tolerance induction in the central lymphoid organs: the thymus and bone marrow." [GO_REF:0000022, GOC:jal, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. is_a: GO:0002507 ! tolerance induction relationship: part_of GO:0002520 ! immune system development [Term] id: GO:0002509 name: central tolerance induction to self antigen namespace: biological_process def: "Tolerance induction in the central lymphoid organs directed at self antigens." [GOC:jal, ISBN:0781735149 "Fundamental Immunology", PMID:16460922] is_a: GO:0002508 ! central tolerance induction is_a: GO:0002513 ! tolerance induction to self antigen [Term] id: GO:0002510 name: central B cell tolerance induction namespace: biological_process def: "Tolerance induction of B cells in the bone marrow." [GOC:jal, PMID:16460922] synonym: "central B lymphocyte tolerance induction" EXACT [] synonym: "central B-cell tolerance induction" EXACT [] synonym: "central B-lymphocyte tolerance induction" EXACT [] is_a: GO:0002508 ! central tolerance induction is_a: GO:0002514 ! B cell tolerance induction [Term] id: GO:0002511 name: central B cell receptor editing namespace: biological_process def: "Receptor editing occurring in B cells in the bone marrow." [GOC:jal, PMID:16460922] synonym: "central B lymphocyte receptor editing" EXACT [] synonym: "central B-cell receptor editing" EXACT [] synonym: "central B-lymphocyte receptor editing" EXACT [] is_a: GO:0002452 ! B cell receptor editing [Term] id: GO:0002512 name: central T cell tolerance induction namespace: biological_process def: "Tolerance induction of T cells in the thymus." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "central T lymphocyte tolerance induction" EXACT [] synonym: "central T-cell tolerance induction" EXACT [] synonym: "central T-lymphocyte tolerance induction" EXACT [] is_a: GO:0002508 ! central tolerance induction is_a: GO:0002517 ! T cell tolerance induction [Term] id: GO:0002513 name: tolerance induction to self antigen namespace: biological_process def: "Tolerance induction directed at self antigens." [GO_REF:0000022, GOC:jal, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. is_a: GO:0002507 ! tolerance induction [Term] id: GO:0002514 name: B cell tolerance induction namespace: biological_process def: "A process involving any mechanism for tolerance induction in B cells." [GOC:jal, ISBN:0781735149 "Fundamental Immunology", PMID:16460922] synonym: "B lymphocyte tolerance induction" EXACT [] synonym: "B-cell tolerance induction" EXACT [] synonym: "B-lymphocyte tolerance induction" EXACT [] is_a: GO:0002507 ! tolerance induction [Term] id: GO:0002515 name: B cell anergy namespace: biological_process def: "Any process contributing to anergy in B cells, a state of functional inactivation which is part of B cell tolerance induction." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "B lymphocyte anergy" EXACT [] synonym: "B-cell anergy" EXACT [] synonym: "B-lymphocyte anergy" EXACT [] is_a: GO:0002249 ! lymphocyte anergy is_a: GO:0002514 ! B cell tolerance induction [Term] id: GO:0002516 name: B cell deletion namespace: biological_process def: "The apoptotic death of B cells which is part of B cell tolerance induction." [GOC:add, GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "B lymphocyte deletion" EXACT [] synonym: "B-cell deletion" EXACT [] synonym: "B-lymphocyte deletion" EXACT [] is_a: GO:0001783 ! B cell apoptosis relationship: part_of GO:0002514 ! B cell tolerance induction [Term] id: GO:0002517 name: T cell tolerance induction namespace: biological_process def: "A process involving any mechanism for tolerance induction in T cells." [GOC:jal, ISBN:0781735149 "Fundamental Immunology", PMID:16551263] synonym: "T lymphocyte tolerance induction" EXACT [] synonym: "T-cell tolerance induction" EXACT [] synonym: "T-lymphocyte tolerance induction" EXACT [] is_a: GO:0002507 ! tolerance induction [Term] id: GO:0002518 name: lymphocyte chemotaxis across high endothelial venule namespace: biological_process def: "The movement of a lymphocyte to cross a high endothelial venule in response to an external stimulus." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:15122201] is_a: GO:0048247 ! lymphocyte chemotaxis [Term] id: GO:0002519 name: natural killer cell tolerance induction namespace: biological_process def: "Tolerance induction of natural killer cells." [GOC:jal, PMID:16546094] synonym: "NK cell tolerance induction" EXACT [] is_a: GO:0002507 ! tolerance induction [Term] id: GO:0002520 name: immune system development namespace: biological_process def: "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." [GOC:add, GOC:dph] is_a: GO:0002376 ! immune system process is_a: GO:0048731 ! system development [Term] id: GO:0002521 name: leukocyte differentiation namespace: biological_process def: "The process whereby a relatively unspecialized hemopoietic precursor cell acquires the specialized features of a plasmacytoid dendritic cell or any cell of the myeloid leukocyte or lymphocyte lineages." [GOC:add, PMID:16551264] synonym: "immune cell differentiation" EXACT [] synonym: "leucocyte differentiation" EXACT [] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0030097 ! hemopoiesis [Term] id: GO:0002522 name: leukocyte migration involved in immune response namespace: biological_process def: "The movement of a leukocyte within or between different tissues and organs of the body as part of an immune response." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:14680625, PMID:14708592, PMID:7507411, PMID:8600538] synonym: "immune cell migration during immune response" EXACT [] synonym: "immune cell trafficking during immune response" EXACT [] synonym: "leucocyte migration during immune response" EXACT [] synonym: "leucocyte trafficking during immune response" EXACT [] synonym: "leukocyte trafficking during immune response" EXACT [] is_a: GO:0050900 ! leukocyte migration relationship: part_of GO:0006955 ! immune response [Term] id: GO:0002523 name: leukocyte migration involved in inflammatory response namespace: biological_process def: "The movement of a leukocyte within or between different tissues and organs of the body contributing to an inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:14680625, PMID:14708592, PMID:7507411, PMID:8600538] synonym: "immune cell migration during inflammatory response" RELATED [] synonym: "immune cell trafficking during inflammatory response" RELATED [] synonym: "leucocyte migration during inflammatory response" RELATED [] synonym: "leucocyte trafficking during inflammatory response" RELATED [] synonym: "leukocyte migration during inflammatory response" RELATED [GOC:dph] synonym: "leukocyte trafficking during inflammatory response" RELATED [] is_a: GO:0050900 ! leukocyte migration relationship: part_of GO:0006954 ! inflammatory response [Term] id: GO:0002524 name: hypersensitivity namespace: biological_process def: "An inflammatory response to an exogenous environmental antigen or an endogenous antigen initiated by the adaptive immune system." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "hypersensitivity response" RELATED [ISBN:0781735149 "Fundamental Immunology"] xref: Wikipedia:Hypersensitivity is_a: GO:0002438 ! acute inflammatory response to antigenic stimulus [Term] id: GO:0002525 name: acute inflammatory response to non-antigenic stimulus namespace: biological_process def: "An acute inflammatory response to non-antigenic stimuli such as heat or physical trauma." [GOC:jal, PMID:16459497, PMID:9073326] is_a: GO:0002526 ! acute inflammatory response [Term] id: GO:0002526 name: acute inflammatory response namespace: biological_process def: "Inflammation which comprises a rapid, short-lived, relatively uniform response to acute injury or antigenic challenge and is characterized by accumulations of fluid, plasma proteins, and granulocytic leukocytes. An acute inflammatory response occurs within a matter of minutes or hours, and either resolves within a few days or becomes a chronic inflammatory response." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. is_a: GO:0006954 ! inflammatory response [Term] id: GO:0002527 name: vasodilation involved in acute inflammatory response namespace: biological_process def: "An increase in the internal diameter of blood vessels, especially arterioles or capillaries, usually resulting in a decrease in blood pressure contributing to an acute inflammatory response." [GOC:jal] synonym: "vasodilation during acute inflammatory response" RELATED [GOC:dph] is_a: GO:0042311 ! vasodilation relationship: part_of GO:0002526 ! acute inflammatory response [Term] id: GO:0002528 name: regulation of vascular permeability involved in acute inflammatory response namespace: biological_process def: "Any process that modulates the extent to which blood vessels can be pervaded by fluid contributing to an acute inflammatory response." [GOC:jal] synonym: "regulation of vascular permeability during acute inflammatory response" RELATED [GOC:dph] is_a: GO:0043114 ! regulation of vascular permeability relationship: part_of GO:0002526 ! acute inflammatory response [Term] id: GO:0002529 name: regulation of plasma kallikrein-kinin cascade namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of the plasma kallikrein-kinin cascade." [GOC:add] is_a: GO:0002256 ! regulation of kinin cascade intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002353 ! plasma kallikrein-kinin cascade relationship: regulates GO:0002353 ! plasma kallikrein-kinin cascade [Term] id: GO:0002530 name: regulation of systemic arterial blood pressure involved in acute-phase response namespace: biological_process def: "Any process that modulates the force with which blood travels through the circulatory system that contributes to the acute phase response. The acute phase response occurs during the early phases of an infection and is marked by changes in the production of plasma proteins such as C-reactive protein." [GOC:jal, ISBN:081533642X] synonym: "blood pressure regulation during acute phase response" RELATED [] synonym: "regulation of systemic arterial blood pressure during acute phase response" RELATED [GOC:tb] is_a: GO:0003073 ! regulation of systemic arterial blood pressure relationship: part_of GO:0006953 ! acute-phase response [Term] id: GO:0002531 name: regulation of heart contraction involved in acute-phase response namespace: biological_process def: "Any process that modulates the frequency, rate or extent of heart contraction that contributes to the acute phase response. The acute phase response occurs during the early phases of an infection and is marked by changes in the production of plasma proteins such as C-reactive protein." [GOC:jal, PMID:15642986, PMID:15834430] synonym: "regulation of cardiac contraction during acute phase response" RELATED [] synonym: "regulation of heart contraction during acute phase response" RELATED [GOC:tb] is_a: GO:0008016 ! regulation of heart contraction relationship: part_of GO:0006953 ! acute-phase response [Term] id: GO:0002532 name: production of molecular mediator involved in inflammatory response namespace: biological_process def: "The synthesis or release of any molecular mediator of the inflammatory response following an inflammatory stimulus, resulting in an increase in its intracellular or extracellular levels." [GOC:add, GOC:dph, GOC:tb, ISBN:0781735149 "Fundamental Immunology"] synonym: "production of cellular mediator of acute inflammation" RELATED [] synonym: "production of molecular mediator involved in acute inflammatory response" BROAD [] is_a: GO:0032501 ! multicellular organismal process relationship: part_of GO:0006954 ! inflammatory response [Term] id: GO:0002533 name: secretion of lysosomal enzymes involved in inflammatory response namespace: biological_process def: "The regulated release of lysosomal enzymes by a cell or group of cells as part of an inflammatory response." [GOC:jal, PMID:11836514] synonym: "secretion of lysosomal enzymes involved in acute inflammatory response" BROAD [] is_a: GO:0033299 ! secretion of lysosomal enzymes relationship: part_of GO:0002393 ! production of lysosomal enzymes involved in inflammatory response [Term] id: GO:0002534 name: cytokine production involved in inflammatory response namespace: biological_process def: "The synthesis or release of a cytokine following a inflammatory stimulus as part of an inflammatory response, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "cytokine production involved in acute inflammatory response" BROAD [] is_a: GO:0001816 ! cytokine production is_a: GO:0002532 ! production of molecular mediator involved in inflammatory response [Term] id: GO:0002535 name: platelet activating factor secretion involved in inflammatory response namespace: biological_process def: "The regulated release of platelet activating factor by a cell or group of cells as part of an inflammatory response." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "platelet activating factor secretion involved in acute inflammatory response" BROAD [] is_a: GO:0002392 ! platelet activating factor secretion relationship: part_of GO:0002391 ! platelet activating factor production involved in inflammatory response [Term] id: GO:0002536 name: respiratory burst involved in inflammatory response namespace: biological_process def: "A phase of elevated metabolic activity, during which oxygen consumption increases following a stimulus as part of an inflammatory response; this leads to the production, by an NADH dependent system, of hydrogen peroxide (H2O2), superoxide anions and hydroxyl radicals, resulting in an increase in their intracellular or extracellular levels." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "oxidative burst during acute inflammatory response " BROAD [] synonym: "production of reactive oxygen species during acute inflammatory response" BROAD [] synonym: "respiratory burst involved in acute inflammatory response" BROAD [] is_a: GO:0002532 ! production of molecular mediator involved in inflammatory response is_a: GO:0002679 ! respiratory burst involved in defense response [Term] id: GO:0002537 name: production of nitric oxide involved in inflammatory response namespace: biological_process def: "The synthesis or release of nitric oxide following a stimulus as part of an inflammatory response, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "production of nitric oxide involved in acute inflammatory response" BROAD [] is_a: GO:0002532 ! production of molecular mediator involved in inflammatory response [Term] id: GO:0002538 name: production of arachidonic acid metabolites involved in inflammatory response namespace: biological_process def: "The synthesis or release of products of arachidonic acid metabolism following a stimulus as part of an inflammatory response, resulting in an increase in their intracellular or extracellular levels." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "production of arachidonic acid metabolites involved in acute inflammatory response" BROAD [] is_a: GO:0002532 ! production of molecular mediator involved in inflammatory response [Term] id: GO:0002539 name: prostaglandin production involved in inflammatory response namespace: biological_process def: "The synthesis or release of any prostaglandin following a stimulus as part of an inflammatory response, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "prostaglandin production involved in acute inflammatory response" BROAD [] is_a: GO:0002538 ! production of arachidonic acid metabolites involved in inflammatory response [Term] id: GO:0002540 name: leukotriene production involved in inflammatory response namespace: biological_process def: "The synthesis or release of any leukotriene following a stimulus as part of an inflammatory response, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "leukotriene production involved in acute inflammatory response" BROAD [] is_a: GO:0002538 ! production of arachidonic acid metabolites involved in inflammatory response [Term] id: GO:0002541 name: activation of plasma proteins involved in acute inflammatory response namespace: biological_process def: "Any process activating plasma proteins by proteolysis as part of an acute inflammatory response." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0051605 ! protein maturation by peptide bond cleavage relationship: part_of GO:0002526 ! acute inflammatory response [Term] id: GO:0002542 name: Factor XII activation namespace: biological_process def: "Any process that activates Factor XII (Hageman factor). Factor XII is a protein synthesized by the liver that circulates in an inactive form until it encounters collagen or basement membrane or activated platelets (as occurs at the site of endothelial injury). Factor XII then undergoes a conformational change (becoming factor XIIa), exposing an active serine center that can subsequently cleave protein substrates and activate a variety of mediator systems. Factor XII is a participant in the clotting cascade as well as the kinin cascade." [GOC:jal, ISBN:0721601871] synonym: "Hageman factor activation" EXACT [] is_a: GO:0002673 ! regulation of acute inflammatory response is_a: GO:0010954 ! positive regulation of protein maturation by peptide bond cleavage relationship: part_of GO:0002353 ! plasma kallikrein-kinin cascade relationship: positively_regulates GO:0002541 ! activation of plasma proteins involved in acute inflammatory response [Term] id: GO:0002543 name: activation of blood coagulation via clotting cascade namespace: biological_process def: "Any process that initiates the clotting cascade of blood coagulation, a cascade of plasma enzymes that is triggered following damage to blood vessels, leading to formation of a clot." [GOC:jal, ISBN:0781735149 "Fundamental Immunology"] synonym: "activation of clotting cascade" EXACT [] is_a: GO:0030194 ! positive regulation of blood coagulation relationship: part_of GO:0002526 ! acute inflammatory response [Term] id: GO:0002544 name: chronic inflammatory response namespace: biological_process def: "Inflammation of prolonged duration (weeks or months) in which active inflammation, tissue destruction, and attempts at repair are proceeding simultaneously. Although it may follow acute inflammation, chronic inflammation frequently begins insidiously, as a low-grade, smoldering, often asymptomatic response." [GO_REF:0000022, GOC:jal, GOC:mtg_15nov05, ISBN:0781735149 "Fundamental Immunology"] comment: This term was added by GO_REF:0000022. is_a: GO:0006954 ! inflammatory response [Term] id: GO:0002545 name: chronic inflammatory response to non-antigenic stimulus namespace: biological_process def: "A chronic inflammatory response to a non-antigenic stimulus such as heat or physical trauma." [GOC:jal] is_a: GO:0002544 ! chronic inflammatory response [Term] id: GO:0002546 name: negative regulation of tissue kallikrein-kinin cascade namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate, or extent of the tissue kallikrein-kinin cascade." [GOC:add] synonym: "down regulation of tissue kallikrein-kinin cascade" EXACT [] synonym: "down-regulation of tissue kallikrein-kinin cascade" EXACT [] synonym: "downregulation of tissue kallikrein-kinin cascade" EXACT [] synonym: "inhibition of tissue kallikrein-kinin cascade" NARROW [] synonym: "negative regulation of glandular kallikrein-kinin cascade" EXACT [] is_a: GO:0002257 ! negative regulation of kinin cascade is_a: GO:0002382 ! regulation of tissue kallikrein-kinin cascade intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002255 ! tissue kallikrein-kinin cascade relationship: negatively_regulates GO:0002255 ! tissue kallikrein-kinin cascade [Term] id: GO:0002547 name: positive regulation of tissue kallikrein-kinin cascade namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of the tissue kallikrein-kinin cascade." [GOC:add] synonym: "activation of tissue kallikrein-kinin cascade" NARROW [] synonym: "positive regulation of glandular kallikrein-kinin cascade" EXACT [] synonym: "stimulation of tissue kallikrein-kinin cascade" NARROW [] synonym: "up regulation of tissue kallikrein-kinin cascade" EXACT [] synonym: "up-regulation of tissue kallikrein-kinin cascade" EXACT [] synonym: "upregulation of tissue kallikrein-kinin cascade" EXACT [] is_a: GO:0002258 ! positive regulation of kinin cascade is_a: GO:0002382 ! regulation of tissue kallikrein-kinin cascade intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002255 ! tissue kallikrein-kinin cascade relationship: positively_regulates GO:0002255 ! tissue kallikrein-kinin cascade [Term] id: GO:0002548 name: monocyte chemotaxis namespace: biological_process def: "The movement of a monocyte in response to an external stimulus." [GOC:add, PMID:11696603, PMID:15173832] is_a: GO:0030595 ! leukocyte chemotaxis [Term] id: GO:0002549 name: negative regulation of plasma kallikrein-kinin cascade namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate, or extent of the plasma kallikrein-kinin cascade." [GOC:add] synonym: "down regulation of plasma kallikrein-kinin cascade" EXACT [] synonym: "down-regulation of plasma kallikrein-kinin cascade" EXACT [] synonym: "downregulation of plasma kallikrein-kinin cascade" EXACT [] synonym: "inhibition of plasma kallikrein-kinin cascade" NARROW [] is_a: GO:0002257 ! negative regulation of kinin cascade is_a: GO:0002529 ! regulation of plasma kallikrein-kinin cascade intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002353 ! plasma kallikrein-kinin cascade relationship: negatively_regulates GO:0002353 ! plasma kallikrein-kinin cascade [Term] id: GO:0002550 name: positive regulation of plasma kallikrein-kinin cascade namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of the plasma kallikrein-kinin cascade." [GOC:add] synonym: "activation of plasma kallikrein-kinin cascade" NARROW [] synonym: "stimulation of plasma kallikrein-kinin cascade" NARROW [] synonym: "up regulation of plasma kallikrein-kinin cascade" EXACT [] synonym: "up-regulation of plasma kallikrein-kinin cascade" EXACT [] synonym: "upregulation of plasma kallikrein-kinin cascade" EXACT [] is_a: GO:0002258 ! positive regulation of kinin cascade is_a: GO:0002529 ! regulation of plasma kallikrein-kinin cascade intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002353 ! plasma kallikrein-kinin cascade relationship: positively_regulates GO:0002353 ! plasma kallikrein-kinin cascade [Term] id: GO:0002551 name: mast cell chemotaxis namespace: biological_process def: "The movement of a mast cell in response to an external stimulus." [GOC:add, PMID:11292027, PMID:12789214, PMID:16448392] is_a: GO:0030595 ! leukocyte chemotaxis [Term] id: GO:0002552 name: serotonin secretion by mast cell namespace: biological_process def: "The regulated release of serotonin by a mast cell or group of mast cells." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002442 ! serotonin secretion involved in inflammatory response relationship: part_of GO:0043303 ! mast cell degranulation [Term] id: GO:0002553 name: histamine secretion by mast cell namespace: biological_process def: "The regulated release of histamine by a mast cell or group of mast cells." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002441 ! histamine secretion involved in inflammatory response relationship: part_of GO:0043303 ! mast cell degranulation [Term] id: GO:0002554 name: serotonin secretion by platelet namespace: biological_process def: "The regulated release of serotonin by a platelet or group of platelets." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002442 ! serotonin secretion involved in inflammatory response relationship: part_of GO:0002576 ! platelet degranulation [Term] id: GO:0002555 name: histamine secretion by platelet namespace: biological_process def: "The regulated release of histamine by a platelet or group of platelets." [GOC:add, PMID:9117517] is_a: GO:0002441 ! histamine secretion involved in inflammatory response relationship: part_of GO:0002576 ! platelet degranulation [Term] id: GO:0002556 name: serotonin secretion by basophil namespace: biological_process def: "The regulated release of serotonin by a basophil or group of basophils." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002442 ! serotonin secretion involved in inflammatory response relationship: part_of GO:0002561 ! basophil degranulation [Term] id: GO:0002557 name: histamine secretion by basophil namespace: biological_process def: "The regulated release of histamine by a basophil or group of basophils." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002441 ! histamine secretion involved in inflammatory response relationship: part_of GO:0002561 ! basophil degranulation [Term] id: GO:0002558 name: type I hypersensitivity mediated by mast cells namespace: biological_process def: "An inflammatory response driven by antigen recognition by antibodies bound to Fc receptors on mast cells, occurring within minutes after exposure of a sensitized individual to the antigen, and leading to the release of a variety of inflammatory mediators such as histamines." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002448 ! mast cell mediated immunity is_a: GO:0016068 ! type I hypersensitivity [Term] id: GO:0002559 name: type I hypersensitivity mediated by basophils namespace: biological_process def: "An inflammatory response driven by antigen recognition by antibodies bound to Fc receptors basophils, occurring within minutes after exposure of a sensitized individual to the antigen, and leading to the release of a variety of inflammatory mediators such as histamines." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002560 ! basophil mediated immunity is_a: GO:0016068 ! type I hypersensitivity [Term] id: GO:0002560 name: basophil mediated immunity namespace: biological_process def: "Any process involved in the carrying out of an immune response by a basophil." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002444 ! myeloid leukocyte mediated immunity [Term] id: GO:0002561 name: basophil degranulation namespace: biological_process def: "The regulated exocytosis of secretory granules containing preformed mediators such as histamine, serotonin, and neutral proteases by a basophil." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002276 ! basophil activation involved in immune response is_a: GO:0043299 ! leukocyte degranulation relationship: part_of GO:0002560 ! basophil mediated immunity [Term] id: GO:0002562 name: somatic diversification of immune receptors via germline recombination within a single locus namespace: biological_process def: "The process by which immune receptor genes are diversified through recombination of the germline genetic elements within a single genetic locus." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:16102575, PMID:16166509] is_a: GO:0002200 ! somatic diversification of immune receptors is_a: GO:0016444 ! somatic cell DNA recombination [Term] id: GO:0002563 name: somatic diversification of immune receptors via alternate splicing namespace: biological_process def: "The process by which immune receptor genes are diversified through alternate splicing." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:16166509] is_a: GO:0002200 ! somatic diversification of immune receptors [Term] id: GO:0002564 name: alternate splicing of immunoglobulin genes namespace: biological_process def: "The generation of alternate transcripts of immunoglobulin genes through alternate splicing of exons." [ISBN:0781735149 "Fundamental Immunology", PMID:9185563] synonym: "alternate splicing of antibody genes" EXACT [] is_a: GO:0002563 ! somatic diversification of immune receptors via alternate splicing is_a: GO:0016445 ! somatic diversification of immunoglobulins [Term] id: GO:0002565 name: somatic diversification of immune receptors via gene conversion namespace: biological_process def: "The process by which immune receptor genes are diversified through gene conversion." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002200 ! somatic diversification of immune receptors is_a: GO:0016444 ! somatic cell DNA recombination [Term] id: GO:0002566 name: somatic diversification of immune receptors via somatic mutation namespace: biological_process def: "The process by which immune receptor genes are diversified through somatic mutation." [ISBN:0781735149 "Fundamental Immunology", PMID:16102575] is_a: GO:0002200 ! somatic diversification of immune receptors [Term] id: GO:0002567 name: somatic diversification of FREP-based immune receptors namespace: biological_process def: "The process by means of which sequence diversity of the FREP-based immune receptors of snails is generated." [GOC:add, PMID:16102575] comment: Note that this type of immune receptor has been found in snails (Pulmonata, ncbi_axonomy_id:6519), but may also be seen in other species. is_a: GO:0002200 ! somatic diversification of immune receptors [Term] id: GO:0002568 name: somatic diversification of T cell receptor genes namespace: biological_process def: "The somatic process by means of which sequence diversity of T cell receptor genes is generated." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "somatic diversification of TCR genes" EXACT [] is_a: GO:0002200 ! somatic diversification of immune receptors relationship: part_of GO:0030217 ! T cell differentiation [Term] id: GO:0002569 name: somatic diversification of immune receptors by N region addition namespace: biological_process def: "The addition of variable numbers of random nucleotides by terminal deoxytransferase in the N regions of heavy chain immunoglobulin and T cell receptor genes. N regions are found at the V-D, D-D, V-J, and D-J recombinational junctions, depending on the immune receptor gene." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0002200 ! somatic diversification of immune receptors [Term] id: GO:0002570 name: somatic diversification of immunoglobulin genes by N region addition namespace: biological_process def: "The addition of variable numbers of random nucleotides by terminal deoxytransferase in the N regions of heavy chain immunoglobulin genes. N regions are found at the V-D and D-J recombinational junctions." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "somatic diversification of antibody genes by N region addition" EXACT [] is_a: GO:0002569 ! somatic diversification of immune receptors by N region addition is_a: GO:0016445 ! somatic diversification of immunoglobulins relationship: part_of GO:0016447 ! somatic recombination of immunoglobulin gene segments [Term] id: GO:0002571 name: somatic diversification of T cell receptor genes by N region addition namespace: biological_process def: "The addition of variable numbers of random nucleotides by terminal deoxytransferase in the N regions of T cell receptor genes. N regions are found at the V-D, D-D, V-J, and D-J recombinational junctions, depending on the T cell receptor gene." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "somatic diversification of TCR genes by N region addition" EXACT [] is_a: GO:0002568 ! somatic diversification of T cell receptor genes is_a: GO:0002569 ! somatic diversification of immune receptors by N region addition relationship: part_of GO:0002681 ! somatic recombination of T cell receptor gene segments [Term] id: GO:0002572 name: pro-T cell differentiation namespace: biological_process def: "The process whereby a precursor cell type acquires the specialized features of a pro-T cell. Pro-T cells are the earliest stage of the T cell lineage but are not fully committed." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] synonym: "pro-T lymphocyte differentiation " EXACT [] is_a: GO:0002320 ! lymphoid progenitor cell differentiation relationship: part_of GO:0030217 ! T cell differentiation [Term] id: GO:0002573 name: myeloid leukocyte differentiation namespace: biological_process def: "The process whereby a relatively unspecialized myeloid precursor cell acquires the specialized features of any cell of the myeloid leukocyte lineage." [GOC:add, PMID:16551251] synonym: "myeloid leucocyte differentiation" EXACT [] is_a: GO:0002521 ! leukocyte differentiation is_a: GO:0030099 ! myeloid cell differentiation [Term] id: GO:0002574 name: thrombocyte differentiation namespace: biological_process def: "The process whereby a relatively unspecialized myeloid precursor cell acquires the specialized features of a thrombocyte, a nucleated cell found in all vertebrates but mammals involved in hemostasis." [GOC:add] comment: Note that platelets are the non-nucleated mammalian functional equivalent of the nucleated thrombocytes of non-mammalian vertebrates and are sometimes also referred to as thrombocytes. Platelet formation in mammals is covered by the biological_process term platelet formation ; GO:0030220. is_a: GO:0030099 ! myeloid cell differentiation [Term] id: GO:0002575 name: basophil chemotaxis namespace: biological_process def: "The movement of a basophil in response to an external stimulus." [GOC:add, PMID:11292027] is_a: GO:0030595 ! leukocyte chemotaxis [Term] id: GO:0002576 name: platelet degranulation namespace: biological_process def: "The regulated exocytosis of secretory granules containing preformed mediators such as histamine and serotonin by a platelet." [GOC:add] synonym: "platelet exocytosis" EXACT [] xref: Reactome:114608 "Platelet degranulation" xref: Reactome:563163 "Platelet degranulation" xref: Reactome:588773 "Platelet degranulation" xref: Reactome:609499 "Platelet degranulation" xref: Reactome:634206 "Platelet degranulation" xref: Reactome:645705 "Platelet degranulation" xref: Reactome:656036 "Platelet degranulation" xref: Reactome:661215 "Platelet degranulation" xref: Reactome:666992 "Platelet degranulation" xref: Reactome:673131 "Platelet degranulation" xref: Reactome:678827 "Platelet degranulation" xref: Reactome:683759 "Platelet degranulation" xref: Reactome:689981 "Platelet degranulation" xref: Reactome:701754 "Platelet degranulation" xref: Reactome:716330 "Platelet degranulation" xref: Reactome:720829 "Platelet degranulation" xref: Reactome:728274 "Platelet degranulation" xref: Reactome:731099 "Platelet degranulation" xref: Reactome:733101 "Platelet degranulation" xref: Reactome:735650 "Platelet degranulation" xref: Reactome:736591 "Platelet degranulation" xref: Reactome:738618 "Platelet degranulation" is_a: GO:0006887 ! exocytosis [Term] id: GO:0002577 name: regulation of antigen processing and presentation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antigen processing and presentation." [GOC:add] is_a: GO:0002682 ! regulation of immune system process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0019882 ! antigen processing and presentation relationship: regulates GO:0019882 ! antigen processing and presentation [Term] id: GO:0002578 name: negative regulation of antigen processing and presentation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation." [GOC:add] synonym: "down regulation of antigen processing and presentation" EXACT [] synonym: "down-regulation of antigen processing and presentation" EXACT [] synonym: "downregulation of antigen processing and presentation" EXACT [] synonym: "inhibition of antigen processing and presentation" NARROW [] is_a: GO:0002577 ! regulation of antigen processing and presentation is_a: GO:0002683 ! negative regulation of immune system process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0019882 ! antigen processing and presentation relationship: negatively_regulates GO:0019882 ! antigen processing and presentation [Term] id: GO:0002579 name: positive regulation of antigen processing and presentation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation." [GOC:add] synonym: "activation of antigen processing and presentation" NARROW [] synonym: "stimulation of antigen processing and presentation" NARROW [] synonym: "up regulation of antigen processing and presentation" EXACT [] synonym: "up-regulation of antigen processing and presentation" EXACT [] synonym: "upregulation of antigen processing and presentation" EXACT [] is_a: GO:0002577 ! regulation of antigen processing and presentation is_a: GO:0002684 ! positive regulation of immune system process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0019882 ! antigen processing and presentation relationship: positively_regulates GO:0019882 ! antigen processing and presentation [Term] id: GO:0002580 name: regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antigen processing and presentation of antigen (peptide or polysaccharide) via MHC class II." [GOC:add] synonym: "regulation of peptide or polysaccharide antigen processing and presentation via MHC class II" EXACT [] is_a: GO:0002577 ! regulation of antigen processing and presentation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002504 ! antigen processing and presentation of peptide or polysaccharide antigen via MHC class II relationship: regulates GO:0002504 ! antigen processing and presentation of peptide or polysaccharide antigen via MHC class II [Term] id: GO:0002581 name: negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation of antigen (peptide or polysaccharide) via MHC class II." [GOC:add] synonym: "down regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II" EXACT [] synonym: "down-regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II" EXACT [] synonym: "downregulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II" EXACT [] synonym: "inhibition of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II" NARROW [] synonym: "negative regulation of peptide or polysaccharide antigen processing and presentation via MHC class II" EXACT [] is_a: GO:0002578 ! negative regulation of antigen processing and presentation is_a: GO:0002580 ! regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002504 ! antigen processing and presentation of peptide or polysaccharide antigen via MHC class II relationship: negatively_regulates GO:0002504 ! antigen processing and presentation of peptide or polysaccharide antigen via MHC class II [Term] id: GO:0002582 name: positive regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation of antigen (peptide or polysaccharide) via MHC class II." [GOC:add] synonym: "activation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II" NARROW [] synonym: "positive regulation of peptide or polysaccharide antigen processing and presentation via MHC class II" EXACT [] synonym: "stimulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II" NARROW [] synonym: "up regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II" EXACT [] synonym: "up-regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II" EXACT [] synonym: "upregulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II" EXACT [] is_a: GO:0002579 ! positive regulation of antigen processing and presentation is_a: GO:0002580 ! regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002504 ! antigen processing and presentation of peptide or polysaccharide antigen via MHC class II relationship: positively_regulates GO:0002504 ! antigen processing and presentation of peptide or polysaccharide antigen via MHC class II [Term] id: GO:0002583 name: regulation of antigen processing and presentation of peptide antigen namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antigen processing and presentation of peptide antigen." [GOC:add] synonym: "regulation of peptide antigen processing and presentation" EXACT [] is_a: GO:0002577 ! regulation of antigen processing and presentation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048002 ! antigen processing and presentation of peptide antigen relationship: regulates GO:0048002 ! antigen processing and presentation of peptide antigen [Term] id: GO:0002584 name: negative regulation of antigen processing and presentation of peptide antigen namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation of peptide antigen." [GOC:add] synonym: "down regulation of antigen processing and presentation of peptide antigen" EXACT [] synonym: "down-regulation of antigen processing and presentation of peptide antigen" EXACT [] synonym: "downregulation of antigen processing and presentation of peptide antigen" EXACT [] synonym: "inhibition of antigen processing and presentation of peptide antigen" NARROW [] synonym: "negative regulation of peptide antigen processing and presentation" EXACT [] is_a: GO:0002578 ! negative regulation of antigen processing and presentation is_a: GO:0002583 ! regulation of antigen processing and presentation of peptide antigen intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048002 ! antigen processing and presentation of peptide antigen relationship: negatively_regulates GO:0048002 ! antigen processing and presentation of peptide antigen [Term] id: GO:0002585 name: positive regulation of antigen processing and presentation of peptide antigen namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation of peptide antigen." [GOC:add] synonym: "activation of antigen processing and presentation of peptide antigen" NARROW [] synonym: "positive regulation of peptide antigen processing and presentation" EXACT [] synonym: "stimulation of antigen processing and presentation of peptide antigen" NARROW [] synonym: "up regulation of antigen processing and presentation of peptide antigen" EXACT [] synonym: "up-regulation of antigen processing and presentation of peptide antigen" EXACT [] synonym: "upregulation of antigen processing and presentation of peptide antigen" EXACT [] is_a: GO:0002579 ! positive regulation of antigen processing and presentation is_a: GO:0002583 ! regulation of antigen processing and presentation of peptide antigen intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048002 ! antigen processing and presentation of peptide antigen relationship: positively_regulates GO:0048002 ! antigen processing and presentation of peptide antigen [Term] id: GO:0002586 name: regulation of antigen processing and presentation of peptide antigen via MHC class II namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class II." [GOC:add] synonym: "regulation of peptide antigen processing and presentation via MHC class II" EXACT [] is_a: GO:0002580 ! regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II is_a: GO:0002583 ! regulation of antigen processing and presentation of peptide antigen intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002495 ! antigen processing and presentation of peptide antigen via MHC class II relationship: regulates GO:0002495 ! antigen processing and presentation of peptide antigen via MHC class II [Term] id: GO:0002587 name: negative regulation of antigen processing and presentation of peptide antigen via MHC class II namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class II." [GOC:add] synonym: "down regulation of antigen processing and presentation of peptide antigen via MHC class II" EXACT [] synonym: "down-regulation of antigen processing and presentation of peptide antigen via MHC class II" EXACT [] synonym: "downregulation of antigen processing and presentation of peptide antigen via MHC class II" EXACT [] synonym: "inhibition of antigen processing and presentation of peptide antigen via MHC class II" NARROW [] synonym: "negative regulation of peptide antigen processing and presentation via MHC class II" EXACT [] is_a: GO:0002581 ! negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II is_a: GO:0002584 ! negative regulation of antigen processing and presentation of peptide antigen is_a: GO:0002586 ! regulation of antigen processing and presentation of peptide antigen via MHC class II intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002495 ! antigen processing and presentation of peptide antigen via MHC class II relationship: negatively_regulates GO:0002495 ! antigen processing and presentation of peptide antigen via MHC class II [Term] id: GO:0002588 name: positive regulation of antigen processing and presentation of peptide antigen via MHC class II namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class II." [GOC:add] synonym: "activation of antigen processing and presentation of peptide antigen via MHC class II" NARROW [] synonym: "positive regulation of peptide antigen processing and presentation via MHC class II" EXACT [] synonym: "stimulation of antigen processing and presentation of peptide antigen via MHC class II" NARROW [] synonym: "up regulation of antigen processing and presentation of peptide antigen via MHC class II" EXACT [] synonym: "up-regulation of antigen processing and presentation of peptide antigen via MHC class II" EXACT [] synonym: "upregulation of antigen processing and presentation of peptide antigen via MHC class II" EXACT [] is_a: GO:0002582 ! positive regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II is_a: GO:0002585 ! positive regulation of antigen processing and presentation of peptide antigen is_a: GO:0002586 ! regulation of antigen processing and presentation of peptide antigen via MHC class II intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002495 ! antigen processing and presentation of peptide antigen via MHC class II relationship: positively_regulates GO:0002495 ! antigen processing and presentation of peptide antigen via MHC class II [Term] id: GO:0002589 name: regulation of antigen processing and presentation of peptide antigen via MHC class I namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class I." [GOC:add] synonym: "regulation of peptide antigen processing and presentation via MHC class I" EXACT [] is_a: GO:0002583 ! regulation of antigen processing and presentation of peptide antigen intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002474 ! antigen processing and presentation of peptide antigen via MHC class I relationship: regulates GO:0002474 ! antigen processing and presentation of peptide antigen via MHC class I [Term] id: GO:0002590 name: negative regulation of antigen processing and presentation of peptide antigen via MHC class I namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class I." [GOC:add] synonym: "down regulation of antigen processing and presentation of peptide antigen via MHC class I" EXACT [] synonym: "down-regulation of antigen processing and presentation of peptide antigen via MHC class I" EXACT [] synonym: "downregulation of antigen processing and presentation of peptide antigen via MHC class I" EXACT [] synonym: "inhibition of antigen processing and presentation of peptide antigen via MHC class I" NARROW [] synonym: "negative regulation of peptide antigen processing and presentation via MHC class I" EXACT [] is_a: GO:0002584 ! negative regulation of antigen processing and presentation of peptide antigen is_a: GO:0002589 ! regulation of antigen processing and presentation of peptide antigen via MHC class I intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002474 ! antigen processing and presentation of peptide antigen via MHC class I relationship: negatively_regulates GO:0002474 ! antigen processing and presentation of peptide antigen via MHC class I [Term] id: GO:0002591 name: positive regulation of antigen processing and presentation of peptide antigen via MHC class I namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class I." [GOC:add] synonym: "activation of antigen processing and presentation of peptide antigen via MHC class I" NARROW [] synonym: "positive regulation of peptide antigen processing and presentation via MHC class I" EXACT [] synonym: "stimulation of antigen processing and presentation of peptide antigen via MHC class I" NARROW [] synonym: "up regulation of antigen processing and presentation of peptide antigen via MHC class I" EXACT [] synonym: "up-regulation of antigen processing and presentation of peptide antigen via MHC class I" EXACT [] synonym: "upregulation of antigen processing and presentation of peptide antigen via MHC class I" EXACT [] is_a: GO:0002585 ! positive regulation of antigen processing and presentation of peptide antigen is_a: GO:0002589 ! regulation of antigen processing and presentation of peptide antigen via MHC class I intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002474 ! antigen processing and presentation of peptide antigen via MHC class I relationship: positively_regulates GO:0002474 ! antigen processing and presentation of peptide antigen via MHC class I [Term] id: GO:0002592 name: regulation of antigen processing and presentation via MHC class Ib namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antigen processing and presentation of antigen via MHC class Ib." [GOC:add] is_a: GO:0002577 ! regulation of antigen processing and presentation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002475 ! antigen processing and presentation via MHC class Ib relationship: regulates GO:0002475 ! antigen processing and presentation via MHC class Ib [Term] id: GO:0002593 name: negative regulation of antigen processing and presentation via MHC class Ib namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation of antigen via MHC class Ib." [GOC:add] synonym: "down regulation of antigen processing and presentation via MHC class Ib" EXACT [] synonym: "down-regulation of antigen processing and presentation via MHC class Ib" EXACT [] synonym: "downregulation of antigen processing and presentation via MHC class Ib" EXACT [] synonym: "inhibition of antigen processing and presentation via MHC class Ib" NARROW [] is_a: GO:0002578 ! negative regulation of antigen processing and presentation is_a: GO:0002592 ! regulation of antigen processing and presentation via MHC class Ib intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002475 ! antigen processing and presentation via MHC class Ib relationship: negatively_regulates GO:0002475 ! antigen processing and presentation via MHC class Ib [Term] id: GO:0002594 name: positive regulation of antigen processing and presentation via MHC class Ib namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation of antigen via MHC class Ib." [GOC:add] synonym: "activation of antigen processing and presentation via MHC class Ib" NARROW [] synonym: "stimulation of antigen processing and presentation via MHC class Ib" NARROW [] synonym: "up regulation of antigen processing and presentation via MHC class Ib" EXACT [] synonym: "up-regulation of antigen processing and presentation via MHC class Ib" EXACT [] synonym: "upregulation of antigen processing and presentation via MHC class Ib" EXACT [] is_a: GO:0002579 ! positive regulation of antigen processing and presentation is_a: GO:0002592 ! regulation of antigen processing and presentation via MHC class Ib intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002475 ! antigen processing and presentation via MHC class Ib relationship: positively_regulates GO:0002475 ! antigen processing and presentation via MHC class Ib [Term] id: GO:0002595 name: regulation of antigen processing and presentation of peptide antigen via MHC class Ib namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class Ib." [GOC:add] synonym: "regulation of peptide antigen processing and presentation via MHC class Ib" EXACT [] is_a: GO:0002583 ! regulation of antigen processing and presentation of peptide antigen is_a: GO:0002592 ! regulation of antigen processing and presentation via MHC class Ib intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002428 ! antigen processing and presentation of peptide antigen via MHC class Ib relationship: regulates GO:0002428 ! antigen processing and presentation of peptide antigen via MHC class Ib [Term] id: GO:0002596 name: negative regulation of antigen processing and presentation of peptide antigen via MHC class Ib namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class Ib." [GOC:add] synonym: "down regulation of antigen processing and presentation of peptide antigen via MHC class Ib" EXACT [] synonym: "down-regulation of antigen processing and presentation of peptide antigen via MHC class Ib" EXACT [] synonym: "downregulation of antigen processing and presentation of peptide antigen via MHC class Ib" EXACT [] synonym: "inhibition of antigen processing and presentation of peptide antigen via MHC class Ib" NARROW [] synonym: "negative regulation of peptide antigen processing and presentation via MHC class Ib" EXACT [] is_a: GO:0002584 ! negative regulation of antigen processing and presentation of peptide antigen is_a: GO:0002593 ! negative regulation of antigen processing and presentation via MHC class Ib is_a: GO:0002595 ! regulation of antigen processing and presentation of peptide antigen via MHC class Ib intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002428 ! antigen processing and presentation of peptide antigen via MHC class Ib relationship: negatively_regulates GO:0002428 ! antigen processing and presentation of peptide antigen via MHC class Ib [Term] id: GO:0002597 name: positive regulation of antigen processing and presentation of peptide antigen via MHC class Ib namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class Ib." [GOC:add] synonym: "activation of antigen processing and presentation of peptide antigen via MHC class Ib" NARROW [] synonym: "positive regulation of peptide antigen processing and presentation via MHC class Ib" EXACT [] synonym: "stimulation of antigen processing and presentation of peptide antigen via MHC class Ib" NARROW [] synonym: "up regulation of antigen processing and presentation of peptide antigen via MHC class Ib" EXACT [] synonym: "up-regulation of antigen processing and presentation of peptide antigen via MHC class Ib" EXACT [] synonym: "upregulation of antigen processing and presentation of peptide antigen via MHC class Ib" EXACT [] is_a: GO:0002585 ! positive regulation of antigen processing and presentation of peptide antigen is_a: GO:0002594 ! positive regulation of antigen processing and presentation via MHC class Ib is_a: GO:0002595 ! regulation of antigen processing and presentation of peptide antigen via MHC class Ib intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002428 ! antigen processing and presentation of peptide antigen via MHC class Ib relationship: positively_regulates GO:0002428 ! antigen processing and presentation of peptide antigen via MHC class Ib [Term] id: GO:0002598 name: regulation of antigen processing and presentation of lipid antigen via MHC class Ib namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antigen processing and presentation of lipid antigen via MHC class Ib." [GOC:add] synonym: "regulation of lipid antigen processing and presentation via MHC class Ib" EXACT [] is_a: GO:0002592 ! regulation of antigen processing and presentation via MHC class Ib intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048003 ! antigen processing and presentation of lipid antigen via MHC class Ib relationship: regulates GO:0048003 ! antigen processing and presentation of lipid antigen via MHC class Ib [Term] id: GO:0002599 name: negative regulation of antigen processing and presentation of lipid antigen via MHC class Ib namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation of lipid antigen via MHC class Ib." [GOC:add] synonym: "down regulation of antigen processing and presentation of lipid antigen via MHC class Ib" EXACT [] synonym: "down-regulation of antigen processing and presentation of lipid antigen via MHC class Ib" EXACT [] synonym: "downregulation of antigen processing and presentation of lipid antigen via MHC class Ib" EXACT [] synonym: "inhibition of antigen processing and presentation of lipid antigen via MHC class Ib" NARROW [] synonym: "negative regulation of lipid antigen processing and presentation via MHC class Ib" EXACT [] is_a: GO:0002593 ! negative regulation of antigen processing and presentation via MHC class Ib is_a: GO:0002598 ! regulation of antigen processing and presentation of lipid antigen via MHC class Ib intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048003 ! antigen processing and presentation of lipid antigen via MHC class Ib relationship: negatively_regulates GO:0048003 ! antigen processing and presentation of lipid antigen via MHC class Ib [Term] id: GO:0002600 name: positive regulation of antigen processing and presentation of lipid antigen via MHC class Ib namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation of lipid antigen via MHC class Ib." [GOC:add] synonym: "activation of antigen processing and presentation of lipid antigen via MHC class Ib" NARROW [] synonym: "positive regulation of lipid antigen processing and presentation via MHC class Ib" EXACT [] synonym: "stimulation of antigen processing and presentation of lipid antigen via MHC class Ib" NARROW [] synonym: "up regulation of antigen processing and presentation of lipid antigen via MHC class Ib" EXACT [] synonym: "up-regulation of antigen processing and presentation of lipid antigen via MHC class Ib" EXACT [] synonym: "upregulation of antigen processing and presentation of lipid antigen via MHC class Ib" EXACT [] is_a: GO:0002594 ! positive regulation of antigen processing and presentation via MHC class Ib is_a: GO:0002598 ! regulation of antigen processing and presentation of lipid antigen via MHC class Ib intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048003 ! antigen processing and presentation of lipid antigen via MHC class Ib relationship: positively_regulates GO:0048003 ! antigen processing and presentation of lipid antigen via MHC class Ib [Term] id: GO:0002601 name: regulation of antigen processing and presentation of polysaccharide antigen via MHC class II namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antigen processing and presentation of polysaccharide antigen via MHC class II." [GOC:add] synonym: "regulation of polysaccharide antigen processing and presentation via MHC class II" EXACT [] is_a: GO:0002580 ! regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002505 ! antigen processing and presentation of polysaccharide antigen via MHC class II relationship: regulates GO:0002505 ! antigen processing and presentation of polysaccharide antigen via MHC class II [Term] id: GO:0002602 name: negative regulation of antigen processing and presentation of polysaccharide antigen via MHC class II namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation of polysaccharide antigen via MHC class II." [GOC:add] synonym: "down regulation of antigen processing and presentation of polysaccharide antigen via MHC class II" EXACT [] synonym: "down-regulation of antigen processing and presentation of polysaccharide antigen via MHC class II" EXACT [] synonym: "downregulation of antigen processing and presentation of polysaccharide antigen via MHC class II" EXACT [] synonym: "inhibition of antigen processing and presentation of polysaccharide antigen via MHC class II" NARROW [] synonym: "negative regulation of polysaccharide antigen processing and presentation via MHC class II" EXACT [] is_a: GO:0002581 ! negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II is_a: GO:0002601 ! regulation of antigen processing and presentation of polysaccharide antigen via MHC class II intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002505 ! antigen processing and presentation of polysaccharide antigen via MHC class II relationship: negatively_regulates GO:0002505 ! antigen processing and presentation of polysaccharide antigen via MHC class II [Term] id: GO:0002603 name: positive regulation of antigen processing and presentation of polysaccharide antigen via MHC class II namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation of polysaccharide antigen via MHC class II." [GOC:add] synonym: "activation of antigen processing and presentation of polysaccharide antigen via MHC class II" NARROW [] synonym: "positive regulation of polysaccharide antigen processing and presentation via MHC class II" EXACT [] synonym: "stimulation of antigen processing and presentation of polysaccharide antigen via MHC class II" NARROW [] synonym: "up regulation of antigen processing and presentation of polysaccharide antigen via MHC class II" EXACT [] synonym: "up-regulation of antigen processing and presentation of polysaccharide antigen via MHC class II" EXACT [] synonym: "upregulation of antigen processing and presentation of polysaccharide antigen via MHC class II" EXACT [] is_a: GO:0002582 ! positive regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II is_a: GO:0002601 ! regulation of antigen processing and presentation of polysaccharide antigen via MHC class II intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002505 ! antigen processing and presentation of polysaccharide antigen via MHC class II relationship: positively_regulates GO:0002505 ! antigen processing and presentation of polysaccharide antigen via MHC class II [Term] id: GO:0002604 name: regulation of dendritic cell antigen processing and presentation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of dendritic cell antigen processing and presentation." [GOC:add] is_a: GO:0002577 ! regulation of antigen processing and presentation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002468 ! dendritic cell antigen processing and presentation relationship: regulates GO:0002468 ! dendritic cell antigen processing and presentation [Term] id: GO:0002605 name: negative regulation of dendritic cell antigen processing and presentation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of dendritic cell antigen processing and presentation." [GOC:add] synonym: "down regulation of dendritic cell antigen processing and presentation" EXACT [] synonym: "down-regulation of dendritic cell antigen processing and presentation" EXACT [] synonym: "downregulation of dendritic cell antigen processing and presentation" EXACT [] synonym: "inhibition of dendritic cell antigen processing and presentation" NARROW [] is_a: GO:0002578 ! negative regulation of antigen processing and presentation is_a: GO:0002604 ! regulation of dendritic cell antigen processing and presentation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002468 ! dendritic cell antigen processing and presentation relationship: negatively_regulates GO:0002468 ! dendritic cell antigen processing and presentation [Term] id: GO:0002606 name: positive regulation of dendritic cell antigen processing and presentation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of dendritic cell antigen processing and presentation." [GOC:add] synonym: "activation of dendritic cell antigen processing and presentation" NARROW [] synonym: "stimulation of dendritic cell antigen processing and presentation" NARROW [] synonym: "up regulation of dendritic cell antigen processing and presentation" EXACT [] synonym: "up-regulation of dendritic cell antigen processing and presentation" EXACT [] synonym: "upregulation of dendritic cell antigen processing and presentation" EXACT [] is_a: GO:0002579 ! positive regulation of antigen processing and presentation is_a: GO:0002604 ! regulation of dendritic cell antigen processing and presentation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002468 ! dendritic cell antigen processing and presentation relationship: positively_regulates GO:0002468 ! dendritic cell antigen processing and presentation [Term] id: GO:0002607 name: regulation of myeloid dendritic cell antigen processing and presentation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of myeloid dendritic cell antigen processing and presentation." [GOC:add] is_a: GO:0002604 ! regulation of dendritic cell antigen processing and presentation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002469 ! myeloid dendritic cell antigen processing and presentation relationship: regulates GO:0002469 ! myeloid dendritic cell antigen processing and presentation [Term] id: GO:0002608 name: negative regulation of myeloid dendritic cell antigen processing and presentation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of myeloid dendritic cell antigen processing and presentation." [GOC:add] synonym: "down regulation of myeloid dendritic cell antigen processing and presentation" EXACT [] synonym: "down-regulation of myeloid dendritic cell antigen processing and presentation" EXACT [] synonym: "downregulation of myeloid dendritic cell antigen processing and presentation" EXACT [] synonym: "inhibition of myeloid dendritic cell antigen processing and presentation" NARROW [] is_a: GO:0002605 ! negative regulation of dendritic cell antigen processing and presentation is_a: GO:0002607 ! regulation of myeloid dendritic cell antigen processing and presentation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002469 ! myeloid dendritic cell antigen processing and presentation relationship: negatively_regulates GO:0002469 ! myeloid dendritic cell antigen processing and presentation [Term] id: GO:0002609 name: positive regulation of myeloid dendritic cell antigen processing and presentation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of myeloid dendritic cell antigen processing and presentation." [GOC:add] synonym: "activation of myeloid dendritic cell antigen processing and presentation" NARROW [] synonym: "stimulation of myeloid dendritic cell antigen processing and presentation" NARROW [] synonym: "up regulation of myeloid dendritic cell antigen processing and presentation" EXACT [] synonym: "up-regulation of myeloid dendritic cell antigen processing and presentation" EXACT [] synonym: "upregulation of myeloid dendritic cell antigen processing and presentation" EXACT [] is_a: GO:0002606 ! positive regulation of dendritic cell antigen processing and presentation is_a: GO:0002607 ! regulation of myeloid dendritic cell antigen processing and presentation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002469 ! myeloid dendritic cell antigen processing and presentation relationship: positively_regulates GO:0002469 ! myeloid dendritic cell antigen processing and presentation [Term] id: GO:0002610 name: regulation of plasmacytoid dendritic cell antigen processing and presentation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of plasmacytoid dendritic cell antigen processing and presentation." [GOC:add] is_a: GO:0002604 ! regulation of dendritic cell antigen processing and presentation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002470 ! plasmacytoid dendritic cell antigen processing and presentation relationship: regulates GO:0002470 ! plasmacytoid dendritic cell antigen processing and presentation [Term] id: GO:0002611 name: negative regulation of plasmacytoid dendritic cell antigen processing and presentation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of plasmacytoid dendritic cell antigen processing and presentation." [GOC:add] synonym: "down regulation of plasmacytoid dendritic cell antigen processing and presentation" EXACT [] synonym: "down-regulation of plasmacytoid dendritic cell antigen processing and presentation" EXACT [] synonym: "downregulation of plasmacytoid dendritic cell antigen processing and presentation" EXACT [] synonym: "inhibition of plasmacytoid dendritic cell antigen processing and presentation" NARROW [] is_a: GO:0002605 ! negative regulation of dendritic cell antigen processing and presentation is_a: GO:0002610 ! regulation of plasmacytoid dendritic cell antigen processing and presentation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002470 ! plasmacytoid dendritic cell antigen processing and presentation relationship: negatively_regulates GO:0002470 ! plasmacytoid dendritic cell antigen processing and presentation [Term] id: GO:0002612 name: positive regulation of plasmacytoid dendritic cell antigen processing and presentation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of plasmacytoid dendritic cell antigen processing and presentation." [GOC:add] synonym: "activation of plasmacytoid dendritic cell antigen processing and presentation" NARROW [] synonym: "stimulation of plasmacytoid dendritic cell antigen processing and presentation" NARROW [] synonym: "up regulation of plasmacytoid dendritic cell antigen processing and presentation" EXACT [] synonym: "up-regulation of plasmacytoid dendritic cell antigen processing and presentation" EXACT [] synonym: "upregulation of plasmacytoid dendritic cell antigen processing and presentation" EXACT [] is_a: GO:0002606 ! positive regulation of dendritic cell antigen processing and presentation is_a: GO:0002610 ! regulation of plasmacytoid dendritic cell antigen processing and presentation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002470 ! plasmacytoid dendritic cell antigen processing and presentation relationship: positively_regulates GO:0002470 ! plasmacytoid dendritic cell antigen processing and presentation [Term] id: GO:0002613 name: regulation of monocyte antigen processing and presentation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of monocyte antigen processing and presentation." [GOC:add] is_a: GO:0002577 ! regulation of antigen processing and presentation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002471 ! monocyte antigen processing and presentation relationship: regulates GO:0002471 ! monocyte antigen processing and presentation [Term] id: GO:0002614 name: negative regulation of monocyte antigen processing and presentation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of monocyte antigen processing and presentation." [GOC:add] synonym: "down regulation of monocyte antigen processing and presentation" EXACT [] synonym: "down-regulation of monocyte antigen processing and presentation" EXACT [] synonym: "downregulation of monocyte antigen processing and presentation" EXACT [] synonym: "inhibition of monocyte antigen processing and presentation" NARROW [] is_a: GO:0002578 ! negative regulation of antigen processing and presentation is_a: GO:0002613 ! regulation of monocyte antigen processing and presentation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002471 ! monocyte antigen processing and presentation relationship: negatively_regulates GO:0002471 ! monocyte antigen processing and presentation [Term] id: GO:0002615 name: positive regulation of monocyte antigen processing and presentation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of monocyte