LiteFold/GO huggingface dataset:
skeletal muscle fiber differentiation (GO:0098528)
Namespace: biological_process
Definition: The process in which a relatively unspecialized cell acquires specialized features of a skeletal muscle fiber cell. Skeletal muscle fiber differentiation starts with myoblast fusion and the appearance of specific cell markers (this is the cell development step). Then individual skeletal muscle fibers fuse to form bigger myotubes and start to contract.
neuromuscular junction development, skeletal muscle fiber (GO:0098529)
Namespace: biological_process
Definition: A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a neuromuscular junction that targets a skeletal muscle fiber.
positive regulation of strand invasion (GO:0098530)
Namespace: biological_process
Definition: Any process that increases the rate, frequency or extent of strand invasion. Strand invasion is the process in which 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.
Synonyms: positive regulation of D-loop biosynthesis; positive regulation of D-loop formation; positive regulation of Rad51-mediated strand invasion
ligand-modulated transcription factor activity (GO:0098531)
Namespace: molecular_function
Definition: A DNA-binding transcription factor activity regulated by binding to a ligand and that modulates the transcription of specific genes and gene sets. Examples include the lac and trp repressors in E.coli and steroid hormone receptors.
Synonyms: direct ligand regulated sequence-specific DNA binding transcription factor activity; ligand-activated transcription factor activity; transcription factor activity, direct ligand regulated sequence-specific DNA binding
Comment: For usage guidance, see comment in GO:0003700 ; DNA-binding transcription factor activity.
obsolete histone H3-K27 trimethylation (GO:0098532)
Namespace: biological_process
Definition: OBSOLETE. The modification of histone H3 by addition of three methyl groups to lysine at position 27 of the histone.
Comment: This term was obsoleted because it represents a molecular function.
ATPase dependent transmembrane transport complex (GO:0098533)
Namespace: cellular_component
Definition: A transmembrane protein complex that functions in ATPase dependent active transport across a membrane.
Comment: The location of this complex is implicit in its activity, so its location is asserted as a regular relationship rather than as a part of an intersection.
centriole assembly (GO:0098534)
Namespace: biological_process
Definition: A cellular process that results in the assembly of one or more centrioles.
de novo centriole assembly involved in multi-ciliated epithelial cell differentiation (GO:0098535)
Namespace: biological_process
Definition: Centriole assembly in which a centriole arises de novo by a process involving an electron-dense structure known as a deuterosome, rather than by duplication of an existing centriole, and occurring as part of multi-ciliated epithelial cell differentiation.
Synonyms: centriole amplification; de novo centriole assembly; de novo centriole assembly via deuterosome; deuterosomal basal body biogenesis; deuterosome pathway; deuterosome-mediated centriole biogenesis; multiciliation; multiciliogenesis
Comment: In most eukaryotic cells, 'centriole' (GO:0005814) and 'ciliary basal body' (GO:0036064) represent a common entity that cycles through its function in cell division, then ciliogenesis, then cell division again. However, these structures are modified extensively as they transition into each other, and may contain different proteins, specific to each component.
deuterosome (GO:0098536)
Namespace: cellular_component
Definition: A spherical, electron dense, cytoplasmic structure that is involved in de novo assembly of centrioles.
obsolete lobed nucleus (GO:0098537)
Namespace: cellular_component
Definition: OBSOLETE. Nucleus with two or more lobes connected by a thin filament that contains no internal chromatin. Examples include the nuclei of mature basophils, eosinophils and neutrophils in mice and humans.
Comment: This term was obsoleted because it does not correspond to a specific type of nucleus, it is a morphologically different nucleus present in certain cell types.
lumenal side of transport vesicle membrane (GO:0098538)
Namespace: cellular_component
Definition: The leaflet of a transport vesicle membrane that faces the lumen, including any protein embedded in, attached to, or peripherally associated with it.
Synonyms: internal side of transport vesicle membrane
cytoplasmic side of transport vesicle membrane (GO:0098539)
Namespace: cellular_component
Definition: The leaflet of the transport vesicle membrane that faces the cytoplasm, including any protein embedded in, attached to, or peripherally associated with it.
Synonyms: external side of transport vesicle membrane
lumenal side of trans-Golgi network transport vesicle membrane (GO:0098540)
Namespace: cellular_component
Definition: The leaflet of a trans-Golgi network transport vesicle membrane that faces the lumen, including any protein embedded in, attached to, or peripherally associated with it.
Synonyms: internal side of trans-Golgi network transport vesicle membrane
cytoplasmic side of trans-Golgi network transport vesicle membrane (GO:0098541)
Namespace: cellular_component
Definition: The leaflet of the trans-Golgi network transport vesicle membrane that faces the cytoplasm, including any protein embedded in, attached to, or peripherally associated with it.
Synonyms: external side of trans-Golgi network transport vesicle membrane
detection of other organism (GO:0098543)
Namespace: biological_process
Definition: The series of events in which a stimulus from another organism is received and converted into a molecular signal.
Synonyms: recognition of other organism during symbiotic interaction; recognition of other organism involved in symbiotic interaction
maintenance of protein complex location (GO:0098544)
Namespace: biological_process
Definition: Any process in which a protein complex is maintained in a location and prevented from moving elsewhere. These include sequestration, stabilization to prevent transport elsewhere and the active retrieval of protein complexes that move away.
maintenance of protein complex location in cytoplasm (GO:0098545)
Namespace: biological_process
Definition: Any process in which a protein complex is maintained in a specific location within the cytoplasm and is prevented from moving elsewhere.
lumenal side of Golgi membrane (GO:0098547)
Namespace: cellular_component
Definition: The leaflet of the Golgi membrane that faces the lumen, including any protein embedded in, attached to, or peripherally associated with it.
cytoplasmic side of Golgi membrane (GO:0098548)
Namespace: cellular_component
Definition: The leaflet of the Golgi membrane that faces the cytoplasm, including any protein embedded in, attached to, or peripherally associated with it.
somatic ring canal (GO:0098549)
Namespace: cellular_component
Definition: A stable intercellular bridge between somatic cells. Examples include the intercellular bridges between ovarian follicle cells in insects and between imaginal disc cells in insects.
lumenal side of early endosome membrane (GO:0098550)
Namespace: cellular_component
Definition: The leaflet of the early endosome membrane that faces the lumen, including any protein embedded in, attached to, or peripherally associated with it.
Synonyms: internal leaflet of early endosome membrane; internal side of early endosome membrane
side of membrane (GO:0098552)
Namespace: cellular_component
Definition: A cellular component consisting of one leaflet of a membrane bilayer and any protein embedded or anchored in it or attached to its surface.
lumenal side of endoplasmic reticulum membrane (GO:0098553)
Namespace: cellular_component
Definition: The leaflet of the endoplasmic reticulum membrane that faces the lumen, including any protein embedded in, attached to, or peripherally associated with it.
cytoplasmic side of endoplasmic reticulum membrane (GO:0098554)
Namespace: cellular_component
Definition: The leaflet of the endoplasmic reticulum membrane that faces the cytoplasm, including any protein embedded in, attached to, or peripherally associated with it.
lumenal side of rough endoplasmic reticulum membrane (GO:0098555)
Namespace: cellular_component
Definition: The leaflet of the rough endoplasmic reticulum membrane that faces the lumen, including any protein embedded in, attached to, or peripherally associated with it.
cytoplasmic side of rough endoplasmic reticulum membrane (GO:0098556)
Namespace: cellular_component
Definition: The leaflet of the rough endoplasmic reticulum membrane that faces the cytoplasm, including any protein embedded in, attached to, or peripherally associated with it.
cytoplasmic side of smooth endoplasmic reticulum membrane (GO:0098557)
Namespace: cellular_component
Definition: The leaflet of the smooth endoplasmic reticulum membrane that faces the cytoplasm, including any protein embedded in, attached to, or peripherally associated with it.
lumenal side of smooth endoplasmic reticulum membrane (GO:0098558)
Namespace: cellular_component
Definition: The leaflet of the smooth endoplasmic reticulum membrane that faces the lumen, including any protein embedded in, attached to, or peripherally associated with it.
cytoplasmic side of early endosome membrane (GO:0098559)
Namespace: cellular_component
Definition: The leaflet of the early endosome membrane that faces the cytoplasm, including any protein embedded in, attached to, or peripherally associated with it.
Synonyms: external leaflet of early endosome membrane; external side of early endosome membrane
Comment: In GO, 'external side' still refers to part of the membrane and does not refer to components beyond (outside of) the membrane.
cytoplasmic side of late endosome membrane (GO:0098560)
Namespace: cellular_component
Definition: The leaflet of the late endosome membrane that faces the cytoplasm, including any protein embedded in, attached to, or peripherally associated with it.
Synonyms: external leaflet of late endosome membrane; external side of late endosome membrane
Comment: In GO, 'external side' still refers to part of the membrane and does not refer to components beyond (outside of) the membrane.
methyl accepting chemotaxis protein complex (GO:0098561)
Namespace: cellular_component
Definition: A transmembrane protein complex that consists of multiple methyl-accepting chemoreceptor protein subunits, a histidine kinase and a connector protein and which functions in the regulation of flagellar rotary motor activity in response to an external chemical stimulus.
Comment: A number of complexes of this class are found in E.coli.
cytoplasmic side of membrane (GO:0098562)
Namespace: cellular_component
Definition: The leaflet of a membrane that faces the cytoplasm, including any protein embedded in, attached to, or peripherally associated with it.
obsolete intrinsic component of synaptic vesicle membrane (GO:0098563)
Namespace: cellular_component
Definition: OBSOLETE. The component of the synaptic vesicle membrane consisting of the gene products and protein complexes having either part of their peptide sequence embedded in the hydrophobic region of the membrane or some other covalently attached group such as a GPI anchor that is similarly embedded in the membrane.
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
trans-Golgi network transport vesicle lumen (GO:0098564)
Namespace: cellular_component
Definition: The volume enclosed within the membrane of a trans-Golgi network transport vesicle.
transport vesicle lumen (GO:0098566)
Namespace: cellular_component
Definition: The volume enclosed within the membrane of a transport vesicle.
periplasmic side of plasma membrane (GO:0098567)
Namespace: cellular_component
Definition: The leaflet of the plasma membrane that faces the periplasm, including any protein embedded in, attached to, or peripherally associated with it.
external side of mycolate outer membrane (GO:0098568)
Namespace: cellular_component
Definition: The leaflet of the mycolate outer membrane that faces the periplasm of the cell, including any protein embedded in, attached to, or peripherally associated with it.
internal side of mycolate outer membrane (GO:0098569)
Namespace: cellular_component
Definition: The leaflet of the mycolate outer membrane that faces the cell wall peptidoglycan, including any protein embedded in, attached to, or peripherally associated with it. It is rich in long-chain mycolic acids (hydroxylated branched-chain fatty acids) that are covalently linked to the cell wall peptidoglycan via an arabinogalactan network.
stromal side of plastid inner membrane (GO:0098570)
Namespace: cellular_component
Definition: The leaflet of the plastid inner membrane that faces the stroma, including any protein embedded in, attached to, or peripherally associated with it.
stromal side of plastid thylakoid membrane (GO:0098572)
Namespace: cellular_component
Definition: The leaflet of the plastid thylakoid membrane that faces the stroma, including any protein embedded in, attached to, or peripherally associated with it.
obsolete intrinsic component of mitochondrial membrane (GO:0098573)
Namespace: cellular_component
Definition: OBSOLETE. The component of the mitochondrial membrane consisting of the gene products and protein complexes having either part of their peptide sequence embedded in the hydrophobic region of the membrane or some other covalently attached group such as a GPI anchor that is similarly embedded in the membrane.
Synonyms: intrinsic to mitochondrial membrane
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
cytoplasmic side of lysosomal membrane (GO:0098574)
Namespace: cellular_component
Definition: The leaflet of the lysosomal membrane that faces the cytoplasm, including any protein embedded in, attached to, or peripherally associated with it.
Synonyms: external leaflet of lysosomal membrane; external side of lysosomal membrane
lumenal side of lysosomal membrane (GO:0098575)
Namespace: cellular_component
Definition: The leaflet of the lysosomal membrane that faces the lumen, including any protein embedded in, attached to, or peripherally associated with it.
Synonyms: internal leaflet of lysosomal membrane; internal side of lysosomal membrane
inactive sex chromosome (GO:0098577)
Namespace: cellular_component
Definition: A sex chromosome that has been inactivated.
Synonyms: inactivated sex chromosome
condensed chromatin of inactivated sex chromosome (GO:0098578)
Namespace: cellular_component
Definition: A condensed form of chromatin that is associated with an inactivated sex chromosome and which is responsible for its inactivation.
active sex chromosome (GO:0098579)
Namespace: cellular_component
Definition: A sex chromosome that has not been inactivated.
obsolete chromatin of active sex chromosome (GO:0098580)
Namespace: cellular_component
Definition: OBSOLETE. Chromatin that is part of an active sex chromosome.
Comment: This term was obsoleted because it represents a biological process, not a cellular localization.
detection of external biotic stimulus (GO:0098581)
Namespace: biological_process
Definition: The series of events in which an external biotic stimulus is detected and converted into a molecular signal. An external biotic stimulus is defined as one caused or produced by a living organism other than the one being stimulated.
Synonyms: detection of exogenous biotic stimulus
innate vocalization behavior (GO:0098582)
Namespace: biological_process
Definition: A vocalisation behavior that is innate, i.e. that does not need to be learned in order to occur.
learned vocalization behavior (GO:0098583)
Namespace: biological_process
Definition: A vocalization behavior that is the result of learning.
Comment: Examples include human speech and learned bird song.
host cell synaptic vesicle (GO:0098584)
Namespace: cellular_component
Definition: A secretory organelle of a host cell, some 50 nm in diameter, of presynaptic nerve terminals; accumulates in high concentrations of neurotransmitters and secretes these into the synaptic cleft by fusion with the 'active zone' of the presynaptic plasma membrane.
host cell synaptic vesicle membrane (GO:0098585)
Namespace: cellular_component
Definition: The lipid bilayer surrounding a host synaptic vesicle.
cellular response to virus (GO:0098586)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a virus.
plasma membrane region (GO:0098590)
Namespace: cellular_component
Definition: A membrane that is a (regional) part of the plasma membrane.
Synonyms: region of plasma membrane
Comment: Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass.
external side of apical plasma membrane (GO:0098591)
Namespace: cellular_component
Definition: The leaflet the apical region of the plasma membrane that faces the extracellular side of the cell, including any protein embedded in, attached to, or peripherally associated with it.
cytoplasmic side of apical plasma membrane (GO:0098592)
Namespace: cellular_component
Definition: The leaflet of the apical region of the plasma membrane that faces the cytoplasm, including any protein embedded in, attached to, or peripherally associated with it.
goblet cell theca (GO:0098593)
Namespace: cellular_component
Definition: A cup shaped specialization of the cytoskeleton that forms a thin layer located just below the apical mass of mature mucin secretory granules in the cytoplasm of goblet cells of the intestinal epithelium. It consists of an orderly network of intermediate filaments and microtubules. Microtubules are arranged vertically, like barrel staves, along the inner aspect of the theta. Intermediate filaments form two networks: an inner, basketlike network and an outer series of circumferential bundles resembling the hoops of a barrel.
mucin granule (GO:0098594)
Namespace: cellular_component
Definition: A secretory granule that contains mucin.
perivitelline space (GO:0098595)
Namespace: cellular_component
Definition: The space between the membrane of an oocyte and a surrounding membranous structure (zona pellucida or perivitelline membrane).
imitative learning (GO:0098596)
Namespace: biological_process
Definition: Learning in which new behaviors are acquired through imitation.
observational learning (GO:0098597)
Namespace: biological_process
Definition: Learning that occurs through observing the behavior of others.
Comment: Observation here is used in a broad sense to include perception of the behavior of others via any form or combination of forms of sensory perception (visual, auditory etc). Observational learning is broader than imitative learning in that it does not require a duplication of the behavior exhibited by the model.
learned vocalization behavior or vocal learning (GO:0098598)
Namespace: biological_process
Definition: Vocalisation behavior that is the result of learning, or the process by which new vocalizations are learned.
Comment: This grouping term is necessary because, in the absence of conditional mutations, it is not possible to use phenotypic evidence to distinguish an effect on vocal learning from an effect on learned vocalisation behavior.
palmitoyl hydrolase activity (GO:0098599)
Namespace: molecular_function
Definition: Catalysis of a hydrolase reaction that removes a palmitoyl moiety from some substrate.
selenomethionine gamma-lyase activity (GO:0098600)
Namespace: molecular_function
Definition: Catalysis of the reaction: L-Selenomethionine + H2O = Methaneselenol + Ammonia + 2-oxobutanoic acid.
selenomethionine adenosyltransferase activity (GO:0098601)
Namespace: molecular_function
Definition: Catalysis of the reaction: L-selenomethionine + ATP + H2O = L-adenosylselenomethionine + phosphate + diphosphate.
selenol Se-methyltransferase activity (GO:0098603)
Namespace: molecular_function
Definition: Catalysis of the reaction: R + Se-Adenosylselenomethionine = CH3-R + Se-Adenosyl-L-selenohomocysteine.
adenosylselenohomocysteinase activity (GO:0098604)
Namespace: molecular_function
Definition: Catalysis of the reaction: Se-Adenosyl-L-selenohomocysteine + H2O = Adenosine + Selenohomocysteine.
selenocystathionine beta-synthase activity (GO:0098605)
Namespace: molecular_function
Definition: Catalysis of the reaction: L-Serine + Selenohomocysteine = L-Selenocystathionine + H2O.
obsolete methylselenocysteine deselenhydrase activity (GO:0098607)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: Se-Methyl-L-selenocysteine + H2O = pyruvic acid + NH3 + Methaneselenol.
Comment: This term was obsoleted because there is no evidence that this reaction exists.
methylselenol demethylase activity (GO:0098608)
Namespace: molecular_function
Definition: Catalysis of the reaction: methylselenol + H2O = H2Se + CH3OH.
cell-cell adhesion (GO:0098609)
Namespace: biological_process
Definition: The attachment of one cell to another cell via adhesion molecules.
Synonyms: single organismal cell-cell adhesion
adhesion between unicellular organisms (GO:0098610)
Namespace: biological_process
Definition: The attachment of two unicellular organisms to each other.
Synonyms: adhesion between unicellular organisms via cell-wall interaction; multi-organismal cell-cell adhesion
methaneselenol methyltransferase activity (GO:0098613)
Namespace: molecular_function
Definition: Catalysis of the reaction: S-adenosyl-L-methionine + methaneselenol = S-adenosyl-L-homocysteine + dimethyl selenide.
hydrogen selenide methyltransferase activity (GO:0098614)
Namespace: molecular_function
Definition: Catalysis of the reaction: S-adenosyl-L-methionine + hydrogen selenide = S-adenosyl-L-homocysteine + methaneselenol.
dimethyl selenide methyltransferase activity (GO:0098615)
Namespace: molecular_function
Definition: Catalysis of the reaction: S-adenosyl-L-methionine + dimethyl selenide = S-adenosyl-L-homocysteine + trimethylselenonium.
selenate adenylyltransferase (ATP) activity (GO:0098616)
Namespace: molecular_function
Definition: Catalysis of the reaction: ATP + H2SeO4 = diphosphate + adenylylselenate.
selenomethionine-tRNA ligase activity (GO:0098618)
Namespace: molecular_function
Definition: Catalysis of the reaction: ATP + L-selenomethionine + tRNA(Met) = AMP + diphosphate + selenomethionyl-tRNA(Met).
selenocysteine-tRNA ligase activity (GO:0098619)
Namespace: molecular_function
Definition: Catalysis of the reaction: tRNASec + L-Ser + ATP = Ser-tRNASec + AMP + diphosphate.
seryl-selenocysteinyl-tRNA kinase activity (GO:0098620)
Namespace: molecular_function
Definition: Catalysis of the reaction: Ser-tRNA(Sec) + ATP = Sep-tRNA(Sec) + ADP.
O-phosphoseryl-tRNA(Sec) selenium transferase activity (GO:0098621)
Namespace: molecular_function
Definition: Catalysis of the reaction: O-phospho-L-seryl-tRNA(Sec) + selenophosphate + H2O = L-selenocysteinyl-tRNA(Sec) + 2 phosphate.
Synonyms: O-phospho-L-seryl-tRNA(Sec):L-selenocysteinyl-tRNA synthase; O-phosphoseryl-tRNA:selenocysteinyl-tRNA synthase; phosphoseryl-selenocysteinyl-tRNA selenium transferase activity; SepSecS
selenodiglutathione-disulfide reductase (NADPH) activity (GO:0098622)
Namespace: molecular_function
Definition: Catalysis of the reaction: H+ + selenodiglutathione + NADPH = gluthathioselenol + glutathione + NADP+.
Synonyms: selenodiglutathione-disulfide reductase (NADP) activity; selenodiglutathione-disulfide reductase activity
selenite reductase (NADPH) activity (GO:0098623)
Namespace: molecular_function
Definition: Catalysis of the reaction: SeO3(2-) + 3 NADPH + 5H+ = H2Se +  3NADP+ + 3H2O.
Synonyms: selenite reductase activity