LiteFold/GO huggingface dataset:
obsolete regulation of glyoxylate cycle by regulation of transcription from RNA polymerase II promoter (GO:0035958)
Namespace: biological_process
Definition: OBSOLETE. Any process that modulates the frequency, rate or extent of the glyoxylate cycle by modulating the frequency, rate or extent of transcription from an RNA polymerase II promoter.
Synonyms: regulation of glyoxylate bypass by regulation of transcription from Pol II promoter; regulation of glyoxylate bypass by regulation of transcription from RNA polymerase II promoter; regulation of glyoxylate cycle by regulation of transcription from Pol II promoter
Comment: This term was obsoleted because it represents a GO-CAM model.
obsolete positive regulation of glyoxylate cycle by positive regulation of transcription from RNA polymerase II promoter (GO:0035959)
Namespace: biological_process
Definition: OBSOLETE. Any process that activates or increases the frequency, rate or extent of the glyoxylate cycle by activating or increasing the frequency, rate or extent of transcription from an RNA polymerase II promoter.
Synonyms: positive regulation of glyoxylate bypass by positive regulation of transcription from Pol II promoter; positive regulation of glyoxylate bypass by positive regulation of transcription from RNA polymerase II promoter; positive regulation of glyoxylate bypass by up regulation of transcription from RNA polymerase II promoter; positive regulation of glyoxylate bypass by up-regulation of transcription from RNA polymerase II promoter; positive regulation of glyoxylate bypass by upregulation of transcription from RNA polymerase II promoter; positive regulation of glyoxylate cycle by activation of transcription from RNA polymerase II promoter; positive regulation of glyoxylate cycle by positive regulation of transcription from Pol II promoter; positive regulation of glyoxylate cycle by stimulation of transcription from RNA polymerase II promoter; positive regulation of glyoxylate cycle by up regulation of transcription from RNA polymerase II promoter; positive regulation of glyoxylate cycle by up-regulation of transcription from RNA polymerase II promoter; positive regulation of glyoxylate cycle by upregulation of transcription from RNA polymerase II promoter
Comment: This term was obsoleted because it represents a GO-CAM model.
obsolete regulation of ergosterol biosynthetic process by regulation of transcription from RNA polymerase II promoter (GO:0035960)
Namespace: biological_process
Definition: OBSOLETE. Any process that modulates the frequency, rate or extent of ergosterol biosynthetic process by modulating the frequency, rate or extent of transcription from an RNA polymerase II promoter.
Synonyms: regulation of ergosterol anabolism by regulation of transcription from Pol II promoter; regulation of ergosterol anabolism by regulation of transcription from RNA polymerase II promoter; regulation of ergosterol biosynthesis by regulation of transcription from Pol II promoter; regulation of ergosterol biosynthesis by regulation of transcription from RNA polymerase II promoter; regulation of ergosterol biosynthetic process by regulation of transcription from Pol II promoter; regulation of ergosterol formation by regulation of transcription from Pol II promoter; regulation of ergosterol formation by regulation of transcription from RNA polymerase II promoter; regulation of ergosterol synthesis by regulation of transcription from Pol II promoter; regulation of ergosterol synthesis by regulation of transcription from RNA polymerase II promoter
Comment: This term was obsoleted because it represents a GO-CAM model.
response to interleukin-13 (GO:0035962)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an interleukin-13 stimulus.
Synonyms: response to IL-13
cellular response to interleukin-13 (GO:0035963)
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 an interleukin-13 stimulus.
Synonyms: cellular response to IL-13
cardiolipin acyl-chain remodeling (GO:0035965)
Namespace: biological_process
Definition: Remodeling the acyl chains of premature (de novo synthesized) cardiolipin (1,3-bis(3-phosphatidyl)glycerol), through sequential deacylation and re-acylation reactions, to generate mature cardiolipin containing high-levels of unsaturated fatty acids.
Synonyms: cardiolipin acyl-chain remodelling; cardiolipin maturation; diphosphatidylglycerol remodeling
response to topologically incorrect protein (GO:0035966)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a protein that is not folded in its correct three-dimensional structure.
Synonyms: response to misfolded or unfolded protein
cellular response to topologically incorrect protein (GO:0035967)
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 protein that is not folded in its correct three-dimensional structure.
Synonyms: cellular response to misfolded or unfolded protein
obsolete regulation of sterol import by regulation of transcription from RNA polymerase II promoter (GO:0035968)
Namespace: biological_process
Definition: OBSOLETE. Any process that modulates the frequency, rate or extent of sterol import, by regulation of transcription from an RNA polymerase II promoter.
Synonyms: regulation of sterol import by regulation of transcription from Pol II promoter; regulation of sterol influx by regulation of transcription from Pol II promoter; regulation of sterol influx by regulation of transcription from RNA polymerase II promoter; regulation of sterol uptake by regulation of transcription from Pol II promoter; regulation of sterol uptake by regulation of transcription from RNA polymerase II promoter
Comment: This term was obsoleted because it represents a GO-CAM model.
obsolete positive regulation of sterol import by positive regulation of transcription from RNA polymerase II promoter (GO:0035969)
Namespace: biological_process
Definition: OBSOLETE. Any process that activates or increases the frequency, rate or extent of sterol import by activating or increasing the frequency, rate or extent of transcription from an RNA polymerase II promoter.
Synonyms: positive regulation of sterol import by activation of transcription from RNA polymerase II promoter; positive regulation of sterol import by positive regulation of transcription from Pol II promoter; positive regulation of sterol import by stimulation of transcription from RNA polymerase II promoter; positive regulation of sterol import by up regulation of transcription from RNA polymerase II promoter; positive regulation of sterol import by up-regulation of transcription from RNA polymerase II promoter; positive regulation of sterol import by upregulation of transcription from RNA polymerase II promoter; positive regulation of sterol influx by activation of transcription from RNA polymerase II promoter; positive regulation of sterol influx by positive regulation of transcription from RNA polymerase II promoter; positive regulation of sterol influx by stimulation of transcription from RNA polymerase II promoter; positive regulation of sterol influx by up regulation of transcription from RNA polymerase II promoter; positive regulation of sterol influx by up-regulation of transcription from RNA polymerase II promoter; positive regulation of sterol influx by upregulation of transcription from RNA polymerase II promoter; positive regulation of sterol uptake by activation of transcription from RNA polymerase II promoter; positive regulation of sterol uptake by positive regulation of transcription from RNA polymerase II promoter; positive regulation of sterol uptake by stimulation of transcription from RNA polymerase II promoter; positive regulation of sterol uptake by up regulation of transcription from RNA polymerase II promoter; positive regulation of sterol uptake by up-regulation of transcription from RNA polymerase II promoter; positive regulation of sterol uptake by upregulation of transcription from RNA polymerase II promoter
Comment: This term was obsoleted because it represents a GO-CAM model.
peptidyl-threonine dephosphorylation (GO:0035970)
Namespace: biological_process
Definition: The removal of phosphoric residues from peptidyl-O-phospho-L-threonine to form peptidyl-threonine.
peptidyl-histidine dephosphorylation (GO:0035971)
Namespace: biological_process
Definition: The removal of phosphoric residues from peptidyl-O-phospho-L-histidine to form peptidyl-histidine.
aggrephagy (GO:0035973)
Namespace: biological_process
Definition: The selective degradation of protein aggregates by macroautophagy.
meiotic spindle pole body (GO:0035974)
Namespace: cellular_component
Definition: The microtubule organizing center that forms as part of the meiotic cell cycle; functionally homologous to the animal cell centrosome.
obsolete carbamoyl phosphate catabolic process (GO:0035975)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the breakdown of carbamoyl phosphate, an intermediate in the urea cycle and other nitrogen compound metabolic pathways.
Synonyms: carbamoyl phosphate breakdown; carbamoyl phosphate catabolism; carbamoyl phosphate degradation
Comment: This term was obsoleted because it represents a molecular function.
transcription factor AP-1 complex (GO:0035976)
Namespace: cellular_component
Definition: A heterodimeric transcription factor complex composed of proteins from the c-Fos, c-Jun, activating transcription factor (ATF) or JDP families. The subunits contain a basic leucine zipper (bZIP) domain that is essential for dimerization and DNA binding. Jun-Fos heterodimers bind preferentially to a heptamer consensus sequence (TPA responsive element (TRE)), whereas Jun-ATF dimers bind the cyclic AMP responsive element (CRE) to regulate transcription of target genes.
Synonyms: Activating protein 1 complex; AP-1 complex; AP1 complex; transcription factor AP1 complex
protein deglycosylation involved in glycoprotein catabolic process (GO:0035977)
Namespace: biological_process
Definition: The removal of sugar residues from a glycosylated protein that contributes to the breakdown of a glycoprotein.
obsolete histone H2A-S139 phosphorylation (GO:0035978)
Namespace: biological_process
Definition: OBSOLETE. The modification of histone H2A by the addition of an phosphate group to a serine residue at position 139 of the histone.
Synonyms: histone H2A.x phosphorylation at S139
Comment: This term was obsoleted because it represents a molecular function.
histone H2AXS139 kinase activity (GO:0035979)
Namespace: molecular_function
Definition: Catalysis of the reaction: histone H2AX-serine (position 139) + ATP = histone H2AX-phosphoserine (position 139) + ADP. This reaction is the addition of a phosphate group to the serine residue at position 139 of histone variant H2AX.
Synonyms: histone H2AS139 kinase activity; histone kinase activity (H2A-S139 specific); histone kinase activity (H2A.x-S139 specific)
Comment: Note that the residue position corresponds to the canonical human H2AX histone (UniProtKB:P16104); this residue is conserved across all eukaryotes. Residue 1 is the first residue following removal of the initiating Methionine (Met). Note that each histone is encoded by multiple genes, and sequences may vary across different genes within an organism.
obsolete invasive growth in response to nitrogen limitation (GO:0035980)
Namespace: biological_process
Definition: OBSOLETE. The growth of colonies in filamentous chains of cells as a result of a reduced availability of nitrogen.
Synonyms: invasive growth in response to nitrogen limitation
Comment: This term was made obsolete because the GO term 'pseudohyphal growth ; GO:0007124' describes growth under nitrogen-limiting conditions.
tongue muscle cell differentiation (GO:0035981)
Namespace: biological_process
Definition: The process in which a relatively unspecialized cell acquires specialized features of a tongue muscle cell.
obsolete age-dependent behavioral decline (GO:0035982)
Namespace: biological_process
Definition: OBSOLETE. A developmental process that arises as an organism progresses toward the end of its lifespan that results in a decline in behavioral activities such as locomotory behavior, and learning or memory.
Synonyms: age-dependent behavioural decline; age-related behavioral decline; behavioral aging
Comment: This term was made obsolete because it describes a phenotype.
response to trichostatin A (GO:0035983)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a trichostatin A stimulus.
cellular response to trichostatin A (GO:0035984)
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 trichostatin A stimulus.
senescence-associated heterochromatin focus (GO:0035985)
Namespace: cellular_component
Definition: A transcriptionally-silent heterochromatin structure present in senescent cells. Contains the condensed chromatin of one chromosome and is enriched for histone modifications. Thought to repress expression of proliferation-promoting genes.
Synonyms: SAHF; senescence-associated heterochromatin foci
obsolete senescence-associated heterochromatin focus assembly (GO:0035986)
Namespace: biological_process
Definition: OBSOLETE. The assembly of chromatin into senescence-associated heterochromatin foci (SAHF), transcriptionally-silent heterochromatin structures present in senescent cells, containing the condensed chromatin of one chromosome, and enriched for histone modifications. Formation of these chromatin structures is thought to repress expression of proliferation-promoting genes.
Synonyms: SAHF formation; senescence-associated heterochromatin foci formation; senescence-associated heterochromatin focus formation
Comment: This term was obsoleted because there is no evidence that this is a distinct process; this should be captured as an extension.
endodermal cell differentiation (GO:0035987)
Namespace: biological_process
Definition: The process in which a relatively unspecialized cell acquires the specialized features of an endoderm cell, a cell of the inner of the three germ layers of the embryo.
Synonyms: endoderm cell differentiation
chondrocyte proliferation (GO:0035988)
Namespace: biological_process
Definition: The multiplication or reproduction of chondrocytes by cell division, resulting in the expansion of their population. A chondrocyte is a polymorphic cell that forms cartilage.
Synonyms: cartilage cell proliferation; chondrocyte cell proliferation
tendon development (GO:0035989)
Namespace: biological_process
Definition: The process whose specific outcome is the progression of a tendon over time, from its formation to the mature structure. A tendon is a fibrous, strong, connective tissue that connects muscle to bone or integument and is capable of withstanding tension. Tendons and muscles work together to exert a pulling force.
Synonyms: sinew development
tendon cell differentiation (GO:0035990)
Namespace: biological_process
Definition: The process in which a relatively unspecialized cell acquires the specialized features of a tendon cell. Tendon cell are elongated fibrocytes in which the cytoplasm is stretched between the collagen fibres of the tendon. Tendon cells have a central cell nucleus with a prominent nucleolus, a well-developed rough endoplasmic reticulum, and are responsible for synthesis and turnover of tendon fibres and ground substance.
Synonyms: muscle attachment cell differentiation; tenocyte differentiation
nitric oxide sensor activity (GO:0035991)
Namespace: molecular_function
Definition: Binding to and responding, e.g. by conformational change, to changes in the cellular level of nitric oxide (NO).
Synonyms: NO sensor activity
tendon formation (GO:0035992)
Namespace: biological_process
Definition: The process that gives rise to a tendon. This process pertains to the initial formation of a tendon from unspecified parts.
deltoid tuberosity development (GO:0035993)
Namespace: biological_process
Definition: The process whose specific outcome is the progression of the deltoid tuberosity over time, from its formation to the mature structure. The deltoid tuberosity is the region on the shaft of the humerus to which the deltoid muscle attaches. The deltoid tuberosity develops through endochondral ossification in a two-phase process; an initiating tendon-dependent phase, and a muscle-dependent growth phase.
response to muscle stretch (GO:0035994)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a myofibril being extended beyond its slack length.
detection of muscle stretch (GO:0035995)
Namespace: biological_process
Definition: The series of events by which a muscle stretch stimulus is received by a cell and converted into a molecular signal.
rhabdomere microvillus (GO:0035996)
Namespace: cellular_component
Definition: Thin cylindrical membrane-covered projection on the surface of a rhabdomere.
rhabdomere microvillus membrane (GO:0035997)
Namespace: cellular_component
Definition: The portion of the plasma membrane surrounding a microvillus of a rhabdomere.
obsolete 7,8-dihydroneopterin 3'-triphosphate biosynthetic process (GO:0035998)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the formation of 7,8-dihydroneopterin 3'-triphosphate.
Synonyms: 7,8-dihydroneopterin 3'-triphosphate anabolism; 7,8-dihydroneopterin 3'-triphosphate biosynthesis; 7,8-dihydroneopterin 3'-triphosphate formation; 7,8-dihydroneopterin 3'-triphosphate synthesis
Comment: This term was obsoleted because it represents a molecular function.
mucocyst (GO:0036000)
Namespace: cellular_component
Definition: A small subcellular vesicle, surrounded by a membrane, in the pellicle of ciliate protozoans that discharges a mucus-like secretion.
'de novo' pyridoxal 5'-phosphate biosynthetic process (GO:0036001)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of pyridoxal 5'-phosphate, the active form of vitamin B6, from simpler components.
Synonyms: 'de novo' PLP biosynthesis; 'de novo' pyridoxal 5'-phosphate anabolism; 'de novo' pyridoxal 5'-phosphate biosynthesis; 'de novo' pyridoxal 5'-phosphate formation; 'de novo' pyridoxal 5'-phosphate synthesis; 'de novo' pyridoxal phosphate biosynthetic process
pre-mRNA binding (GO:0036002)
Namespace: molecular_function
Definition: Binding to a pre-messenger RNA (pre-mRNA), an intermediate molecule between DNA and protein that may contain introns and, at least in part, encodes one or more proteins. Introns are removed from pre-mRNA to form a mRNA molecule.
Synonyms: protein-coding primary transcript binding
obsolete positive regulation of transcription from RNA polymerase II promoter in response to stress (GO:0036003)
Namespace: biological_process
Definition: OBSOLETE. Any process that increases the frequency, rate or extent of transcription from an RNA polymerase II promoter as a result of a stimulus indicating the organism is under stress. The stress is usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).
Comment: This term was obsoleted because it represents a GO-CAM model.
GAF domain binding (GO:0036004)
Namespace: molecular_function
Definition: Binding to a GAF protein domain.
response to macrophage colony-stimulating factor (GO:0036005)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a macrophage colony-stimulating factor stimulus.
Synonyms: response to M-CSF; response to macrophage colony-stimulating factor stimulus
scintillon (GO:0036007)
Namespace: cellular_component
Definition: A body present in the cytoplasm of some dinoflagellates, which is the source of bioluminescence; emits light on acidification in the presence of oxygen.
sucrose catabolic process to fructose-6-phosphate and glucose-6-phosphate (GO:0036008)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of sucrose, which proceeds by phosphorylation of sucrose to form sucrose-6-phosphate. The subsequent actions of a hydrolase and a fructokinase generate fructose-6-phosphate and glucose-6-phosphate.
protein-glutamine N-methyltransferase activity (GO:0036009)
Namespace: molecular_function
Definition: Catalysis of the reaction: L-glutaminyl-[protein] + S-adenosyl-L-methionine = N(5)-methyl-L-glutaminyl-[protein] + S-adenosyl-L-homocysteine + H+.
Synonyms: protein glutamine N-methylase activity; protein glutamine N-methyltransferase activity
protein localization to endosome (GO:0036010)
Namespace: biological_process
Definition: A process in which a protein is transported to, or maintained in, a location within an endosome.
Synonyms: protein localisation in endosome; protein localization in endosome
imaginal disc-derived leg segmentation (GO:0036011)
Namespace: biological_process
Definition: Division of an imaginal disc-derived leg into a series of semi-repetitive parts or segments. The Drosophila leg, for example, has nine segments, each separated from the next by a flexible joint.
cyanelle inner membrane (GO:0036012)
Namespace: cellular_component
Definition: The inner, i.e. lumen-facing, lipid bilayer of the cyanelle envelope; also faces the cyanelle stroma.
Synonyms: cyanelle inner envelope membrane
cyanelle outer membrane (GO:0036013)
Namespace: cellular_component
Definition: The outer, i.e. cytoplasm-facing, lipid bilayer of the cyanelle envelope.
cyanelle intermembrane space (GO:0036014)
Namespace: cellular_component
Definition: The region between the inner and outer lipid bilayers of the cyanelle envelope; includes the peptidoglycan layer.
Synonyms: cyanelle envelope lumen; cyanelle periplasm
cellular response to interleukin-3 (GO:0036016)
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 an interleukin-3 stimulus.
Synonyms: cellular response to IL-3
response to erythropoietin (GO:0036017)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an erythropoietin stimulus. Erythropoietin is a glycoprotein hormone that controls erythropoiesis.
cellular response to erythropoietin (GO:0036018)
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 an erythropoietin stimulus.
endolysosome lumen (GO:0036021)
Namespace: cellular_component
Definition: The volume enclosed by the membrane of an endolysosome. An endolysosome is a transient hybrid organelle formed by fusion of a late endosome with a lysosome.
Synonyms: endolysosomal lumen
limb joint morphogenesis (GO:0036022)
Namespace: biological_process
Definition: The process in which the anatomical structures of a limb joint are generated and organized. A limb joint is a flexible region that separates the rigid sections of a limb to allow movement in a controlled manner.
Synonyms: knee morphogenesis; leg joint morphogenesis