LiteFold/GO huggingface dataset:
obsolete N-terminal peptidyl-serine monomethylation (GO:0035571)
Namespace: biological_process
Definition: OBSOLETE. The monomethylation of the N-terminal serine of proteins to form the derivative N-methylserine.
Comment: This term was obsoleted because it represents a molecular function.
N-terminal peptidyl-serine dimethylation (GO:0035572)
Namespace: biological_process
Definition: The dimethylation of the N-terminal serine of proteins to form the derivative N,N-dimethylserine.
N-terminal peptidyl-serine trimethylation (GO:0035573)
Namespace: biological_process
Definition: The trimethylation of the N-terminal serine of proteins to form the derivative N,N,N-trimethylserine.
obsolete histone H4-K20 demethylation (GO:0035574)
Namespace: biological_process
Definition: OBSOLETE. The modification of histone H4 by the removal of a methyl group from lysine at position 20 of the histone.
Comment: This term was obsoleted because it represents a molecular function.
obsolete retinoic acid receptor signaling pathway involved in pronephric field specification (GO:0035576)
Namespace: biological_process
Definition: OBSOLETE. The series of molecular signals generated as a consequence of a retinoic acid receptor binding to one of its physiological ligands that results in regions of the embryo being delineated into the area in which the pronephric kidney will develop.
Synonyms: retinoic acid receptor signalling pathway involved in pronephric field specification
Comment: This term was obsoleted because it is a pre-composed term that represents a GO-CAM model.
azurophil granule membrane (GO:0035577)
Namespace: cellular_component
Definition: The lipid bilayer surrounding an azurophil granule, a primary lysosomal granule found in neutrophil granulocytes that contains a wide range of hydrolytic enzymes and is released into the extracellular fluid.
Synonyms: primary granule membrane
azurophil granule lumen (GO:0035578)
Namespace: cellular_component
Definition: The volume enclosed by the membrane of an azurophil granule, a primary lysosomal granule found in neutrophil granulocytes that contains a wide range of hydrolytic enzymes and is released into the extracellular fluid.
Synonyms: primary granule lumen
specific granule membrane (GO:0035579)
Namespace: cellular_component
Definition: The lipid bilayer surrounding a specific granule, a granule with a membranous, tubular internal structure, found primarily in mature neutrophil cells. Most are released into the extracellular fluid. Specific granules contain lactoferrin, lysozyme, vitamin B12 binding protein and elastase.
Synonyms: secondary granule membrane
specific granule lumen (GO:0035580)
Namespace: cellular_component
Definition: The volume enclosed by the membrane of a specific granule, a granule with a membranous, tubular internal structure, found primarily in mature neutrophil cells. Most are released into the extracellular fluid. Specific granules contain lactoferrin, lysozyme, vitamin B12 binding protein and elastase.
Synonyms: secondary granule lumen
obsolete sequestering of extracellular ligand from receptor (GO:0035581)
Namespace: biological_process
Definition: OBSOLETE. The process of binding or confining an extracellular signaling ligand, such that the ligand is unable to bind to its cell surface receptor.
Synonyms: extracellular sequestering of receptor ligand; negative regulation of protein bioavailability
Comment: The reason for obsoletion is that this term represents a molecular function and not a real GO process.
obsolete sequestering of TGFbeta in extracellular matrix (GO:0035583)
Namespace: biological_process
Definition: OBSOLETE. Confining TGFbeta to the extracellular matrix (ECM) such that it is separated from other components of the signaling pathway, including its cell surface receptor. TGFbeta is secreted as part of a latent complex that is targeted to the extracellular matrix through latent-TGFbeta-binding protein (LTBP)-mediated association with matrix proteins.
Synonyms: negative regulation of transforming growth factor beta receptor signaling pathway by extracellular matrix sequestering of TGFbeta; negative regulation of transforming growth factor beta receptor signalling pathway by extracellular matrix sequestering of TGFbeta; sequestering of TGFbeta large latency complex in extracellular matrix; sequestering of TGFbeta LLC in extracellular matrix
Comment: The reason for obsoletion is that this term represents a molecular function and not a real GO process.
obsolete calcium-mediated signaling using intracellular calcium source (GO:0035584)
Namespace: biological_process
Definition: OBSOLETE. The series of molecular signals in which a cell uses calcium ions released from an intracellular store to convert a signal into a response.
Synonyms: calcium signaling using intracellular calcium source; calcium signalling using intracellular calcium source; calcium-mediated signalling using intracellular calcium source
Comment: The reason for obsoletion is that these pathways are not clearly defined and likely overlap with transport.
obsolete calcium-mediated signaling using extracellular calcium source (GO:0035585)
Namespace: biological_process
Definition: OBSOLETE. The series of molecular signals in which a cell uses calcium ions imported from an extracellular source to convert a signal into a response.
Synonyms: calcium signaling using extracellular calcium source; calcium signalling using extracellular calcium source; calcium-mediated signalling using extracellular calcium source; extracellular calcium influx
Comment: The reason for obsoletion is that these pathways are not clearly defined and likely overlap with transport.
G protein-coupled purinergic receptor signaling pathway (GO:0035588)
Namespace: biological_process
Definition: A G protein-coupled receptor signaling pathway initiated by an extracellular purine or purine derivative binding to its receptor, and ending with the regulation of a downstream cellular process.
Synonyms: G-protein coupled purinergic receptor signaling pathway; G-protein coupled purinergic receptor signalling pathway
purinergic nucleotide receptor signaling pathway (GO:0035590)
Namespace: biological_process
Definition: The series of molecular signals initiated by an extracellular purine nucleotide binding to its receptor, and ending with the regulation of a downstream cellular process, e.g. transcription.
Synonyms: P2 receptor signaling pathway; purinergic nucleotide receptor signalling pathway; purinergic receptor signaling pathway; purinergic receptor signalling pathway; purinoceptor signaling pathway
signaling adaptor activity (GO:0035591)
Namespace: molecular_function
Definition: The binding activity of a molecule that brings together two or more molecules in a signaling pathway, permitting those molecules to function in a coordinated way. Adaptor molecules themselves do not have catalytic activity.
Synonyms: signaling protein recruiting activity; signaling scaffold activity; signalling adaptor activity
Comment: A signaling adaptor can bring together both protein and non-protein molecules within a signaling pathway. Scaffold proteins act in at least four ways: tethering signaling components, localizing these components to specific areas of the cell, regulating signal transduction by coordinating positive and negative feedback signals, and insulating correct signaling proteins from competing proteins (PMID:19104498).
establishment of protein localization to extracellular region (GO:0035592)
Namespace: biological_process
Definition: The directed movement of a protein to a specific location within the extracellular region.
Synonyms: establishment of protein localisation in extracellular region; establishment of protein localization in extracellular region
obsolete positive regulation of Wnt signaling pathway by establishment of Wnt protein localization to extracellular region (GO:0035593)
Namespace: biological_process
Definition: OBSOLETE. Any process that activates or increases the frequency, rate or extent of the Wnt signaling pathway by the directed movement of a Wnt protein within the extracellular region.
Synonyms: positive regulation of Wnt diffusion; positive regulation of Wnt receptor signaling pathway by establishment of Wnt protein localisation in extracellular region; positive regulation of Wnt receptor signaling pathway by establishment of Wnt protein localization in extracellular region; positive regulation of Wnt receptor signaling pathway by establishment of Wnt protein localization to extracellular region; positive regulation of Wnt receptor signalling pathway by establishment of Wnt protein localization in extracellular region; positive regulation of Wnt signaling range; positive regulation of Wnt-activated signaling pathway by establishment of Wnt protein localization to extracellular region
Comment: This term was obsoleted because it represents a GO-CAM model.
ganglioside binding (GO:0035594)
Namespace: molecular_function
Definition: Binding to a ganglioside, a ceramide oligosaccharide carrying in addition to other sugar residues, one or more sialic acid residues.
N-acetylglucosaminylinositol deacetylase activity (GO:0035595)
Namespace: molecular_function
Definition: Catalysis of the reaction: 1D-myo-inositol 2-acetamido-2-deoxy-alpha-D-glucopyranoside + H2O = 1D-myo-inositol 2-amino-2-deoxy-alpha-D-glucopyranoside + acetate. This reaction is the hydrolysis of an acetyl group from N-acetylglucosaminylinositol.
Synonyms: 1-(2-acetamido-2-deoxy-alpha-D-glucopyranosyl)-1D-myo-inositol acetylhydrolase activity; 1D-myo-inositol 2-acetamido-2-deoxy-alpha-D-glucopyranoside deacetylase activity; GlcNAc-Ins deacetylase activity; N-acetyl-1D-myo-inositol-2-amino-2-deoxy-alpha-D-glucopyranoside deacetylase activity
tRNA-2-methylthio-N(6)-dimethylallyladenosine(37) synthase activity (GO:0035597)
Namespace: molecular_function
Definition: Catalysis of the reaction: N(6)-dimethylallyladenosine(37) in tRNA + [sulfur carrier]-SH + AH2 + 2 S-adenosyl-L-methionine = 2-methylsulfanyl-N(6)-dimethylallyladenosine(37) in tRNA + [sulfur carrier]-H + 5'-deoxyadenosine + L-methionine + A + S-adenosyl-L-homocysteine + 2 H+.
Synonyms: i6A methylthiotransferase activity; N6-isopentenyladenosine methylthiotransferase activity; tRNA-2-methylthio-N(6)-dimethylallyladenosine synthase activity
tRNA (N(6)-L-threonylcarbamoyladenosine(37)-C(2))-methylthiotransferase activity (GO:0035598)
Namespace: molecular_function
Definition: Catalysis of the reaction: N(6)-L-threonylcarbamoyladenosine(37) in tRNA + [sulfur carrier]-SH + AH2 + 2 S-adenosyl-L-methionine = 2-methylsulfanyl-N(6)-L-threonylcarbamoyladenosine(37) in tRNA + [sulfur carrier]-H + 5'-deoxyadenosine + L-methionine + A + S-adenosyl-L-homocysteine + 2 H+.
Synonyms: N6-threonylcarbomyladenosine methylthiotransferase activity; t6A methylthiotransferase activity
tRNA methylthiolation (GO:0035600)
Namespace: biological_process
Definition: The addition of a methylthioether group (-SCH3) to a nucleotide in a tRNA molecule.
protein deacylation (GO:0035601)
Namespace: biological_process
Definition: The removal of an acyl group, any group or radical of the form RCO- where R is an organic group, from a protein amino acid.
Synonyms: protein amino acid deacylation
fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptotic process in bone marrow cell (GO:0035602)
Namespace: biological_process
Definition: The series of molecular signals generated as a consequence of a fibroblast growth factor receptor binding to one of its physiological ligands, which stops, prevents, or reduces the frequency, rate or extent of the occurrence or rate of cell death by apoptotic process in the bone marrow.
Synonyms: FGF receptor signaling pathway involved in negative regulation of apoptosis in bone marrow; FGFR signaling pathway involved in negative regulation of apoptosis in bone marrow; fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptosis in bone marrow; fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptotic process in bone marrow; fibroblast growth factor receptor signalling pathway involved in negative regulation of apoptotic process in bone marrow
fibroblast growth factor receptor signaling pathway involved in hemopoiesis (GO:0035603)
Namespace: biological_process
Definition: The series of molecular signals generated as a consequence of a fibroblast growth factor receptor binding to one of its physiological ligands, which contributes to hemopoiesis.
Synonyms: FGF receptor signaling pathway involved in hematopoiesis; FGFR signaling pathway involved in hematopoiesis; fibroblast growth factor receptor signaling pathway involved in hematopoiesis; fibroblast growth factor receptor signalling pathway involved in hemopoiesis
fibroblast growth factor receptor signaling pathway involved in positive regulation of cell proliferation in bone marrow (GO:0035604)
Namespace: biological_process
Definition: The series of molecular signals generated as a consequence of a fibroblast growth factor receptor binding to one of its physiological ligands, which activates or increases the frequency, rate or extent of cell proliferation in the bone marrow.
Synonyms: FGF receptor signaling pathway involved in positive regulation of cell proliferation in bone marrow; FGFR signaling pathway involved in positive regulation of cell proliferation in bone marrow; fibroblast growth factor receptor signalling pathway involved in positive regulation of cell proliferation in bone marrow
peptidyl-cysteine S-nitrosylase activity (GO:0035605)
Namespace: molecular_function
Definition: Catalysis of the transfer of a nitric oxide (NO) group to a sulphur atom within a cysteine residue of a protein.
Synonyms: protein nitrosylase activity; S-nitrosylase activity
Comment: This term should not be used to annotate the nitrosylating action of nitric oxide synthase (NOS) if the nitroso group is synthesized directly on the substrate.
peptidyl-cysteine S-trans-nitrosylation (GO:0035606)
Namespace: biological_process
Definition: Transfer of a nitric oxide (NO) group from one cysteine residue to another.
Synonyms: cysteine to cysteine nitrosylation; cysteine-to-cysteine transnitrosylation; protein-to-protein transnitrosylation; S-transnitrosylation
protein deglutamylation (GO:0035608)
Namespace: biological_process
Definition: The removal of a glutamate residue from a protein. Glutamate residues in proteins can be gene-encoded, or added as side chains during the protein modification process of polyglutamylation.
Synonyms: protein amino acid deglutamylation
protein side chain deglutamylation (GO:0035610)
Namespace: biological_process
Definition: The removal of a glutamate residue from the side chain of a protein. Glutamate side chains are added to glutamic acid residues within the primary protein sequence during polyglutamylation.
Synonyms: removal of posttranslational polyglutamylation; shortening of glutamate side chain
protein branching point deglutamylation (GO:0035611)
Namespace: biological_process
Definition: The removal of a branching point glutamate residue. A branching point glutamate connects a glutamate side chain to a gene-encoded glutamate residue.
AP-2 adaptor complex binding (GO:0035612)
Namespace: molecular_function
Definition: Binding to an AP-2 adaptor complex. The AP-2 adaptor complex is a heterotetrameric AP-type membrane coat adaptor complex that consists of alpha, beta2, mu2 and sigma2 subunits and links clathrin to the membrane surface of a vesicle. In at least humans, the AP-2 complex can be heterogeneric due to the existence of multiple subunit isoforms encoded by different alpha genes (alphaA and alphaC).
Synonyms: AP-2 clathrin adaptor complex binding
RNA stem-loop binding (GO:0035613)
Namespace: molecular_function
Definition: Binding to a stem-loop in an RNA molecule. An RNA stem-loop is a secondary RNA structure consisting of a double-stranded RNA (dsRNA) stem and a terminal loop.
Synonyms: RNA hairpin binding; RNA hairpin loop binding
snRNA stem-loop binding (GO:0035614)
Namespace: molecular_function
Definition: Binding to a stem-loop in a small nuclear RNA (snRNA). An RNA stem-loop is a secondary RNA structure consisting of a double-stranded RNA (dsRNA) stem and a terminal loop.
Synonyms: small nuclear RNA stem-loop binding; snRNA hairpin binding; snRNA hairpin loop binding
obsolete histone H2B conserved C-terminal lysine deubiquitination (GO:0035616)
Namespace: biological_process
Definition: OBSOLETE. A histone deubiquitination process in which a ubiquitin monomer is removed from a conserved lysine residue in the C-terminus of histone H2B. The conserved lysine residue is K119 in fission yeast, K123 in budding yeast, or K120 in mammals.
Synonyms: budding yeast H2B K123 deubiquitination; fission yeast H2B K119 deubiquitination; mammalian H2B K120 deubiquitination
Comment: This term was obsoleted because it represents a molecular function.
stress granule disassembly (GO:0035617)
Namespace: biological_process
Definition: The disaggregation of a stress granule into its constituent protein and RNA parts.
Synonyms: SG disassembly
root hair (GO:0035618)
Namespace: cellular_component
Definition: A long, thin projection from a root epidermal cell that contains F-actin and tubulin, and a cell wall.
Comment: This term is a child of 'cell projection' and not 'cell hair' to distinguish it from animal cell hairs, which are morphologically distinct.
root hair tip (GO:0035619)
Namespace: cellular_component
Definition: The tip portion of an outgrowth of a root epidermal cell.
Synonyms: root hair cell tip
ER to Golgi ceramide transport (GO:0035621)
Namespace: biological_process
Definition: The directed movement of a ceramide from the endoplasmic reticulum (ER) to the Golgi. Ceramides are a class of lipid composed of sphingosine linked to a fatty acid.
Synonyms: endoplasmic reticulum to Golgi ceramide transport; ER to Golgi ceramide translocation; non-vesicular ceramide trafficking
renal D-glucose absorption (GO:0035623)
Namespace: biological_process
Definition: A renal system process in which D-glucose is taken up from the collecting ducts and proximal and distal loops of the nephron. In non-mammalian species, absorption may occur in related structures.
Synonyms: glucose reabsorption; nephron glucose absorption; renal glucose absorption
obsolete receptor transactivation (GO:0035624)
Namespace: biological_process
Definition: OBSOLETE. The process in which a receptor is activated by another receptor. Receptor transactivation can occur through different mechanisms and includes cross-talk between signaling pathways where one receptor activates a receptor for a different ligand, and also activation of subunits within a receptor oligomer.
Comment: This term was obsoleted because it represents a molecular function.
obsolete epidermal growth factor-activated receptor transactivation by G-protein coupled receptor signaling pathway (GO:0035625)
Namespace: biological_process
Definition: OBSOLETE. The process in which an epidermal growth factor-activated receptor is activated via signaling events from a consequence of a G protein-coupled . This is an example of cross-talk between the EGF and GPCR signaling pathways.
Synonyms: EGFR transactivation by GPCR; EGFR transactivation upon GPCR stimulation; epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway; epidermal growth factor-activated receptor transactivation by G-protein coupled receptor signalling pathway
Comment: This term was obsoleted because it should be captured as a GO-CAM model.
juvenile hormone mediated signaling pathway (GO:0035626)
Namespace: biological_process
Definition: The series of molecular signals initiated by a juvenile hormone binding to its receptor, a bHLH-PAS transcription factor, to regulate gene expression.
Synonyms: juvenile hormone mediated signalling pathway; juvenile hormone-mediated signaling pathway
ceramide transport (GO:0035627)
Namespace: biological_process
Definition: The directed movement of ceramides into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Ceramides are a class of lipid composed of sphingosine linked to a fatty acid.
cystic duct development (GO:0035628)
Namespace: biological_process
Definition: The progression of the cystic duct over time, from its formation to the mature structure. The cystic duct runs from the gallbladder to the common bile duct.
obsolete N-terminal protein amino acid N-linked glycosylation (GO:0035629)
Namespace: biological_process
Definition: OBSOLETE. Addition of a carbohydrate or carbohydrate derivative unit via a nitrogen (N) atom of the N-terminal amino acid of a protein.
Comment: The reason for obsoletion is that these term were added in error.
bone mineralization involved in bone maturation (GO:0035630)
Namespace: biological_process
Definition: The deposition of hydroxyapatite, involved in the progression of the skeleton from its formation to its mature state.
Comment: Bone mineralization can also occur after a fracture and as a response to stress; in these cases, consider using the term 'bone mineralization ; GO:0030282'.
CD40 receptor complex (GO:0035631)
Namespace: cellular_component
Definition: A protein complex that contains at least CD40 (a cell surface receptor of the tumour necrosis factor receptor (TNFR) superfamily), and other signaling molecules.
maintenance of blood-brain barrier (GO:0035633)
Namespace: biological_process
Definition: Maintaining the structure and function of the blood-brain barrier, thus ensuring specific regulated transport of substances (e.g. macromolecules, small molecules, ions) into the brain, and out of the brain into the blood circulation.
Synonyms: maintenance of BBB; maintenance of blood/brain barrier
Comment: Homeostasis and maintenance processes are regulatory processes, therefore, regulation child terms, such as: regulation of maintenance of blood-brain barrier, should not exist for these terms. \nInstead, for capturing regulation at the blood-brain barrier, consider using the part_of child term: regulation of blood-brain barrier permeability.
response to stilbenoid (GO:0035634)
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 exposure to a stilbenoid. Stilbenoids are secondary products of heartwood formation in trees that can act as phytoalexins. Stilbenoids are hydroxylated derivatives of stilbene. They belong to the family of phenylpropanoids and share most of their biosynthesis pathway with chalcones.
entry of bacterium into host cell (GO:0035635)
Namespace: biological_process
Definition: The process in which a bacterium enters a host cell. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: bacterial entry into host cell; invasion of bacteria into host cell
obsolete multi-organism signaling (GO:0035636)
Namespace: biological_process
Definition: OBSOLETE. The transfer of information between living organisms.
Synonyms: multi-organism signalling; pheromone signaling; signaling between organisms; signaling with other organism
Comment: This term was obsoleted because it was a grouping term but had no subclasses.
obsolete multicellular organismal signaling (GO:0035637)
Namespace: biological_process
Definition: OBSOLETE. The transfer of information occurring at the level of a multicellular organism.
Synonyms: multicellular organismal signalling
Comment: This term was obsoleted because it is an unnecessary grouping class.
purine ribonucleoside triphosphate binding (GO:0035639)
Namespace: molecular_function
Definition: Binding to a purine ribonucleoside triphosphate, a compound consisting of a purine base linked to a ribose sugar esterified with triphosphate on the sugar.
Synonyms: purine NTP binding