LiteFold/GO huggingface dataset:
energy homeostasis (GO:0097009)
Namespace: biological_process
Definition: Any process involved in the balance between food intake (energy input) and energy expenditure.
Synonyms: negative regulation of energy homeostasis; positive regulation of energy homeostasis; regulation of energy homeostasis
eukaryotic translation initiation factor 4F complex assembly (GO:0097010)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form the eukaryotic translation initiation factor 4F complex.
Synonyms: eIF-4F assembly; eIF4F assembly
cellular response to granulocyte macrophage colony-stimulating factor stimulus (GO:0097011)
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 granulocyte macrophage colony-stimulating factor stimulus.
Synonyms: cellular response to GM-CSF stimulus
response to granulocyte macrophage colony-stimulating factor (GO:0097012)
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 granulocyte macrophage colony-stimulating factor stimulus.
Synonyms: response to GM-CSF; response to granulocyte macrophage colony-stimulating factor stimulus
phagocytic vesicle lumen (GO:0097013)
Namespace: cellular_component
Definition: The volume enclosed by the membrane of a phagocytic vesicle.
ciliary plasm (GO:0097014)
Namespace: cellular_component
Definition: All of the contents of a cilium, excluding the plasma membrane surrounding the cilium.
Synonyms: cilial cytoplasm; ciliary cytoplasm; cilium cytoplasm; cilium plasm; microtubule-based flagellar cytoplasm; microtubule-based flagellar matrix; microtubule-based flagellum cytoplasm; microtubule-based flagellum matrix
Comment: Note that we deem cilium and microtubule-based flagellum to be equivalent. Also, researchers consider the composition of both the plasm and the membrane of the cilium to be detectably different from that in the non-ciliary cytosol and plasma membrane (e.g. in terms of calcium ion concentration, membrane lipid composition, and more). For this reason, the term "ciliary plasm" is not linked to "cytoplasm".
obsolete bacterial-type flagellar cytoplasm (GO:0097015)
Namespace: cellular_component
Definition: OBSOLETE. All of the contents of a bacterial-type flagellum, excluding the plasma membrane surrounding the flagellum.
Synonyms: bacterial-type flagellum cytoplasm
Comment: The reason for obsoletion is that this term describes a cellular component that does not exist.
renal protein absorption (GO:0097017)
Namespace: biological_process
Definition: A renal system process in which proteins are taken up from the collecting ducts, glomerulus and proximal and distal loops of the nephron. In non-mammalian species, absorption may occur in related structures (e.g. protein absorption is observed in nephrocytes in Drosophila, see PMID:23264686).
renal albumin absorption (GO:0097018)
Namespace: biological_process
Definition: A renal system process in which albumin is taken up from the collecting ducts, glomerulus and proximal and distal loops of the nephron.
obsolete neurotransmitter receptor catabolic process (GO:0097019)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the breakdown of neurotransmitter receptors.
Synonyms: neurotransmitter receptor breakdown; neurotransmitter receptor catabolism; neurotransmitter receptor degradation
Comment: The reason for obsoletion is that 'neurotransmitter' is unnecessary grouping in the metabolism branch of the ontology, and it creates true path violations.
COPII receptor activity (GO:0097020)
Namespace: molecular_function
Definition: Binding specifically to a substance (cargo) to deliver it to a COPII transport vesicle. Cargo receptors span a membrane (either the plasma membrane or a vesicle membrane), binding simultaneously to cargo molecules and coat adaptors, to efficiently recruit soluble proteins to nascent vesicles.
lymphocyte migration into lymphoid organs (GO:0097021)
Namespace: biological_process
Definition: The movement of a lymphocyte within the lymphatic system into lymphoid organs such as lymph nodes, spleen or Peyer's patches, and its subsequent positioning within defined functional compartments such as sites of cell activation by antigen.
Synonyms: lymphocyte homing
lymphocyte migration into lymph node (GO:0097022)
Namespace: biological_process
Definition: The movement of a lymphocyte within the lymphatic system into a lymph node, and its subsequent positioning within defined functional compartments such as sites of cell activation by antigen.
Synonyms: lymphocyte homing
fructose 6-phosphate aldolase activity (GO:0097023)
Namespace: molecular_function
Definition: Catalysis of the reaction: D-fructose-6-phosphate = dihydroxyacetone + D-glyceraldehyde-3-phosphate.
MPP7-DLG1-LIN7 complex (GO:0097025)
Namespace: cellular_component
Definition: A heterotrimeric protein complex formed by the association of MMP7, DLG1 and either LIN7A or LIN7C; regulates the stability and localization of DLG1 to cell junctions.
dendritic cell dendrite assembly (GO:0097026)
Namespace: biological_process
Definition: Formation of dendrites, branched cellular projections (or cytoplasmic extension) that are extended from the surface of a dendritic immune cell, and which enable the cell to sample luminal pathogens and increase the surface area for antigen presentation to T cells.
Synonyms: dendritic extension
Comment: Note that dendrites of dendritic cells should not be confused with neuronal cell dendrites, which process electrical signals.
dendritic cell differentiation (GO:0097028)
Namespace: biological_process
Definition: The process in which a precursor cell type acquires the specialized features of a dendritic cell. A dendritic cell is a leukocyte of dendritic lineage specialized in the uptake, processing, and transport of antigens to lymph nodes for the purpose of stimulating an immune response via T cell activation.
Comment: Note that immunologists typically use the word 'maturation' to refer to dendritic cells undergoing the process that GO describes as 'cell differentiation'.
mature conventional dendritic cell differentiation (GO:0097029)
Namespace: biological_process
Definition: The process in which antigen-activated dendritic cells acquire the specialized features of a mature conventional dendritic cell. Mature conventional dendritic cells upregulate the surface expression of MHC molecules, chemokine receptors and adhesion molecules, and increase the number of dendrites (cytoplasmic protrusions) in preparation for migration to lymphoid organs where they present antigen to T cells.
Comment: Note that immunologists typically use the word 'maturation' to refer to dendritic cells undergoing the process that GO describes as 'cell differentiation'.
CENP-A containing nucleosome binding (GO:0097030)
Namespace: molecular_function
Definition: Binding to a centromere-specific nucleosome, a form of nucleosome located only at the centromere, in which the histone H3 is replaced by the variant form CENP-A (sometimes known as CenH3).
Synonyms: centromere-specific nucleosome binding; centromeric nucleosome binding
obsolete mitochondrial respiratory chain complex I biogenesis (GO:0097031)
Namespace: biological_process
Definition: OBSOLETE. The biogenesis of a mitochondrial respiratory chain complex I, a protein complex located in the mitochondrial inner membrane that forms part of the mitochondrial respiratory chain. Includes the synthesis of constituent proteins and their aggregation, arrangement and bonding together.
Comment: The reason for obsoletion is that 'biogenesis' as related to a protein is translation, and there is no indication that the members of these complexes are synthesized in a particular way. Historically biogenesis terms were created for some processes when the level of a molecule was changed by an unknown mechanism, for instance transcription, translation, assembly etc. This is now considered too indirect for annotation.
obsolete mitochondrial respiratory chain complex II biogenesis (GO:0097032)
Namespace: biological_process
Definition: OBSOLETE. The biogenesis of a mitochondrial respiratory chain complex II, a protein complex located in the mitochondrial inner membrane that forms part of the mitochondrial respiratory chain. Includes the synthesis of constituent proteins and their aggregation, arrangement and bonding together.
Comment: The reason for obsoletion is that 'biogenesis' as related to a protein is translation, and there is no indication that the members of these complexes are synthesized in a particular way. Historically biogenesis terms were created for some processes when the level of a molecule was changed by an unknown mechanism, for instance transcription, translation, assembly etc. This is now considered too indirect for annotation.
obsolete mitochondrial respiratory chain complex III biogenesis (GO:0097033)
Namespace: biological_process
Definition: OBSOLETE. The biogenesis of a mitochondrial respiratory chain complex III (also known as cytochrome bc(1) complex or ubiquinol-cytochrome c reductase), a protein complex located in the mitochondrial inner membrane that forms part of the mitochondrial respiratory chain. Includes the synthesis of constituent proteins and their aggregation, arrangement and bonding together.
Synonyms: mitochondrial cytochrome bc(1) complex biogenesis
Comment: The reason for obsoletion is that 'biogenesis' as related to a protein is translation, and there is no indication that the members of these complexes are synthesized in a particular way. Historically biogenesis terms were created for some processes when the level of a molecule was changed by an unknown mechanism, for instance transcription, translation, assembly etc. This is now considered too indirect for annotation.
obsolete mitochondrial respiratory chain complex IV biogenesis (GO:0097034)
Namespace: biological_process
Definition: OBSOLETE. The biogenesis of a mitochondrial respiratory chain complex IV (also known as cytochrome c oxidase complex), a protein complex located in the mitochondrial inner membrane that forms part of the mitochondrial respiratory chain. Includes the synthesis of constituent proteins and their aggregation, arrangement and bonding together.
Synonyms: mitochondrial cytochrome c oxidase complex biogenesis
Comment: The reason for obsoletion is that 'biogenesis' as related to a protein is translation, and there is no indication that the members of these complexes are synthesized in a particular way. Historically biogenesis terms were created for some processes when the level of a molecule was changed by an unknown mechanism, for instance transcription, translation, assembly etc. This is now considered too indirect for annotation.
regulation of membrane lipid distribution (GO:0097035)
Namespace: biological_process
Definition: Any process that modulates the proportions or spatial arrangement of lipids in a cellular membrane.
regulation of plasma membrane sterol distribution (GO:0097036)
Namespace: biological_process
Definition: Any process that modulates the proportions or spatial arrangement of sterols in the plasma membrane.
heme export (GO:0097037)
Namespace: biological_process
Definition: The directed movement of heme out of a cell or organelle.
perinuclear endoplasmic reticulum (GO:0097038)
Namespace: cellular_component
Definition: The portion of endoplasmic reticulum, the intracellular network of tubules and cisternae, that occurs near the nucleus. The lumen of the perinuclear endoplasmic reticulum is contiguous with the nuclear envelope lumen (also called perinuclear space), the region between the inner and outer nuclear membranes.
Synonyms: perinuclear ER
protein linear polyubiquitination (GO:0097039)
Namespace: biological_process
Definition: A protein ubiquitination process in which a linear polymer of ubiquitin, formed by the amino-terminal methionine (M1) of one ubiquitin molecule and by the carboxy-terminal glycine (G76) of the next, is added to a protein.
Synonyms: M1 linkage
phthiocerol biosynthetic process (GO:0097040)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of phthiocerol, a lipid-based 1,3-glycol consisting of (3S,4R)-3-methoxy-4-methylnonacosane having (9R)- and (11S)-hydroxy substituents.
Synonyms: phthiocerol anabolism; phthiocerol biosynthesis; phthiocerol formation; phthiocerol synthesis
obsolete extrinsic component of fungal-type vacuolar membrane (GO:0097042)
Namespace: cellular_component
Definition: OBSOLETE. The component of a fungal-type vacuolar membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region.
Synonyms: extrinsic to fungal-type vacuolar membrane
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
obsolete histone H3-K56 acetylation in response to DNA damage (GO:0097044)
Namespace: biological_process
Definition: OBSOLETE. The modification of histone H3 by the addition of an acetyl group to a lysine residue at position 56 of the histone as a result of the detection of DNA damage within a cell.
Comment: This term was obsoleted because it represents a molecular function and a GO-CAM model.
phosphatidylserine exposure on blood platelet (GO:0097045)
Namespace: biological_process
Definition: A phospholipid scrambling process that results in the appearance of phosphatidylserine on the surface of activated blood platelets, and triggers the clotting system.
replication fork progression beyond termination site (GO:0097046)
Namespace: biological_process
Definition: Regulation of DNA replication by a mechanism that allows a DNA replication fork to progress beyond a termination site, which is a region containing fork pausing elements that influence the progression and merging of DNA replication forks.
DNA replication termination region (GO:0097047)
Namespace: cellular_component
Definition: A chromosomal region that contains fork pausing elements influencing the progression and merging of DNA replication forks.
Synonyms: TER
dendritic cell apoptotic process (GO:0097048)
Namespace: biological_process
Definition: Any apoptotic process in a dendritic cell, a cell of hematopoietic origin, typically resident in particular tissues, specialized in the uptake, processing, and transport of antigens to lymph nodes for the purpose of stimulating an immune response via T cell activation.
Synonyms: dendritic cell apoptosis
motor neuron apoptotic process (GO:0097049)
Namespace: biological_process
Definition: Any apoptotic process in a motor neuron, an efferent neuron that passes from the central nervous system or a ganglion toward or to a muscle and conducts an impulse that causes movement.
Synonyms: motoneuron apoptosis; motor neuron apoptosis
type B pancreatic cell apoptotic process (GO:0097050)
Namespace: biological_process
Definition: Any apoptotic process in a type B pancreatic cell, a cell located towards center of the islets of Langerhans that secretes insulin.
Synonyms: pancreatic B cell apoptosis; pancreatic beta cell apoptosis; type B pancreatic cell apoptosis
establishment of protein localization to endoplasmic reticulum membrane (GO:0097051)
Namespace: biological_process
Definition: The directed movement of a protein to a specific location in the endoplasmic reticulum membrane.
Synonyms: establishment of protein localisation in endoplasmic reticulum membrane; establishment of protein localization in endoplasmic reticulum membrane
obsolete L-kynurenine metabolic process (GO:0097052)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving L-kynurenine, the L-enantiomer of the amino acid kynurenine (3-(2-aminobenzoyl)-alanine).
Synonyms: L-kynurenine metabolism
Comment: This term was obsoleted because it is an unnecessary grouping term.
L-kynurenine catabolic process (GO:0097053)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of L-kynurenine, the L-enantiomer of the amino acid kynurenine (3-(2-aminobenzoyl)-alanine).
Synonyms: L-kynurenine breakdown; L-kynurenine catabolism; L-kynurenine degradation
L-glutamate biosynthetic process (GO:0097054)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of L-glutamate, the L enantiomer anion of 2-aminopentanedioic acid.
Synonyms: L-glutamate anabolism; L-glutamate biosynthesis; L-glutamate formation; L-glutamate synthesis
obsolete selenocysteinyl-tRNA(Sec) biosynthetic process (GO:0097056)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the formation of selenocysteinyl-tRNA(Sec). This process occurs through the following steps: a unique serine-tRNA with a UGA recognizing anticodon is first aminoacylated with serine; this is then phosphorylated by phosphoseryl-tRNA[Ser]Sec kinase; lastly, selenium is swapped for the phosphate on the serine.
Synonyms: selenocysteinyl-tRNA(Sec) anabolism; selenocysteinyl-tRNA(Sec) biosynthesis; selenocysteinyl-tRNA(Sec) formation; selenocysteinyl-tRNA(Sec) synthesis
Comment: This term was obsoleted because it is the same process as GO:0001717 conversion of seryl-tRNAsec to selenocys-tRNAsec.
TRAF2-GSTP1 complex (GO:0097057)
Namespace: cellular_component
Definition: A protein complex comprising tumor necrosis factor (TNF) receptor-associated factor 2 (TRAF2) and glutathione S-transferase pi 1 (GSTP1). This complex is thought to disrupt the TNF signaling cascade, thus down-regulating inflammatory responses.
CRLF-CLCF1 complex (GO:0097058)
Namespace: cellular_component
Definition: A heterodimeric protein complex that is composed of cardiotrophin-like cytokine factor 1 (product of the CLCF1 gene) and cytokine receptor-like factor 1 (product of the CRLF gene) and is secreted into the extracellular space. The CRLF-CLCF1 complex is a ligand for the ciliary neurotrophic factor (CNTF) receptor complex.
Synonyms: CLF-CLC complex
CNTFR-CLCF1 complex (GO:0097059)
Namespace: cellular_component
Definition: A protein complex that is composed of two soluble ciliary neurotrophic factor receptor alpha subunits (product of the CNTFR gene) and two molecules of cardiotrophin-like cytokine factor 1 (product of the CLCF1 gene). The complex is secreted into the extracellular space.
Synonyms: sCNTFR-CLC complex
synaptic membrane (GO:0097060)
Namespace: cellular_component
Definition: A specialized area of membrane on either the presynaptic or the postsynaptic side of a synapse, the junction between a nerve fiber of one neuron and another neuron or muscle fiber or glial cell.
dendritic spine organization (GO:0097061)
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 dendritic spine. A dendritic spine is a specialized protrusion from a neuronal dendrite and is involved in synaptic transmission.
Synonyms: dendritic spine organisation
dendritic spine maintenance (GO:0097062)
Namespace: biological_process
Definition: The organization process that preserves a dendritic spine in a stable functional or structural state. A dendritic spine is a specialized protrusion from a neuronal dendrite and is involved in synaptic transmission.
cadmium ion sensor activity (GO:0097063)
Namespace: molecular_function
Definition: Binding to and responding, e.g. by conformational change, to changes in the cellular level of cadmium (Cd++).
obsolete ncRNA export from nucleus (GO:0097064)
Namespace: biological_process
Definition: OBSOLETE. The directed movement of a non-coding RNA transcript (ncRNA) from the nucleus to the cytoplasm.
Comment: The reason for obsoletion is that this term was an unnecessary grouping term.
anterior head development (GO:0097065)
Namespace: biological_process
Definition: The process whose specific outcome is the progression of the anterior part of the head over time, from its formation to the mature structure.
response to thyroid hormone (GO:0097066)
Namespace: biological_process
Definition: 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 thyroid hormone stimulus.
Synonyms: response to thyroid hormone stimulus
cellular response to thyroid hormone stimulus (GO:0097067)
Namespace: biological_process
Definition: A change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a thyroid hormone stimulus.
cellular response to thyroxine stimulus (GO:0097069)
Namespace: biological_process
Definition: A change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a thyroxine stimulus.
Synonyms: cellular response to T4 stimulus
ductus arteriosus closure (GO:0097070)
Namespace: biological_process
Definition: The morphogenesis process in which the ductus arteriosus changes to no longer permit blood flow after birth. The ductus arteriosus is the shunt between the aorta and the pulmonary artery which allows blood to bypass the fetus' lungs.
interferon regulatory factor 3 complex (GO:0097072)
Namespace: cellular_component
Definition: An interferon regulatory factor complex that consists of a homodimer of interferon regulatory factor 3.
Synonyms: IRF3:IRF3 complex
interferon regulatory factor 5 complex (GO:0097073)
Namespace: cellular_component
Definition: An interferon regulatory factor complex that consists of a homodimer of interferon regulatory factor 5.
Synonyms: IRF5:IRF5 complex
interferon regulatory factor 7 complex (GO:0097074)
Namespace: cellular_component
Definition: An interferon regulatory factor complex that consists of a homodimer of interferon regulatory factor 7.
Synonyms: IRF7:IRF7 complex
interferon regulatory factor 3-interferon regulatory factor 7 complex (GO:0097075)
Namespace: cellular_component
Definition: An interferon regulatory factor complex that consists of a heterodimer of interferon regulatory factor 3 and interferon regulatory factor 7.
Synonyms: IRF3:IRF7 complex
transforming growth factor beta activated kinase 1 complex (GO:0097076)
Namespace: cellular_component
Definition: A protein complex that possesses protein kinase activity and activates the I-kappa B kinase complex (IKK) and mitogen-activated protein (MAP) kinases in response to TRAF6 signaling. It comprises the catalytic subunit TAK1 complexed to the regulatory subunits, termed TABs (TAK1-binding subunits).
Synonyms: TAK1 kinase complex
copper ion sensor activity (GO:0097077)
Namespace: molecular_function
Definition: Binding to and responding, e.g. by conformational change, to changes in the cellular level of copper(I) (Cu+).
FAL1-SGD1 complex (GO:0097078)
Namespace: cellular_component
Definition: A protein complex involved in the 18S rRNA biogenesis. In S. cerevisiae this complex consists of Fal1p and Sgd1p and in humans this complex consists of NOM1 and eIF4AIII subunits.
selenite:proton symporter activity (GO:0097079)
Namespace: molecular_function
Definition: Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: selenite(out) + H+(out) = selenite(in) + H+(in).
Synonyms: selenite:H+ symporter activity; selenite:hydrogen symporter activity
plasma membrane selenite transport (GO:0097080)
Namespace: biological_process
Definition: The directed movement of inorganic selenite (HSeO3-1 at physiological pH) across a plasma membrane.
Synonyms: plasma membrane hydrogenselenite transport
vascular associated smooth muscle cell fate commitment (GO:0097081)
Namespace: biological_process
Definition: The commitment of cells to a vascular smooth muscle cell fate and their capacity to differentiate into vascular smooth muscle cells. A vascular smooth muscle cell is a non-striated, elongated, spindle-shaped cell found lining the blood vessels.
Synonyms: vascular smooth muscle cell fate commitment