LiteFold/GO huggingface dataset:
nitrite reductase activity (GO:0098809)
Namespace: molecular_function
Definition: Catalysis of the reaction: nitrite + acceptor = product(s) of nitrate reduction + reduced acceptor.
neurotransmitter reuptake (GO:0098810)
Namespace: biological_process
Definition: The directed movement of neurotransmitter molecules from the extrasynaptic space into the presynaptic cytosol.
obsolete transcriptional repressor activity, RNA polymerase II activating transcription factor binding (GO:0098811)
Namespace: molecular_function
Definition: OBSOLETE. Binding to an RNA polymerase II activating transcription factor and also with the RNA polymerase II basal transcription machinery in order to stop, prevent, or reduce the frequency, rate or extent of transcription.
Synonyms: RNA polymerase II activating transcription factor binding transcription factor activity involved in negative regulation of transcription; RNA polymerase II activating transcription factor binding transcription repressor activity; RNA polymerase II transcription repressor activity
Comment: The reason for obsoletion is that this concept is partly covered by other concepts in the ontology and usage has been inconsistent.
obsolete nuclear rRNA polyadenylation involved in polyadenylation-dependent rRNA catabolic process (GO:0098812)
Namespace: biological_process
Definition: OBSOLETE. The enzymatic addition of a sequence of adenylyl residues (polyadenylation) at the 3' end of a rRNA, occurring as part of the process of polyadenylation-dependent rRNA catabolism in the nucleus.
Synonyms: nuclear rRNA polyadenylation during polyadenylation-dependent rRNA catabolic process; nuclear rRNA polyadenylation involved in poly(A)-dependent rRNA catabolic process
Comment: The reason for obsoletion is that this term represents a molecular function.
nuclear chromosome segregation (GO:0098813)
Namespace: biological_process
Definition: The process in which genetic material, in the form of nuclear chromosomes, is organized into specific structures and then physically separated and apportioned to two or more sets. Nuclear chromosome segregation begins with the condensation of chromosomes, includes chromosome separation, and ends when chromosomes have completed movement to the spindle poles.
spontaneous synaptic transmission (GO:0098814)
Namespace: biological_process
Definition: The low level of synaptic transmission that occurs via spontaneous neurotransmitter release into the synaptic cleft in the absence of a presynaptic action potential.
Synonyms: basal synaptic transmission
Comment: This is typically measured via detection of mini excitatory post-synaptic currents (mEPSCs).
modulation of excitatory postsynaptic potential (GO:0098815)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of excitatory postsynaptic potential (EPSP). EPSP is a process that leads to a temporary increase in postsynaptic potential due to the flow of positively charged ions into the postsynaptic cell. The flow of ions that causes an EPSP is an excitatory postsynaptic current (EPSC) and makes it easier for the neuron to fire an action potential.
mini excitatory postsynaptic potential (GO:0098816)
Namespace: biological_process
Definition: A process that leads to a temporary increase in postsynaptic potential due to the flow of positively charged ions into the postsynaptic cell, induced by the spontaneous release of a single vesicle of an excitatory neurotransmitter into the synapse.
evoked excitatory postsynaptic potential (GO:0098817)
Namespace: biological_process
Definition: A process that leads to a temporary increase in postsynaptic potential due to the flow of positively charged ions into the postsynaptic cell induced by the evoked release of many vesicles of excitatory neurotransmitter at the synapse.
hyperpolarization of postsynaptic membrane (GO:0098818)
Namespace: biological_process
Definition: A process that hyerpolarizes a postsynaptic membrane relative to its resting potential. This has an inhibitory effect on the post-synaptic cell, moving the membrane potential away from the firing threshold.
depolarization of postsynaptic membrane (GO:0098819)
Namespace: biological_process
Definition: A process that depolarizes a postsynaptic membrane relative to its resting potential. This has an excitatory effect on the post-synaptic cell, moving the membrane potential towards the firing threshold.
trans-synaptic protein complex (GO:0098820)
Namespace: cellular_component
Definition: A protein complex that spans the synaptic cleft and has parts in both the pre- and post-synaptic membranes.
BMP receptor activity (GO:0098821)
Namespace: molecular_function
Definition: Combining with a member of the bone morphogenetic protein (BMP) family, and transmitting a signal across the plasma membrane to initiate a change in cell activity.
obsolete peptidyl-cysteine modification to L-cysteine persulfide (GO:0098822)
Namespace: biological_process
Definition: OBSOLETE. The modification of peptidyl-cysteine to form peptidyl-L-cysteine persulfide.
Comment: This term was obsoleted because it represents a molecular function.
obsolete peptidyl-cysteine modification to S-amindino-L-cysteine (GO:0098823)
Namespace: biological_process
Definition: OBSOLETE. The amidinylation of peptidyl-cysteine to form peptidyl-S-amidino-L-cysteine.
Comment: This term was obsoleted because it represents a molecular function.
obsolete peptidyl-cysteine sulfation (GO:0098824)
Namespace: biological_process
Definition: OBSOLETE. The sulfation of peptidyl-cysteine to form S-sulfo-L-cysteine.
Comment: This term was obsoleted because it represents a molecular function.
obsolete peptidyl-histidine guanylation (GO:0098825)
Namespace: biological_process
Definition: OBSOLETE. The guanylylation of peptidyl-histidine to form (phospho-5'-guanosine)-L-histidine.
Comment: This term was obsoleted because it represents a molecular function.
endoplasmic reticulum tubular network membrane (GO:0098826)
Namespace: cellular_component
Definition: The membrane of the endoplasmic reticulum tubular network.
endoplasmic reticulum subcompartment (GO:0098827)
Namespace: cellular_component
Definition: A distinct region of the endoplasmic reticulum.
modulation of inhibitory postsynaptic potential (GO:0098828)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of inhibitory postsynaptic potential (IPSP). IPSP is a temporary decrease in postsynaptic membrane potential due to the flow of negatively charged ions into the postsynaptic cell. The flow of ions that causes an IPSP is an inhibitory postsynaptic current (IPSC) and makes it more difficult for the neuron to fire an action potential.
Synonyms: regulation of inhibitory postsynaptic potential
intestinal folate absorption (GO:0098829)
Namespace: biological_process
Definition: Uptake of folic into the blood by absorption from the small intestine.
presynaptic endosome (GO:0098830)
Namespace: cellular_component
Definition: An endosome present in the presynapse that fuses with endocytic vesicles arising in the presynaptic endocytic zone. This organelle is believed to be involved in regeneration of synaptic vesicles.
Comment: As of 2015, there is still controversy over the nature of presynaptic endosomes and their relationship to regular endosomes. See Jahne et al., 2015 (PMID:25939282) for details.
presynaptic active zone cytoplasmic component (GO:0098831)
Namespace: cellular_component
Definition: A specialized region below the presynaptic membrane, characterized by electron-dense material, a specialized cytoskeletal matrix and accumulated (associated) synaptic vesicles.
Synonyms: cortex of presynaptic active zone; presynaptic zone cortex
peri-centrosomal recycling endosome (GO:0098832)
Namespace: cellular_component
Definition: A recycling endosome that is organized around the microtubule organizing center, close to the nucleus. This is the main recycling endosome of most cells. It receives input from the Golgi as well as recycled molecules from early endosomes.
presynaptic endocytic zone (GO:0098833)
Namespace: cellular_component
Definition: A specialized region of the plasma membrane and underlying cytoplasm which surround the the active zone, into which synaptic vesicle membranes are recycled following exocytosis. It is especially enriched in endocytic proteins following intense activity.
Comment: May be identical to periactive zone?
presynaptic endocytic zone cytoplasmic component (GO:0098834)
Namespace: cellular_component
Definition: The cytoplasmic component of the presynaptic endocytic zone.
Synonyms: cortex of presynaptic endocytic zone
presynaptic endocytic zone membrane (GO:0098835)
Namespace: cellular_component
Definition: The region of the presynaptic membrane that is part of the presynaptic endocytic zone - where synaptic vesicles are endocytosed and recycled following release.
cytoskeleton of dendritic spine (GO:0098836)
Namespace: cellular_component
Definition: The portion of the cytoskeleton that lies within a dendritic spine. The actin component of this cytoskeleton is involved in spine head remodeling in response to postsynaptic signaling.
postsynaptic recycling endosome (GO:0098837)
Namespace: cellular_component
Definition: A recycling endosome of the postsynapse. In postsynaptic terminals with dendritic spines, it is typically located at the base of a dendritic spine. It is involved in recycling of neurotransmitter receptors to the postsynaptic membrane. In some cases at least, this recycling is activated by postsynaptic signaling and so can play a role in long term potentiation.
Synonyms: postsynaptic endosomal recycling compartment; postsynaptic recycling outpost
folate transmembrane transport (GO:0098838)
Namespace: biological_process
Definition: The process in which a folic acid, or one of its derivatives (dihydrofolate, tetrahydrofolate, methylene-tetrahydrofolate or methyl-tetrahydrofolate) is transported across a membrane.
Synonyms: folic acid transmembrane transport; reduced folate transmembrane transport
protein transport along microtubule (GO:0098840)
Namespace: biological_process
Definition: The directed movement of a protein along a microtubule, mediated by motor proteins.
Synonyms: microtubule-based protein transport
protein localization to cell division site after cytokinesis (GO:0098841)
Namespace: biological_process
Definition: A cellular protein localization process in which a protein is transported to, or maintained at, the site of cell division following cytokinesis.
postsynaptic early endosome (GO:0098842)
Namespace: cellular_component
Definition: An early endosome of the postsynapse. It acts as the major sorting station on the endocytic pathway, targeting neurotransmitter receptors for degregation or recycling.
Comment: Commonly used markers for postsynaptic early endosomes include RAB5A and EEA1.
postsynaptic endocytic zone (GO:0098843)
Namespace: cellular_component
Definition: A stably positioned site of clathrin adjacent and physically attached to the postsynaptic specialization, which is the site of endocytosis of post-synaptic proteins.
postsynaptic endosome (GO:0098845)
Namespace: cellular_component
Definition: An endosomal compartment that is part of the post-synapse. Only early and recycling endosomes are typically present in the postsynapse.
podocyte foot (GO:0098846)
Namespace: cellular_component
Definition: A cell projection of a podocyte (glomerular visceral epithelial cell) forming a foot-like structure projecting from a podocyte primary projection, that wraps around capillaries of a renal glomerulus. Adjacent feet (pedicels) interdigitate, leaving thin filtration slits between them, which are covered by slit diaphragms.
Synonyms: pedicel; podocyte foot process; secondary podocyte projection
sequence-specific single stranded DNA binding (GO:0098847)
Namespace: molecular_function
Definition: Binding to single-stranded DNA of a specific nucleotide composition.
alpha-D-ribose 1-methylphosphonate 5-phosphate C-P-lyase activity (GO:0098848)
Namespace: molecular_function
Definition: Catalysis of the reaction: alpha-D-ribose 1-methylphosphonate 5-phosphate = alpha-D-ribose 1,2-cyclic phosphate 5-phosphate + methane.
Synonyms: alpha-D-ribose-1-methylphosphonate-5-phosphate C-P-lyase (methane forming)
cellular detoxification of cadmium ion (GO:0098849)
Namespace: biological_process
Definition: Any process that reduces or removes the toxicity of cadmium cations in a cell. These include transport of cadmium cations away from sensitive areas and to compartments or complexes whose purpose is sequestration.
extrinsic component of synaptic vesicle membrane (GO:0098850)
Namespace: cellular_component
Definition: The component of the synaptic vesicle membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region.
double-stranded miRNA binding (GO:0098851)
Namespace: molecular_function
Definition: Binding to double-stranded miRNA. double-stranded miRNA is formed by processing of pre-miRNA stem-loop structures.
Synonyms: miRNA duplex binding
lytic vacuole membrane (GO:0098852)
Namespace: cellular_component
Definition: The lipid bilayer surrounding a lytic vacuole and separating its contents from the cytoplasm of the cell.
podocyte primary projection (GO:0098854)
Namespace: cellular_component
Definition: A cell projection originating from a renal glomerular podocyte and extending to the renal glomerular podocyte foot.
Synonyms: glomerular visceral epithelial cell primary projection; podocyte major process; primary podocyte process
HCN channel complex (GO:0098855)
Namespace: cellular_component
Definition: A cation ion channel with a preference for K+ over Na+ ions, which is activated by membrane hyperpolarization, and consists of a tetramer of HCN family members. Some members of this family (HCN1, HCN2 and HCN4) are also activated when cAMP binds to their cyclic nucleotide binding domain (CNBD). Channel complexes of this family play an important role in the control of pacemaker activity in the heart.
Synonyms: HCN1 channel complex; HCN2 channel complex; HCN3 channel complex; HCN4 channel complex; K/Na hyperpolarization-activated channel 3 complex; K/Na hyperpolarization-activated cyclic nucleotide-gated channel 1 complex; K/Na hyperpolarization-activated cyclic nucleotide-gated channel 2 complex; K/Na hyperpolarization-activated cyclic nucleotide-gated channel 4 complex; K/Na hyperpolarization-activated cyclic nucleotide-gated channel complex; potassium/sodium hyperpolarization-activated channel 3 complex; potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 1 complex; potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 complex; potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 tetramer; potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 complex; potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 tetramer; potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel complex
intestinal lipid absorption (GO:0098856)
Namespace: biological_process
Definition: A process in which lipids are taken up from the contents of the intestine.
membrane microdomain (GO:0098857)
Namespace: cellular_component
Definition: A membrane region with a lipid composition that is distinct from that of the membrane regions that surround it.
actin filament bundle of actin-based cell projection (GO:0098859)
Namespace: cellular_component
Definition: A bundle of cross-linked actin filaments that is part of an actin-based cell protrusion, in which filaments are oriented such that the plus (barbed) ends are at the tip of the protrusion, capped by a tip complex which stabilizes the filaments.
actin filament bundle of filopodium (GO:0098861)
Namespace: cellular_component
Definition: A parallel bundle of actin filaments that is part of filopodium. Filaments are oriented such that the plus (barbed) ends are at the tip of the protrusion, capped by a tip complex.
cluster of actin-based cell projections (GO:0098862)
Namespace: cellular_component
Definition: A cell part consisting of multiple, closely packed actin-based cell projections.
nuclear migration by microtubule mediated pushing forces (GO:0098863)
Namespace: biological_process
Definition: The directed movement of the nucleus by pushing forces exerted by polymerization of backward-extending microtubules.
symbiont-mediated stabilization of host tight cell-cell junction (GO:0098864)
Namespace: biological_process
Definition: The process in which a symbiont organism that stabilizes the its host tight cell-cell junctions, making them less dynamic. The tight junction is a cell-cell junction that seals cells together in an epithelium in a way that prevents even small molecules from leaking from one side of the sheet to the other, and plays a role in the inflammatory response of the host.
Synonyms: modification by symbiont of host tight cell-cell junction; stabilization of host tight cell-cell junction
symbiont-mediated perturbation of host tight cell-cell junction (GO:0098865)
Namespace: biological_process
Definition: The process in which an organism effects a change that impairs the structure or temporarily subverts the tight cell-cell junctions between cells of the host. Tight cell-cell junctions, a cell-cell junction that seals cells together in an epithelium in a way that prevents even small molecules from leaking from one side of the sheet to the other.
Synonyms: disruption by symbiont of host tight cell-cell junction; disruption of host tight cell-cell junction; modification by symbiont of host bicellular tight junctions; symbiont-mediated disruption of host tight cell-cell junction
multivesicular body fusion to apical plasma membrane (GO:0098866)
Namespace: biological_process
Definition: The fusion of the membrane of a multivesicular body with the apical plasma membrane, resulting in release of exosomes from the cell.
intramembranous bone growth (GO:0098867)
Namespace: biological_process
Definition: The increase in size or mass of an intramembranous bone that contributes to the shaping of the bone.
bone growth (GO:0098868)
Namespace: biological_process
Definition: The increase in size or mass of a bone that contributes to the shaping of that bone.
cellular oxidant detoxification (GO:0098869)
Namespace: biological_process
Definition: Any process carried out at the cellular level that reduces or removes the toxicity superoxide radicals or hydrogen peroxide.
action potential propagation (GO:0098870)
Namespace: biological_process
Definition: The propagation of an action potential along the plane of an excitable membrane. Action potentials typically propagate once triggered because the depolarization of adjacent membrane regions due to an action potential crosses the firing threshold.
postsynaptic actin cytoskeleton (GO:0098871)
Namespace: cellular_component
Definition: The actin cytoskeleton that is part of a postsynapse.
obsolete G protein-coupled neurotransmitter receptor activity involved in regulation of postsynaptic cytosolic calcium ion concentration (GO:0098872)
Namespace: molecular_function
Definition: OBSOLETE. A G protein-coupled neurotransmitter receptor activity occurring in the postsynaptic membrane, that is involved in regulating the cytosolic concentration of calcium ions in the postsynapse.
Synonyms: G-protein coupled neurotransmitter receptor activity involved in regulation of postsynaptic cytosolic calcium ion concentration; G-protein coupled neurotransmitter receptor activity involved in regulation of postsynaptic cytosolic calcium levels
Comment: The reason for obsoletion is that this term is pre-composed and should be represented as a GO-CAM model.
neuronal action potential back-propagation (GO:0098873)
Namespace: biological_process
Definition: Propagation of an action potential in a neuron, from its site of initiation (typically the axon hillock) towards the soma.
spike train (GO:0098874)
Namespace: biological_process
Definition: A series of sequential, propagated action potentials occurring in a single cell.
Synonyms: burst of action potentials; spike-train
epididymosome (GO:0098875)
Namespace: cellular_component
Definition: A microvesicle of the epididymal fluid, from which spermatozoa acquire membrane proteins.
vesicle-mediated transport to the plasma membrane (GO:0098876)
Namespace: biological_process
Definition: The directed movement of substances to the plasma membrane in transport vesicles that fuse with the plasma membrane by exocytosis.
neurotransmitter receptor complex (GO:0098878)
Namespace: cellular_component
Definition: Any protein complex that is capable of functioning as a neurotransmitter receptor.
structural constituent of postsynaptic specialization (GO:0098879)
Namespace: molecular_function
Definition: The action of a molecule that contributes to the structural integrity of a postsynaptic specialization.
maintenance of postsynaptic specialization structure (GO:0098880)
Namespace: biological_process
Definition: A process which maintains the organization and the arrangement of proteins in the presynaptic specialization.
exocytic insertion of neurotransmitter receptor to plasma membrane (GO:0098881)
Namespace: biological_process
Definition: The exocytic fusion of neurotransmitter receptor-containing vesicles with plasma membrane, resulting in the integration of neurotransmitter receptors into the plasma membrane. This process includes tethering and docking steps that prepare vesicles for fusion.
Synonyms: neurotransmitter receptor insertion
structural constituent of presynaptic active zone (GO:0098882)
Namespace: molecular_function
Definition: The action of a molecule that contributes to the structural integrity of a presynaptic active zone.
Synonyms: structural constituent of active zone
synapse pruning (GO:0098883)
Namespace: biological_process
Definition: A cellular process that results in the controlled breakdown of synapse. After it starts the process is continuous until the synapse has disappeared.
Synonyms: synapse clearance; synapse disassembly; synapse elimination; synapse removal
postsynaptic neurotransmitter receptor internalization (GO:0098884)
Namespace: biological_process
Definition: A receptor-mediated endocytosis process that results in the internalization of a neurotransmitter receptor from the postsynaptic membrane endocytic zone into an endocytic vesicle.
Synonyms: postsynaptic neurotransmitter receptor endocytosis
modification of postsynaptic actin cytoskeleton (GO:0098885)
Namespace: biological_process
Definition: Any process that modifies the structure of a postsynaptic actin cytoskeleton.
Synonyms: postsynaptic actin cytoskeleton remodelling
Comment: This class does not cover assembly or disassembly of synapses, only the modification/remodelling of existing ones.
modification of dendritic spine (GO:0098886)
Namespace: biological_process
Definition: Any process that modifies the structure of a dendritic spine.
Comment: This class does not cover assembly or disassembly of dendritic spines, only the modification/remodelling of existing ones.
neurotransmitter receptor transport, endosome to postsynaptic membrane (GO:0098887)
Namespace: biological_process
Definition: The directed movement of neurotransmitter receptor from the postsynaptic endosome to the postsynaptic membrane in transport vesicles.
Synonyms: postsynaptic neurotransmitter receptor endosomal trafficking
extrinsic component of presynaptic membrane (GO:0098888)
Namespace: cellular_component
Definition: The component of the presynaptic 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 component of presynaptic plasma membrane