LiteFold/GO huggingface dataset:
ciliary base (GO:0097546)
Namespace: cellular_component
Definition: Area of the cilium (also called flagellum) where the basal body and the axoneme are anchored to the plasma membrane. The ciliary base encompasses the distal part of the basal body, transition fibers and transition zone and is structurally and functionally very distinct from the rest of the cilium. In this area proteins are sorted and filtered before entering the cilium, and many ciliary proteins localize specifically to this area.
Synonyms: cilial base; cilium base; flagellar base; flagellum base
Comment: Due to resolution issues, researchers are often unable to assign protein localization to more specific ciliary compartments such as the basal body, transition fibers or transition zone, and instead refer to 'ciliary base'. The terms GO:0036064 'ciliary basal body', GO:0097539 'ciliary transition fiber' and GO:0035869 'ciliary transition zone' represent strictly defined compartments at the ciliary base and should be used for annotation whenever possible. Also, note that cilia and eukaryotic flagella are deemed to be equivalent.
mitochondrial double-strand break repair via homologous recombination (GO:0097552)
Namespace: biological_process
Definition: The repair of a double-strand break in mitochondrial DNA in which the broken DNA molecule is repaired using homologous sequences.
Synonyms: mtDSB repair via homologous recombination
Comment: Note that the processes of nuclear double-strand break repair and mitochondrial double-strand break repair are genetically separable.
calcium ion transmembrane import into cytosol (GO:0097553)
Namespace: biological_process
Definition: A process in which a calcium ion is transported from one side of a membrane to the other into the cytosol by means of some agent such as a transporter or pore.
Synonyms: calcium transmembrane import into cytosol; cytosolic calcium ion transport
left posteriolateral flagellum (GO:0097556)
Namespace: cellular_component
Definition: A cilium (also called flagellum) found in Giardia species (trophozoite stage). It is nucleated by the left posteriolateral basal body and extends cytoplasmically toward the cell posterior, marking the left anterior boundary of the lateral shield and the left lateral region of the funis before exiting at the left lateral region of the cell body.
Synonyms: left posteriolateral cilium; left posterolateral cilium; left posterolateral flagellum
Comment: Note that we deem cilium and microtubule-based flagellum to be equivalent; the primary term name reflects frequency of use. Also note that, due to the asymmetric nature of the Giardia trophozoite, this term is defined spatially as the trophozoite is viewed from the dorsal side, with the two nuclei dorsal to the ventral disc, and the ventral disc toward the anterior.
left lateral basal body pair (GO:0097562)
Namespace: cellular_component
Definition: Set of two basal bodies found in Giardia species (trophozoite stage). It comprises the anterior and ventral basal bodies located to the right of the left nucleus of the trophozoite when viewed dorsally.
Comment: Due to the asymmetric nature of the Giardia trophozoite, this term is defined spatially as the trophozoite is viewed from the dorsal side, with the two nuclei dorsal to the ventral disc, and the ventral disc toward the anterior.
right tetrad (GO:0097567)
Namespace: cellular_component
Definition: Set of four basal bodies found in Giardia species (trophozoite stage). It comprises the right lateral basal body pair and the right middle basal body pair (i.e. the anterior, ventral, caudal and posteriolateral basal bodies located to the left of the right nucleus of the trophozoite when viewed dorsally).
Comment: Due to the asymmetric nature of the Giardia trophozoite, this term is defined spatially as the trophozoite is viewed from the dorsal side, with the two nuclei dorsal to the ventral disc, and the ventral disc toward the anterior.
cyst wall (GO:0097570)
Namespace: cellular_component
Definition: The specialized envelope lying outside the cell membrane of a cyst. A cyst is a resting or dormant stage of a microorganism, usually a bacterium or a protist or rarely an invertebrate animal, that helps the organism to survive in unfavorable environmental conditions. In protists such as protozoan parasites alternating cystic- and non-cystic stages, the cyst wall is usually composed of carbohydrates and proteins.
lamellipodium organization (GO:0097581)
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 lamellipodium. A lamellipodium is a thin sheetlike process extended by the leading edge of a crawling fibroblast; contains a dense meshwork of actin filaments.
ventral disc supernumerary microtubule array (GO:0097596)
Namespace: cellular_component
Definition: A partial left-handed spiral array of microtubules that lies generally dorsal to the main ventral disc microtubule array in Giardia species (trophozoite stage).
Synonyms: supernumerary microtubule array; ventral disk supernumerary microtubule array
Comment: Due to the asymmetric nature of the Giardia trophozoite, this term is defined spatially as the trophozoite is viewed from the dorsal side, with the two nuclei dorsal to the ventral disc, and the ventral disc toward the anterior.
temperature-gated ion channel activity (GO:0097603)
Namespace: molecular_function
Definition: Enables the transmembrane transfer of an ion by a channel that opens in response to a temperature stimulus (e.g. exposure to a temperature range different than the optimal temperature for that organism).
Synonyms: heat-activated ion channel activity; temperature gated ion channel activity; temperature-activated ion channel activity; temperature-dependent ion channel activity
obsolete positive regulation of nuclear envelope permeability (GO:0097606)
Namespace: biological_process
Definition: OBSOLETE. Any process that increases the frequency, rate or extent of the passage or uptake of molecules by the nuclear envelope.
Synonyms: positive regulation of nuclear membrane permeability
Comment: The reason for obsoletion is that the nuclear envelope is quite permeable, so there is no cellular process to regulate it.
dinoflagellate cingulum (GO:0097611)
Namespace: cellular_component
Definition: A cell surface furrow that wraps around a dinoflagellate cell; the transverse flagellum lies in it.
Synonyms: cingulum; girdle; transverse groove
Comment: The term name refers to a taxonomic group to make the label unique with respect to similarly-named anatomical structures.
potassium ion export across plasma membrane (GO:0097623)
Namespace: biological_process
Definition: The directed movement of potassium ions from inside of a cell, across the plasma membrane and into the extracellular region.
Synonyms: potassium export; potassium export across plasma membrane; potassium ion export; potassium ion export from cell
distal tip cell migration (GO:0097628)
Namespace: biological_process
Definition: The orderly movement of a distal tip cell.
extrinsic component of omegasome membrane (GO:0097629)
Namespace: cellular_component
Definition: The component of the omegasome 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 omegasome membrane; omegasome peripheral membrane
obsolete intrinsic component of omegasome membrane (GO:0097630)
Namespace: cellular_component
Definition: OBSOLETE. The component of the omegasome membrane consisting of the gene products and protein complexes having either part of their peptide sequence embedded in the hydrophobic region of the membrane or some other covalently attached group such as a GPI anchor that is similarly embedded in the membrane.
Synonyms: intrinsic to omegasome membrane
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
obsolete intrinsic component of autophagosome membrane (GO:0097636)
Namespace: cellular_component
Definition: OBSOLETE. The component of the autophagosome membrane consisting of the gene products and protein complexes having either part of their peptide sequence embedded in the hydrophobic region of the membrane or some other covalently attached group such as a GPI anchor that is similarly embedded in the membrane.
Synonyms: intrinsic component of autophagic vacuole membrane; intrinsic to autophagic vacuole membrane
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
G protein-coupled receptor complex (GO:0097648)
Namespace: cellular_component
Definition: A protein complex that contains G protein-coupled receptors.
Synonyms: G-protein coupled receptor complex
SCF-Hrt3/Pof7 ubiquitin ligase complex (GO:0097675)
Namespace: cellular_component
Definition: An SCF ubiquitin ligase complex in which the F-box protein is Hrt3 in S. cerevisiae (Pof7 in S. pombe).
telomere maintenance via base-excision repair (GO:0097698)
Namespace: biological_process
Definition: A telomere maintenance process that occurs by base-excision repair of telomeric DNA in response to DNA damage. Telomeric sequences are particularly susceptible to oxidative DNA damage, due to their G-rich nature.
vascular endothelial cell response to fluid shear stress (GO:0097699)
Namespace: biological_process
Definition: Any response to fluid shear stress in a vascular endothelial cell.
Synonyms: blood vessel endothelial cell response to fluid shear stress
response to oscillatory fluid shear stress (GO:0097702)
Namespace: biological_process
Definition: Any response to fluid shear stress where the fluid is moving across a solid surface with an oscillatory flow. Disturbed flow patterns at the arterial bifurcations and curvatures may cause endothelial dysfunction, which initiates atherosclerosis.
vascular endothelial cell response to oscillatory fluid shear stress (GO:0097706)
Namespace: biological_process
Definition: Any response to oscillatory fluid shear stress that occurs in a vascular endothelial cell.
Synonyms: blood vessel endothelial cell response to oscillatory fluid shear stress
sperm motility (GO:0097722)
Namespace: biological_process
Definition: Any process involved in the controlled movement of a sperm cell.
Synonyms: sperm movement
acquisition of mycelium reproductive competence (GO:0097737)
Namespace: biological_process
Definition: A maturation process by which an organism acquires the ability to reproduce. In fungi, reproductive competence only occurs in a population of filamentous cells that form a mycelium.
Synonyms: mycelium developmental competence
membrane bending (GO:0097753)
Namespace: biological_process
Definition: A membrane organization process resulting in the bending of a membrane.
Synonyms: membrane curvature
viral capsid, fiber (GO:0098022)
Namespace: cellular_component
Definition: A type of capsid decoration composed of fiber structures.
Synonyms: head/capsid fiber
inhibitory neuromuscular junction (GO:0098521)
Namespace: cellular_component
Definition: The junction between the axon of a motor neuron and a muscle fiber. In response to the arrival of action potentials, the presynaptic button releases molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane of the muscle fiber, leading to a change in post-synaptic potential that inhibits muscle contraction.
Comment: Inhibitory neuromuscular junctions are found in arthropods but not in vertebrates.
neuromuscular junction of somatic muscle (GO:0098527)
Namespace: cellular_component
Definition: A neuromuscular junction in which the target muscle cell is a somatic muscle cell, such as those found in nematodes and arthropods.
defense response to other organism (GO:0098542)
Namespace: biological_process
Definition: Reactions triggered in response to the presence of another organism that act to protect the cell or organism from damage caused by that organism.
Synonyms: defence response incompatible interaction; defence response to pathogen, incompatible interaction; defense response, incompatible interaction; resistance response to pathogen
lumenal side of late endosome membrane (GO:0098551)
Namespace: cellular_component
Definition: The leaflet of the late endosomal membrane that faces the lumen, including any protein embedded in, attached to, or peripherally associated with it.
Synonyms: internal leaflet of late endosome membrane; internal side of late endosome membrane
lumenal side of endosome membrane (GO:0098565)
Namespace: cellular_component
Definition: The leaflet of the endosome membrane that faces the lumen, including any protein embedded in, attached to, or peripherally associated with it.
Synonyms: internal leaflet of endosome membrane; internal side of endosome membrane
lumenal side of plastid thylakoid membrane (GO:0098571)
Namespace: cellular_component
Definition: The leaflet of a plastid thylakoid membrane that faces the lumen, including any protein embedded in, attached to, or peripherally associated with it.
lumenal side of membrane (GO:0098576)
Namespace: cellular_component
Definition: The leaflet of an organelle membrane that faces the lumen, including any protein embedded in, attached to, or peripherally associated with it.
bounding membrane of organelle (GO:0098588)
Namespace: cellular_component
Definition: The lipid bilayer that forms the outer-most layer of an organelle.
Comment: Examples include the outer membranes of double membrane bound organelles such as mitochondria as well as the bounding membranes of single-membrane bound organelles such as lysosomes.
selenocystathionine gamma-lyase activity (GO:0098606)
Namespace: molecular_function
Definition: Catalysis of the reaction:L-selenocystathionine + H2O = L-selenocysteine + 2-oxobutanoate + NH4+.
adenylylselenate kinase activity (GO:0098617)
Namespace: molecular_function
Definition: Catalysis of the reaction: ATP + adenylylselenate = ADP + 3'-phosphoadenylylselenate.
collagen fibril binding (GO:0098633)
Namespace: molecular_function
Definition: Binding to a collagen fibril.
obsolete basement membrane collagen trimer (GO:0098651)
Namespace: cellular_component
Definition: OBSOLETE. Any collagen timer that is part of a basement membrane.
Comment: This term was obsoleted because it is an unnecessary grouping class.
obsolete inorganic ion transmembrane transport (GO:0098660)
Namespace: biological_process
Definition: OBSOLETE. The process in which an inorganic ion is transported across a membrane.
Synonyms: inorganic ion membrane transport; transmembrane inorganic ion transport
Comment: Note that this term is not intended for use in annotating lateral movement within membranes. The reason for obsoletion is that this term was an unnecessary and confusing grouping term.
entry receptor-mediated virion attachment to host cell (GO:0098670)
Namespace: biological_process
Definition: The process by which a virion attaches to a host cell by binding to a receptor on the host cell surface that mediates/triggers viral entry by endocytosis/pinocytosis or by inducing fusion/penetration.
Synonyms: viral attachment to host entry receptor
symbiont-mediated suppression of host CRISPR-cas system (GO:0098672)
Namespace: biological_process
Definition: A process by which a symbiont inhibits or disrupts the CRISPR-cas system of its host. Bacteria and archaea use CRISPR-Cas adaptive immune systems to defend themselves from infection by bacteriophages (phages), and phages have various mechanisms to counter the CRISPR-cas system.
Synonyms: anti-CRISPR; CRISPR-cas system evasion by virus; evasion by virus of CRISPR-cas system; inhibition of host CRISPR-cas system by virus; suppression of host CRISPR-cas system
template-free RNA nucleotidyltransferase activity (GO:0098680)
Namespace: molecular_function
Definition: Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1); the addition of a terminal nucleotide to an RNA molecule in the absence of a nucleic acid template.
arciform density (GO:0098682)
Namespace: cellular_component
Definition: An electron dense structure that anchors a synaptic ribbon to the presynaptic membrane.
photoreceptor ribbon synapse (GO:0098684)
Namespace: cellular_component
Definition: A ribbon synapse between a retinal photoreceptor cell (rod or cone) and a retinal bipolar cell. These contain a plate-like synaptic ribbon.
noradrenergic synapse (GO:0098692)
Namespace: cellular_component
Definition: A synapse that uses noradrenaline as a neurotransmitter.
glutathione import across plasma membrane (GO:0098709)
Namespace: biological_process
Definition: The directed movement of glutathione from outside of a cell, across the plasma membrane and into the cytosol.
Synonyms: glutathione import into cell; glutathione uptake
pantothenate import across plasma membrane (GO:0098717)
Namespace: biological_process
Definition: The directed movement of pantothenate from outside of a cell, across the plasma membrane and into the cytosol.
Synonyms: pantothenate import; pantothenate import into cell
serine import across plasma membrane (GO:0098718)
Namespace: biological_process
Definition: The directed movement of serine from outside of a cell, across the plasma membrane and into the cytosol.
Synonyms: serine import into cell
sodium ion import across plasma membrane (GO:0098719)
Namespace: biological_process
Definition: The directed movement of sodium ions from outside of a cell, across the plasma membrane and into the cytosol.
Synonyms: sodium import; sodium ion import; sodium ion import into cell
symmetric division of skeletal muscle satellite stem cell (GO:0098726)
Namespace: biological_process
Definition: The symmetric division of a skeletal muscle satellite stem cell, resulting in two skeletal muscle satellite stem cells. This process is involved in amplification of the pool of these cells.
macromolecule deacylation (GO:0098732)
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 macromolecule.
cerebellar neuron development (GO:0098749)
Namespace: biological_process
Definition: The process whose specific outcome is the progression of a cerebellar neuron over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell.
obsolete integral component of the cytoplasmic side of the plasma membrane (GO:0098752)
Namespace: cellular_component
Definition: OBSOLETE. The component of the plasma membrane consisting of the gene products that penetrate only the cytoplasmic side of the membrane.
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
response to interleukin-8 (GO:0098758)
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-8 stimulus.
Synonyms: response to IL-8
biofilm matrix assembly (GO:0098785)
Namespace: biological_process
Definition: A process that results in the assembly of a biofilm matrix.
presynapse (GO:0098793)
Namespace: cellular_component
Definition: The part of a synapse that is part of the presynaptic cell.
Synonyms: presynaptic terminal
outer mitochondrial membrane protein complex (GO:0098799)
Namespace: cellular_component
Definition: Any protein complex that is part of the outer mitochondrial membrane.
postsynaptic density membrane (GO:0098839)
Namespace: cellular_component
Definition: The membrane component of the postsynaptic density. This is the region of the postsynaptic membrane in which the population of neurotransmitter receptors involved in synaptic transmission are concentrated.
postsynaptic endocytic zone membrane (GO:0098844)
Namespace: cellular_component
Definition: The region of the postsynaptic membrane that is part of the postsynaptic endocytic zone. This region of membrane is associated with stable clathrin puncta.
endoplasmic reticulum-vacuole membrane contact site (GO:0098853)
Namespace: cellular_component
Definition: A zone of apposition between endoplasmic-reticulum and lytic vacuole membranes, structured by bridging complexes.
Synonyms: ER-vacuole membrane contact site
actin-based cell projection (GO:0098858)
Namespace: cellular_component
Definition: A cell projection supported by an assembly of actin filaments, and which lacks microtubules.
actin filament bundle of stereocilium (GO:0098860)
Namespace: cellular_component
Definition: A bundle of hundreds of cross-linked actin filaments (an actin cable), that is the supporting structure of a stereocilium. Filaments are oriented such that the the plus (barbed) ends are at the tip of the protrusion and are capped by a tip complex which bridges to the plasma membrane.
neurotransmitter receptor transport to plasma membrane (GO:0098877)
Namespace: biological_process
Definition: The directed movement of neurotransmitter receptor to the plasma membrane in transport vesicles.
spine apparatus lumen (GO:0098899)
Namespace: cellular_component
Definition: The volume enclosed by the spine apparatus membrane.
regulation of action potential (GO:0098900)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination. This typically occurs via modulation of the activity or expression of voltage-gated ion channels.
Comment: The ion channels through which current flows during an action potential should be annotated to the process 'action potential'. Gene products involved in modulating the characteristics of an action potential via changing the expression levels or the activity of these channels (e.g. modulating their kinetics or voltage sensitivity) should be annotated to this regulation term.
regulation of cardiac muscle cell action potential (GO:0098901)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination in a cardiac muscle cell. This typically occurs via modulation of the activity or expression of voltage-gated ion channels.
regulation of Purkinje myocyte action potential (GO:0098906)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination in a Purkinje myocyte. This typically occurs via modulation of the activity or expression of voltage-gated ion channels.
regulation of SA node cell action potential (GO:0098907)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination in an SA node cardiac myocyte. This typically occurs via modulation of the activity or expression of voltage-gated ion channels.
Synonyms: regulation of SA node cardiac muscle cell action potential; regulation of SAN cardiac muscle cell action potential; regulation of sinoatrial node cardiac muscle cell action potential; regulation of sinus node cardiac muscle cell action potential
regulation of ventricular cardiac muscle cell action potential (GO:0098911)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination in a ventricular cardiac muscle cell contributing to the regulation of its contraction. This typically occurs via modulation of the activity or expression of voltage-gated ion channels.
membrane repolarization during atrial cardiac muscle cell action potential (GO:0098914)
Namespace: biological_process
Definition: The process in which ions are transported across a membrane such that the atrial cardiomyocyte membrane potential changes in the direction from the positive membrane potential at the peak of the action potential towards the negative resting potential.
Synonyms: atrial repolarization; electrocardiogram QRS complex