LiteFold/GO huggingface dataset:
obsolete nucleic acid-templated transcription (GO:0097659)
Namespace: biological_process
Definition: OBSOLETE. The synthesis of an RNA transcript from a nucleic acid template (DNA or RNA).
Comment: This term was obsoleted because it represents an unnecessary grouping class.
SCF-Cdc4 ubiquitin ligase complex (GO:0097660)
Namespace: cellular_component
Definition: An SCF ubiquitin ligase complex in which the F-box protein is Cdc4 in S. cerevisiae.
SCF-Ctf13 ubiquitin ligase complex (GO:0097661)
Namespace: cellular_component
Definition: An SCF ubiquitin ligase complex in which the F-box protein is Ctf13 in S. cerevisiae.
SCF-Das1 ubiquitin ligase complex (GO:0097662)
Namespace: cellular_component
Definition: An SCF ubiquitin ligase complex in which the F-box protein is Das1 in S. cerevisiae.
SCF-Dia2/Pof3 ubiquitin ligase complex (GO:0097663)
Namespace: cellular_component
Definition: An SCF ubiquitin ligase complex in which the F-box protein is Dia2 in S. cerevisiae (Pof3 in S. pombe).
SCF-Grr1/Pof2 ubiquitin ligase complex (GO:0097664)
Namespace: cellular_component
Definition: An SCF ubiquitin ligase complex in which the F-box protein is Grr1 in S. cerevisiae (Pof2 in S. pombe).
SCF-Mdm30 ubiquitin ligase complex (GO:0097665)
Namespace: cellular_component
Definition: An SCF ubiquitin ligase complex in which the F-box protein is Mdm30 in S. cerevisiae.
SCF-Met30/Pof1 ubiquitin ligase complex (GO:0097666)
Namespace: cellular_component
Definition: An SCF ubiquitin ligase complex in which the F-box protein is Met30 in S. cerevisiae (Pof1 in S pombe).
SCF-Rcy1/Pof6 ubiquitin ligase complex (GO:0097667)
Namespace: cellular_component
Definition: An SCF ubiquitin ligase complex in which the F-box protein is Rcy1 in S. cerevisiae (Pof6 in S. pombe).
SCF-Saf1/Pof9 ubiquitin ligase complex (GO:0097668)
Namespace: cellular_component
Definition: An SCF ubiquitin ligase complex in which the F-box protein is Saf1 in S. cerevisiae (Pof9 in S. pombe).
SCF-Skp2 ubiquitin ligase complex (GO:0097669)
Namespace: cellular_component
Definition: An SCF ubiquitin ligase complex in which the F-box protein is Skp2 in S. cerevisiae.
SCF-Ufo1/Pof10 ubiquitin ligase complex (GO:0097670)
Namespace: cellular_component
Definition: An SCF ubiquitin ligase complex in which the F-box protein is Ufo1 in S. cerevisiae (Pof10 in S. pombe).
SCF-YDR131C ubiquitin ligase complex (GO:0097671)
Namespace: cellular_component
Definition: An SCF ubiquitin ligase complex in which the F-box protein is YDR131C in S. cerevisiae.
SCF-Pof5 ubiquitin ligase complex (GO:0097672)
Namespace: cellular_component
Definition: An SCF ubiquitin ligase complex in which the F-box protein is Pof5 in S. pombe (YDR306C in S. cerevisiae).
Synonyms: SCF-YDR306C ubiquitin ligase complex
SCF-Ucc1 ubiquitin ligase complex (GO:0097673)
Namespace: cellular_component
Definition: An SCF ubiquitin ligase complex in which the F-box protein is YLR224W in S. cerevisiae.
Synonyms: SCF-YLR224W ubiquitin ligase complex
SCF-YLR352W ubiquitin ligase complex (GO:0097674)
Namespace: cellular_component
Definition: An SCF ubiquitin ligase complex in which the F-box protein is YLR352W in S. cerevisiae.
obsolete histone H3-K36 dimethylation (GO:0097676)
Namespace: biological_process
Definition: OBSOLETE. The modification of histone H3 by addition of two methyl groups to lysine at position 36 of the histone.
Comment: This term was obsoleted because it represents a molecular function.
STAT family protein binding (GO:0097677)
Namespace: molecular_function
Definition: Binding to a member of the signal transducers and activators of transcription (STAT) protein family. STATs are, as the name indicates, both signal transducers and transcription factors. STATs are activated by cytokines and some growth factors and thus control important biological processes including cell growth, cell differentiation, apoptosis and immune responses.
Synonyms: signal transducers and activators of transcription family protein binding
SOCS family protein binding (GO:0097678)
Namespace: molecular_function
Definition: Binding to a member of the suppressor of cytokine signaling (SOCS) family of proteins. SOCS represent an important mechanism to extinguish cytokine and growth factor receptor signaling. Individual SOCS proteins are typically induced by specific cytokines and growth factors, thereby generating a negative feedback loop. SOCS proteins have important functions in development and homeostasis, and in disease, particularly tumor suppression and anti-inflammatory functions.
Synonyms: suppressor of cytokine signaling family protein binding
double-strand break repair via classical nonhomologous end joining (GO:0097680)
Namespace: biological_process
Definition: An instance of double-strand break repair via nonhomologous end joining that requires a number of factors important for V(D)J recombination, including the KU70/80 heterodimer (KU), XRCC4, ligase IV, and DNA-PKcs in mammals. It does not produce translocations (as opposed to the alternative nonhomologous end joining).
Synonyms: C-NHEJ; canonical nonhomologous end joining
double-strand break repair via alternative nonhomologous end joining (GO:0097681)
Namespace: biological_process
Definition: An instance of double-strand break repair via nonhomologous end joining that is independent of factors important for V(D)J recombination (as opposed to classical nonhomologous end joining). It often results in a deletion with microhomology (i.e. 5-25bp homology) at the repair junction. Among different subclasses of nonhomologous end joining (NHEJ), alternative NHEJ appears to play a significant role in the etiology of mutations that arise during cancer development and treatment.
Synonyms: A-NHEJ; alt-NHEJ; double-strand break repair via microhomology-mediated end joining; MMEJ
intracellularly phosphatidylinositol-3,5-bisphosphate-gated monatomic cation channel activity (GO:0097682)
Namespace: molecular_function
Definition: Enables the transmembrane transfer of cations by a channel that opens when phosphatidylinositol-3,5-bisphosphate has been bound by the channel complex or one of its constituent parts.
Synonyms: intracellular phosphatidylinositol-3,5-bisphosphate-sensitive cation channel activity; intracellular phosphatidylinositol-3,5-bisphosphate-sensitive monatomic cation channel activity
dinoflagellate apex (GO:0097683)
Namespace: cellular_component
Definition: The anterior most point of a dinoflagellate epicone.
Synonyms: apex
Comment: The term name refers to a taxonomic group to make the label unique with respect to similarly-named anatomical structures.
dinoflagellate antapex (GO:0097684)
Namespace: cellular_component
Definition: The anterior most point of a dinoflagellate hypocone.
Synonyms: antapex
Comment: The term name refers to a taxonomic group to make the label unique with respect to similarly-named anatomical structures.
dinoflagellate apical groove (GO:0097685)
Namespace: cellular_component
Definition: A cell surface furrow (or groove) found on a dinoflagellate apex. It typically loops around the apex.
Synonyms: apical groove
Comment: The term name refers to a taxonomic group to make the label unique with respect to similarly-named anatomical structures.
dinoflagellate apical horn (GO:0097686)
Namespace: cellular_component
Definition: A horn-shaped dinoflagellate apex found in thecate species.
dinoflagellate antapical horn (GO:0097687)
Namespace: cellular_component
Definition: A horn-shaped dinoflagellate antapex found in thecate species.
glutamate receptor clustering (GO:0097688)
Namespace: biological_process
Definition: The neurotransmitter-gated ion channel clustering process in which glutamate receptors are localized to distinct domains in the cell membrane.
Synonyms: glutamatergic receptor clustering
iron ion transmembrane transporter inhibitor activity (GO:0097690)
Namespace: molecular_function
Definition: Binds to and stops, prevents, or reduces the activity of an iron ion transmembrane transporter.
Synonyms: iron channel inhibitor activity
Comment: An example of this is human hepcidin (UniProt symbol P81172), which regulates iron transport out of cells (see PMID:15514116).
bacterial extracellular vesicle (GO:0097691)
Namespace: cellular_component
Definition: Small membrane vesicle (< 1 um) that buds off a prokaryotic cell plasma membrane, able to carry proteins, phospholipids, lipopolysaccharides, nucleic acids, viruses, and more. Important in intercellular communication and pathogenesis; can exist within host cells.
obsolete histone H3-K4 monomethylation (GO:0097692)
Namespace: biological_process
Definition: OBSOLETE. The modification of histone H3 by addition of one methyl group to lysine at position 4 of the histone.
Comment: This term was obsoleted because it represents a molecular function.
ocelloid (GO:0097693)
Namespace: cellular_component
Definition: Eye-like subcellular structure found in dinoflagellates (a large group of single-celled eukaryotes). Consists of subcellular analogues to a cornea, lens, iris, and retina. Ocelloids are built from pre-existing organelles, including a cornea-like layer made of mitochondria and a retinal body made of anastomosing plastids.
establishment of RNA localization to telomere (GO:0097694)
Namespace: biological_process
Definition: The directed movement of RNA to a specific location in the telomeric region of a chromosome.
Synonyms: establishment of RNA localisation to telomere
establishment of protein-containing complex localization to telomere (GO:0097695)
Namespace: biological_process
Definition: The directed movement of a protein-containing macromolecular complex to a specific location in the telomeric region of a chromosome.
Synonyms: establishment of macromolecular complex localisation to telomere; establishment of macromolecular complex localization to telomere
cell surface receptor signaling pathway via STAT (GO:0097696)
Namespace: biological_process
Definition: An intracellular signal transduction process in which STAT proteins (Signal Transducers and Activators of Transcription) convey a signal to trigger a change in the activity or state of a cell. The STAT cascade begins with receptor activation followed by activation of STAT proteins by kinases. It proceeds through STA dimerization and subsequent nuclear translocation of STAT proteins, and ends with regulation of target gene expression by STAT proteins.
Synonyms: kinase activated-STAT cascade; kinase-STAT cascade; receptor signaling pathway via STAT; STAT signalling pathway
Comment: In most species, STAT proteins are activated by members of the JAK (Janus Activated Kinase) family of tyrosine kinases; the term GO:0007259 'JAK-STAT cascade' describes this specificity. In other cases, such as D. discoideum, no JAK orthologs are known, and STAT proteins are activated by tyrosine kinase-like proteins.
tRNA (5-carboxymethoxyuridine(34)-5-O)-methyltransferase activity (GO:0097697)
Namespace: molecular_function
Definition: Catalysis of the reaction: 5-carboxymethoxyuridine34 in tRNA + S-adenosyl-L-methionine = 5-methoxycarbonylmethoxyuridine34 in tRNA + S-adenosyl-L-homocysteine. The methylation occurs on the modified base.
Synonyms: tRNA 5-carboxymethoxyuridine methyltransferase activity
vascular endothelial cell response to laminar fluid shear stress (GO:0097700)
Namespace: biological_process
Definition: Any response to laminar fluid shear stress in a vascular endothelial cell.
Synonyms: blood vessel endothelial cell response to laminar fluid shear stress
response to pulsatile fluid shear stress (GO:0097701)
Namespace: biological_process
Definition: Any response to fluid shear stress where the fluid is flowing across a solid surface with periodic variations. For example, the endothelium in straight parts of the artery tree is subjected to pulsatile shear stress with a significant forward direction, which is believed to be an important physiological stimulus enhancing vessel compliance and conferring anti-thrombotic, anti-adhesive, and anti-inflammatory effects.
cellular response to pulsatile fluid shear stress (GO:0097703)
Namespace: biological_process
Definition: Any response to pulsatile fluid shear stress that occurs at the level of a cell.
cellular response to oscillatory fluid shear stress (GO:0097704)
Namespace: biological_process
Definition: Any response to oscillatory fluid shear stress that occurs at the level of a cell.
vascular endothelial cell response to pulsatile fluid shear stress (GO:0097705)
Namespace: biological_process
Definition: Any response to pulsatile fluid shear stress that occurs in a vascular endothelial cell.
Synonyms: blood vessel endothelial cell response to pulsatile fluid shear stress
ferroptosis (GO:0097707)
Namespace: biological_process
Definition: A programmed cell death characterized morphologically by the presence of smaller than normal mitochondria with condensed mitochondrial membrane densities, reduction or vanishing of mitochondria crista, and outer mitochondrial membrane rupture. Activation of mitochondrial voltage-dependent anion channels and mitogen-activated protein kinases, upregulation of endoplasmic reticulum stress, and inhibition of cystine/glutamate antiporter are involved in the induction of ferroptosis. This process is characterized by the accumulation of lipid peroxidation products and lethal reactive oxygen species (ROS) derived from iron metabolism. Glutathione peroxidase 4 (GPX4), heat shock protein beta-1, and nuclear factor erythroid 2-related factor 2 function as negative regulators of ferroptosis by limiting ROS production and reducing cellular iron uptake, respectively. In contrast, NADPH oxidase and p53 act as positive regulators of ferroptosis by promotion of ROS production and inhibition of expression of SLC7A11 (a specific light-chain subunit of the cystine/glutamate antiporter), respectively. Misregulated ferroptosis has been implicated in multiple physiological and pathological processes.
Synonyms: iron-dependent programmed cell death
intracellular vesicle (GO:0097708)
Namespace: cellular_component
Definition: Any vesicle that is part of the intracellular region.
connective tissue replacement (GO:0097709)
Namespace: biological_process
Definition: The series of events leading to growth of connective tissue when loss of tissues that are incapable of regeneration occurs, or when fibrinous exudate cannot be adequately cleared.
viral terminase, small subunit (GO:0097710)
Namespace: cellular_component
Definition: The part of the viral terminase complex that acts as a phage DNA-recognition component and regulates the activity of the large subunit. The small subunit usually assembles as a heterooligomer with the large subunit.
Synonyms: virus terminase, small subunit
Comment: This term should only be used when the small subunit consists of more than one polypeptide.
ciliary basal body-plasma membrane docking (GO:0097711)
Namespace: biological_process
Definition: The docking of a cytosolic centriole/basal body to the plasma membrane via the ciliary transition fibers. In some species this may happen via an intermediate step, by first docking to the ciliary vesicle via the ciliary transition fibers. The basal body-ciliary vesicle then relocates to the plasma membrane, followed by the ciliary vesicle fusing with the plasma membrane, effectively attaching the basal body to the plasma membrane.
Synonyms: anchoring of the basal body to the plasma membrane; ciliary basal body docking
Comment: Basal bodies in jawed vertebrates appear to first attach to a ciliary vesicle. It is unclear how specific this is to jawed vertebrates or if other organisms also employ this sequence. Some species like Giardia intestinalis do not relocate their basal bodies to the plasma membrane, but have their axonemes extend through the cytosol to then protrude out of the cell to form flagella.
vesicle targeting, trans-Golgi to periciliary membrane compartment (GO:0097712)
Namespace: biological_process
Definition: The process in which vesicles formed at the trans-Golgi network are directed to the plasma membrane surrounding the base of the cilium, including the ciliary pocket, mediated by molecules at the vesicle membrane and target membrane surfaces.
dolichol-phosphate-mannose synthase regulator activity (GO:0097713)
Namespace: molecular_function
Definition: Binds to and modulates the activity of dolichol-phosphate-mannose synthase.
response to viscosity (GO:0097714)
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 viscosity stimulus.
cellular response to viscosity (GO:0097715)
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 viscosity stimulus.
copper ion transport across blood-brain barrier (GO:0097716)
Namespace: biological_process
Definition: The directed movement of copper (Cu) ions passing through the blood-brain barrier.
Synonyms: copper ion transport across BBB
copper ion transport across blood-cerebrospinal fluid barrier (GO:0097717)
Namespace: biological_process
Definition: The directed movement of copper (Cu) ions passing through the blood-cerebrospinal fluid barrier.
Synonyms: copper ion transport across BCB; copper ion transport across BCSFB; copper ion transport across blood-CSF barrier; copper ion transport across blood/cerebrospinal fluid barrier; copper ion transport across blood/CSF barrier
disordered domain specific binding (GO:0097718)
Namespace: molecular_function
Definition: Binding to a disordered domain of a protein.
Synonyms: disordered protein domain specific binding
neural tissue regeneration (GO:0097719)
Namespace: biological_process
Definition: The regrowth of neural tissue following its loss or destruction.
Synonyms: neuroregeneration
calcineurin-mediated signaling (GO:0097720)
Namespace: biological_process
Definition: Any intracellular signal transduction in which the signal is passed on within the cell by activation of a transcription factor as a consequence of dephosphorylation by Ca(2+)-activated calcineurin. The process begins with calcium-dependent activation of the phosphatase calcineurin. Calcineurin is a calcium- and calmodulin-dependent serine/threonine protein phosphatase with a conserved function in eukaryotic species from yeast to humans. In yeast and fungi, calcineurin regulates stress signaling and cell cycle, and sporulation and virulence in pathogenic fungi. In metazoans, calcineurin is involved in cell commitment, organogenesis and organ development and immune function of T-lymphocytes. By a conserved mechanism, calcineurin phosphatase activates fungal Crz1 and mammalian NFATc by dephosphorylation and translocation of these transcription factors to the nucleus to regulate gene expression.
Synonyms: calcineurin signaling; calcineurin-mediated signalling
ciliary vesicle (GO:0097721)
Namespace: cellular_component
Definition: A Golgi-derived vesicle to which the ciliary basal body docks via its transitional fibers. Its membrane is compositionally distinct from Golgi membranes, and will become the ciliary membrane once the ciliary vesicle is fused to the plasma membrane. The ciliary vesicle is thought to be formed by multiple smaller vesicles that attach to the transitional fibers and then fuse to form a larger vesicle.
Synonyms: CV; primary ciliary vesicle
amoeboid sperm motility (GO:0097723)
Namespace: biological_process
Definition: Any process involved in the controlled movement of an amoeboid sperm cell.
Synonyms: ameboid sperm motility; ameboid sperm movement; amoeboid sperm movement
obsolete histone H3-K79 dimethylation (GO:0097725)
Namespace: biological_process
Definition: OBSOLETE. The modification of histone H3 by addition of two methyl groups to lysine at position 79 of the histone.
Synonyms: histone H3 K79 dimethylation; histone lysine H3 K79 dimethylation
Comment: This term was obsoleted because it represents a molecular function.
LEM domain binding (GO:0097726)
Namespace: molecular_function
Definition: Binding to a LEM domain. The LEM domain (for lamina-associated polypeptide, emerin, MAN1 domain) is present in a group of nuclear proteins that bind chromatin through interaction of the LEM motif with the conserved DNA crosslinking protein, barrier-to-autointegration factor (BAF).
Synonyms: lamina-associated polypeptide, emerin, MAN1 domain binding; LAP2, emerin, MAN1 domain binding
blepharoplast (GO:0097727)
Namespace: cellular_component
Definition: An intracellular non-membrane-bounded organelle found in multi-ciliated sperm cells of some primitive land plants, and consisting of many radially arranged ninefold symmetric cylinders. The blepharoplast is involved in de novo formation of multiple centrioles; it enlarges and then disintegrates into many procentrioles, which elongate and ultimately nucleate cilia on the surface of the sperm cell.
Comment: The blepharoplast should not be confused with a basal body; rather, it acts as the precursor assembly zone for multiple basal bodies.
9+0 motile cilium (GO:0097728)
Namespace: cellular_component
Definition: A motile cilium where the axoneme has a ring of nine outer microtubule doublets but no central microtubules (and is therefore called a 9+0 axoneme).
Synonyms: motile 9+0 cilium; nodal cilium
Comment: This type of cilia may be present in solitary (classic nodal cilia in embryonic nodes) or in multiple copies (e.g. in the choroid plexus epithelium).
9+2 motile cilium (GO:0097729)
Namespace: cellular_component
Definition: A motile cilium where the axoneme has a ring of nine outer microtubule doublets plus two central microtubules (and is therefore called a 9+2 axoneme).
Synonyms: conventional motile cilium; motile 9+2 cilium; sperm flagellum
Comment: This type of cilia may be present in solitary (so-called flagella, e.g. in sperm) or in multiple copies (so-called conventional motile cilia, e.g. in tracheal epithelium, ependyma or oviduct epithelium).
non-motile cilium (GO:0097730)
Namespace: cellular_component
Definition: A cilium which may have a variable array of axonemal microtubules but does not contain molecular motors.
Synonyms: immotile cilium; immotile primary cilium; nonmotile cilium; nonmotile primary cilia; nonmotile primary cilium; sensory cilium
9+0 non-motile cilium (GO:0097731)
Namespace: cellular_component
Definition: A non-motile cilium where the axoneme has a ring of nine outer microtubule doublets but no central microtubules (and is therefore called a 9+0 axoneme).
Synonyms: 9+0 immotile cilium; non-motile 9+0 cilium; primary cilium
Comment: This type of cilia may be present in solitary (authentic primary cilia in many cell types) or in multiple copies (e.g. in Grueneberg ganglion neurons).
9+2 non-motile cilium (GO:0097732)
Namespace: cellular_component
Definition: A non-motile cilium where the axoneme has a ring of nine outer microtubule doublets plus two central microtubules (and is therefore called a 9+2 axoneme).
Synonyms: 9+2 immotile cilium; non-motile 9+2 cilium
Comment: This type of cilia may be present in solitary (e.g. in inner hair cells) or in multiple copies (e.g. in olfactory neurons).
photoreceptor cell cilium (GO:0097733)
Namespace: cellular_component
Definition: A specialised 9+0 non-motile cilium found in photoreceptor cells. A ciliary transition zone called 'photoreceptor connecting cilium' links the photoreceptor outer segment to the inner segment.
Synonyms: photoreceptor cilium
extracellular exosome biogenesis (GO:0097734)
Namespace: biological_process
Definition: The assembly and secretion of an extracellular exosome, a membrane-bounded vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane.
Synonyms: exosome assembly or secretion; exosome biogenesis; exosome production; ILV assembly; intraluminal vesicle assembly
DIM/DIP cell wall layer (GO:0097735)
Namespace: cellular_component
Definition: A section of the Actinobacterium-type cell wall composed of (phenyl)phthiocerol, phthiodiolone, phthiotriol dimycocerosate, diphthioceranate and other compounds.