LiteFold/GO huggingface dataset:
obsolete positive regulation of Wnt signaling pathway by Wnt receptor internalization (GO:0038013)
Namespace: biological_process
Definition: OBSOLETE. Any process in which internalization of a Wnt receptor activates or increases the frequency, rate or extent of the Wnt signaling pathway.
Synonyms: positive regulation of Wnt receptor signaling pathway by Frizzled internalization; positive regulation of Wnt receptor signaling pathway by LRP6 internalization; positive regulation of Wnt receptor signaling pathway by Wnt receptor internalization; positive regulation of Wnt receptor signalling pathway by Wnt receptor endocytosis; positive regulation of Wnt-activated signaling pathway by Wnt receptor internalization
Comment: This term was obsoleted because there is no evidence that this process exists. Endocytosis of the ligand is part of the signaling pathway.
reelin receptor activity (GO:0038025)
Namespace: molecular_function
Definition: Combining with the secreted glycoprotein reelin, and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity.
Synonyms: reeler receptor activity
obsolete non-canonical Wnt signaling pathway via MAPK cascade (GO:0038030)
Namespace: biological_process
Definition: OBSOLETE. The series of molecular signals initiated by a Wnt protein binding to a frizzled family receptor on the surface of a target cell, where the signal is passed on via the MAPKKK cascade.
Synonyms: non-canonical Wnt receptor signaling pathway via MAPK cascade; non-canonical Wnt receptor signaling pathway via MAPK signaling; non-canonical Wnt receptor signaling pathway via MAPKKK cascade; non-canonical Wnt receptor signalling pathway via MAPKKK cascade; non-canonical Wnt-activated signaling pathway via MAPK cascade
Comment: This term was obsoleted because it represents a GO-CAM model.
G protein-coupled receptor heterodimeric complex (GO:0038039)
Namespace: cellular_component
Definition: A protein complex that contains two G protein-coupled receptors (GPCRs) of different subtypes. Formation of a GPCR heterodimer may alter the functional property of the GPCR.
Synonyms: G-protein coupled receptor heterodimer; G-protein coupled receptor heterodimeric complex; GPCR heterodimer
non-canonical NF-kappaB signal transduction (GO:0038061)
Namespace: biological_process
Definition: An intracellular signaling cassette characterized by the NIK-dependent processing and activation of NF-kappaB. Begins with activation of the NF-kappaB-inducing kinase (NIK), which in turn phosphorylates and activates IkappaB kinase alpha (IKKalpha). IKKalpha phosphorylates the NF-kappa B2 protein (p100) leading to p100 processing and release of an active NF-kappaB (p52). The non-canonical NF-kappaB signaling pathway is generally activated by ligands of the TNF receptor superfamily, including lymphotoxin beta (LTB), CD40, OX40, RANK, TWEAK and B cell-activating factor (BAFF).
Synonyms: NF-kappaB cascade; NIK-IKK kinase cascade; NIK-IKK signaling pathway; NIK-IKK-alpha cascade; NIK/NF-kappaB cascade; NIK/NF-kappaB signal transduction; NIK/NF-kappaB signaling; non-canonical NF-KB signaling; noncanonical NF-kappaB signaling; noncanonical nuclear factor kappaB (NF-kappaB) pathway; p52-dependent NF-kappaB signaling
collagen-activated signaling pathway (GO:0038065)
Namespace: biological_process
Definition: The series of molecular signals initiated by collagen binding to a cell surface receptor, and ending with the regulation of a downstream cellular process, e.g. transcription.
Synonyms: collagen-activated signalling pathway
obsolete MAP kinase phosphatase activity involved in regulation of innate immune response (GO:0038078)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: a phosphorylated MAP kinase + H2O = a MAP kinase + phosphate, where the MAP kinase (MAPK) is part of a MAPK signaling cascade that contributes to an innate immune response.
Synonyms: MAPK phosphatase activity involved in regulation of innate immune response
Comment: This term was obsoleted because it represents a biological process within the molecular function branch.
vascular endothelial growth factor binding (GO:0038085)
Namespace: molecular_function
Definition: Binding to a vascular endothelial growth factor.
Synonyms: VEGF binding
VEGF-activated platelet-derived growth factor receptor-beta signaling pathway (GO:0038088)
Namespace: biological_process
Definition: The series of molecular signals initiated by vascular endothelial growth factor (VEGF) binding to a beta-type platelet-derived growth factor receptor (PDGFR) on the surface of a cell, and ending with the regulation of a downstream cellular process, e.g. transcription.
Synonyms: vascular endothelial growth factor-activated platelet-derived growth factor receptor-beta signaling pathway; VEGF-A/PDGFRbeta signaling; VEGF-activated PDGFRbeta signalling pathway; VEGF-activated platelet-derived growth factor receptor-beta signalling pathway; VEGF/PDGFRbeta signaling pathway
nodal signaling pathway (GO:0038092)
Namespace: biological_process
Definition: The series of molecular signals initiated by nodal protein binding to an activin receptor on the surface of a target cell, and ending with the regulation of a downstream cellular process, e.g. transcription.
Synonyms: nodal signaling; nodal signalling pathway
Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)
Namespace: biological_process
Definition: An Fc-gamma receptor signaling pathway that contributes to the endocytic engulfment of external particulate material by phagocytes.
Synonyms: Fc gamma receptor-dependent phagocytosis; Fc-gamma receptor signalling pathway involved in phagocytosis; Fcgamma receptor-mediated phagocytosis; IgG-mediated phagocytosis
nodal binding (GO:0038100)
Namespace: molecular_function
Definition: Binding to a nodal protein, a member of the transforming growth factor-beta superfamily.
nodal receptor complex (GO:0038104)
Namespace: cellular_component
Definition: A protein complex containing at least a type II activin receptor, a type I activin receptor, and a coreceptor (EGF-CFC protein) such as Cripto or Cryptic. Nodal receptor complexes are capable of binding a nodal protein and transducing the signal into the cell.
Synonyms: ActRIIB.ALK4.EGF-CFC complex
Comment: Nodal signals through activin receptors but (unlike activin) also requires EGF-CFC coreceptors (such as Cripto or Cryptic in mammals) to signal. This term is intended for receptor/co-receptor components and not a nodal-receptor complex.
obsolete sequestering of TGFbeta from receptor via TGFbeta binding (GO:0038105)
Namespace: biological_process
Definition: OBSOLETE. Binding to a transforming growth factor-beta (TGFbeta) protein in the extracellular region, and inhibiting TGFbeta signaling by preventing TGFbeta from binding to its cell surface receptor.
Synonyms: extracellular sequestering of TGFbeta; extracellular sequestering of transforming growth factor-beta
Comment: The reason for obsoletion is that this term represents a molecular function and not a real GO process.
Kit signaling pathway (GO:0038109)
Namespace: biological_process
Definition: The series of molecular signals initiated by the binding of stem cell factor to the tyrosine kinase receptor KIT on the surface of a target cell, and ending with regulation of a downstream cellular process, e.g. transcription. Stem cell factor (KIT ligand) binding to the receptor Kit mediates receptor dimerization, activation of its intrinsic tyrosine kinase activity and autophosphorylation. The activated receptor then phosphorylates various substrates, thereby activating distinct signaling cascades within the cell that trigger a change in state or activity of the cell.
Synonyms: Kit signalling pathway; SCF signaling pathway; stem cell factor receptor signaling pathway; stem cell factor signaling pathway
ERBB4 signaling pathway (GO:0038130)
Namespace: biological_process
Definition: The series of molecular signals initiated by binding of a ligand to the tyrosine kinase receptor ERBB4 on the surface of a cell, and ending with the regulation of a downstream cellular process, e.g. transcription.
Synonyms: ERBB4 signalling pathway; HER4 signaling pathway; receptor tyrosine-protein kinase erbB-4 signaling pathway
prolactin signaling pathway (GO:0038161)
Namespace: biological_process
Definition: The series of molecular signals initiated by the binding of the peptide hormone prolactin to its receptor on the surface of a target cell, and ending with the regulation of a downstream cellular process, e.g. transcription.
Synonyms: PRL signaling pathway; prolactin-mediated signaling pathway
erythropoietin-mediated signaling pathway (GO:0038162)
Namespace: biological_process
Definition: The series of molecular signals initiated by erythropoietin (EPO) binding to the erythropoietin receptor (EPO-R) on the surface of a target cell, and ending with the regulation of a downstream cellular process, e.g. transcription.
Synonyms: EPO-R signaling pathway; erythropoietin receptor signaling pathway
cholecystokinin signaling pathway (GO:0038188)
Namespace: biological_process
Definition: A G protein-coupled receptor signaling pathway initiated by cholecystokinin binding to its receptor on the surface of a target cell, and ending with the regulation of a downstream cellular process, e.g. transcription.
Synonyms: CCK signaling; cholecystokinin receptor signaling pathway
TOR complex (GO:0038201)
Namespace: cellular_component
Definition: A protein complex that contains at least TOR (target of rapamycin) in complex with other signaling components. Mediates the phosphorylation and activation of downstream signaling components including PKB (AKT) or S6K.
Synonyms: mTOR complex; target of rapamycin complex; TOR signaling complex
TORC1 signaling (GO:0038202)
Namespace: biological_process
Definition: A series of intracellular molecular signals mediated by TORC1; TOR (target of rapamycin) in complex with at least Raptor (regulatory-associated protein of TOR), or orthologs of, and other signaling components.
Synonyms: TORC1 signal transduction
nephrostome development (GO:0039018)
Namespace: biological_process
Definition: The process whose specific outcome is the progression of the nephrostome over time, from its formation to the mature structure. The nephrostome is the opening of the pronephros into the body cavity.
obsolete suppression by virus of host pattern recognition receptor activity (GO:0039509)
Namespace: biological_process
Definition: OBSOLETE. Any process in which a virus stops, prevents, or reduces the frequency, rate or extent of the functional activity of a host pattern recognition receptor. A pattern recognition receptor combines with a molecular pattern based on a repeating or polymeric structure, such as a polysaccharide or peptidoglycan, to initiate a change in cell activity.
Synonyms: down regulation by virus of host pattern recognition receptor activity; down-regulation by virus of host pattern recognition receptor activity; inhibition by virus of host pattern recognition receptor activity; negative regulation by virus of host pattern recognition receptor activity; suppression by virus of host pattern recognition receptor function; viral inhibition of host pattern recognition receptor activity
Comment: This term was obsoleted because it represents a molecular function.
symbiont-mediated activation of host autophagy (GO:0039520)
Namespace: biological_process
Definition: A process in which a symbiont initiates, promotes, or enhances the normal execution of autophagy in the host cell. The host is defined as the larger of the organisms involved in a symbiotic interaction. For example, some viruses are able to activate host autophagy as a cellular survival mechanism, hence delaying or inhibiting apoptosis.
Synonyms: activation of host autophagy by virus; autophagy of host cells involved in interaction with symbiont; induction by virus of host autophagy; positive regulation by virus of host autophagy
symbiont-mediated suppression of host mRNA processing (GO:0039524)
Namespace: biological_process
Definition: A process in which a symbiont inhibits or disrupts mRNA processing in its host. mRNA processing is the conversion of a primary mRNA transcript into one or more mature mRNA(s) prior to translation into polypeptide. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: inhibition by virus of host mRNA processing; inhibition of host mRNA processing; inhibition of host pre-mRNA processing by virus; negative regulation of host mRNA processing; suppression by virus of host mRNA processing
regulation of MDA-5 signaling pathway (GO:0039533)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of the series of molecular signals generated as a consequence of the cytoplasmic pattern recognition receptor (PRR) MDA-5 (also known as IFIH1) binding to viral RNA.
Synonyms: regulation of IFIH1 signaling pathway; regulation of MDA-5 signalling pathway; regulation of MDA5 signaling pathway; regulation of melanoma differentiation-associated gene 5 signaling pathway
negative regulation of RIG-I signaling pathway (GO:0039536)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of the RIG-I signaling pathway.
Synonyms: negative regulation of DDX58 signaling pathway; negative regulation of retinoic acid inducible gene I signaling pathway; negative regulation of RIG-I signalling pathway
obsolete suppression by virus of host RIG-I activity by viral RNA 5' processing (GO:0039543)
Namespace: biological_process
Definition: OBSOLETE. The post-transcriptional removal by a virus of the 5' triphosphate group of their viral RNA, thereby preventing host RIG-I from recognizing viral RNA in the host cell. The intracellular pattern recognition receptor RIG-I (also known as DDX58) recognizes viral RNAs containing 5' triphosphates; removal by the virus of the 5'-terminal triphosphate group from their genome protects the viral RNA from RIG-recognition.
Synonyms: suppression by virus of host RIG-I activity by inhibition of RNA binding
Comment: The reason for obsoleting this term is that it is too specific. The exact molecular roles of the individual proteins should be captured separately.
obsolete suppression by virus of host MAVS activity by MAVS proteolysis (GO:0039546)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways performed by a virus resulting in the hydrolysis of the host MAVS (mitochondrial inhibitor of viral signaling) protein by cleavage of peptide bonds, thereby inhibiting the host innate immune response. For example, MAVS harbors a C-terminal transmembrane domain that targets it to the mitochondrial outer membrane; cleavage within this domain removes MAVS from the membrane, thus preventing it from signaling.
Synonyms: viral protease cleavage of MAVS
Comment: The reason for obsoleting this term is that it is too specific. The exact molecular roles of the individual proteins should be captured separately.
obsolete suppression by virus of host STAT1 activity by positive regulation of STAT1 catabolic process (GO:0039565)
Namespace: biological_process
Definition: OBSOLETE. Any process in which a virus stops, prevents, or reduces the activity of host STAT1 (signal transducer and activator of transcription-1) by promoting the ubiquitin-dependent degradation of STAT1, mediated by the proteasome.
Synonyms: promotion by virus of proteosome-dependent STAT1 degradation; suppression by virus of host STAT1 activity by positive promotion of STAT1 proteasome-mediated degradation; targeting STAT1 for proteasome-mediated degradation
Comment: The reason for obsoleting this term is that it is too specific. The exact molecular roles of the individual proteins should be captured separately.
obsolete suppression by virus of host STAT1 activity by tyrosine dephosphorylation of STAT1 (GO:0039566)
Namespace: biological_process
Definition: OBSOLETE. Any process in which a virus stops, prevents, or reduces the frequency, rate or extent of host STAT1 (signal transducer and activator of transcription-1) activity by the removal of phosphoric residues from STAT1-O-phospho-tyrosine to form STAT1-tyrosine. For example, the viral phosphatase VH1 dephosphorylates STAT1 to reverse STAT1 activation.
Synonyms: suppression by virus of host STAT1 activity by peptidyl-tyrosine dephosphorylation of STAT1; viral tyrosine phosphatase activity involved in suppression of host STAT1
Comment: The reason for obsoleting this term is that it is too specific. The exact molecular roles of the individual proteins should be captured separately.
obsolete suppression by virus of host STAT1 activity by inhibition of DNA binding (GO:0039568)
Namespace: biological_process
Definition: OBSOLETE. Any process in which a virus stops, prevents, or reduces STAT1-dependent gene transcription, by preventing STAT1 from binding to promoter sites in the nucleus.
Synonyms: inhibition of DNA binding of STAT1; suppression by virus of host STAT1 activity by negative regulation of DNA binding
Comment: The reason for obsoleting this term is that it is too specific. The exact molecular roles of the individual proteins should be captured separately.
symbiont-mediated suppression of host translation (GO:0039604)
Namespace: biological_process
Definition: A process in which a symbiont inhibits or disrupts the translation of host mRNA into protein, for example by cleavage of the host mRNAs. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: host mRNA cleavage by viral endoribonuclease; host translation shutoff; host translation shutoff by virus; suppression by virus of host translation; viral host shutoff protein; viral inhibition of cellular protein synthesis; viral shutoff of host protein synthesis
obsolete proteolysis by virus of host translation initiation factor (GO:0039607)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways performed by a virus resulting in the hydrolysis of a host translation initiation factor by cleavage of its peptide bonds.
Synonyms: cleavage of host translation initiation factor by viral protease; cleavage of host translation initiation factor by virus; proteolytic cleavage by virus of host translation initiation factor; suppression by virus of host translation initiation factor activity by proteolysis
Comment: The reason for obsoleting this term is that it is too specific. The exact molecular roles of the individual proteins should be captured separately.
obsolete modulation by virus of host protein phosphorylation (GO:0039612)
Namespace: biological_process
Definition: OBSOLETE. Any viral process that modulates the frequency, rate or extent of phosphorylation of viral or host proteins in a host.
Comment: This term was obsoleted because it is a molecular function represented as a biological process.
T=1 icosahedral viral capsid (GO:0039615)
Namespace: cellular_component
Definition: The protein coat that surrounds the infective nucleic acid in some virus particles where the subunits (capsomeres) are arranged to form an icosahedron with T=1 symmetry. The T=1 capsid is composed of 12 pentameric capsomeres.
T=13 icosahedral viral capsid (GO:0039621)
Namespace: cellular_component
Definition: The protein coat that surrounds the infective nucleic acid in some virus particles where the subunits (capsomeres) are arranged to form an icosahedron with T=13 symmetry. The T=13 capsid is composed of 12 pentameric and 120 hexameric capsomeres.
obsolete DNA translocase activity involved in viral DNA genome packaging (GO:0039631)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: ATP + H2O = ADP + phosphate, to drive movement along a single- or double-stranded DNA molecule, that contributes to the packing of viral DNA into a capsid.
Synonyms: viral DNA packaging activity; viral DNA packaging motor activity
Comment: The reason for obsoletion is that this term is pre-composed and should be represented as a GO-CAM model.
killing by virus of host cell during superinfection exclusion (GO:0039634)
Namespace: biological_process
Definition: The viral-killing of a host cell by a pre-existing virus in response to a subsequent infection of the host cell by second virus.
Synonyms: killing by virus of host cells during superinfection exclusion; killing by virus of host cells involved in superinfection exclusion; Rex exclusion
host cell viral nucleoid (GO:0039643)
Namespace: cellular_component
Definition: The region of a host cell that contains the viral genome.
Comment: To annotate the region of the complete virus particle in which the viral genome is contained, instead use 'virion nucleoid ; GO:0039642'.
symbiont-mediated perturbation of host cell cycle G0/G1 transition checkpoint (GO:0039646)
Namespace: biological_process
Definition: A process in which a symbiont interferes with the normal execution of the host cell G0/G1 transition checkpoint. The host is defined as the larger of the organisms involved in a symbiotic interaction. Some viruses benefit from keeping cells in resting state (G0), while others favor entry through G1 and subsequent cell division to replicate more efficiently.
Synonyms: G0/G1 host cell cycle checkpoint dysregulation by virus; modulation by virus of host G0/G1 transition checkpoint; perturbation by virus of host G0/G1 transition checkpoint
symbiont-mediated suppression of host gene expression (GO:0039657)
Namespace: biological_process
Definition: A process in which a symbiont inhibits or disrupts expression of genes in its host. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA (for protein-coding genes) and the translation of that mRNA into protein. Some protein processing events may be included when they are required to form an active form of a product from an inactive precursor form. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: host gene expression shutoff; host gene expression shutoff by virus; suppression by virus of host gene expression
symbiont-mediated suppression of host natural killer cell activation (GO:0039672)
Namespace: biological_process
Definition: A process in which a symbiont interferes with, inhibits or disrupts natural killer cell activation in the host. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: suppression by virus of host natural killer cell activation; suppression by virus of host NK-cell activation
viral occlusion body (GO:0039679)
Namespace: cellular_component
Definition: A crystalline protein matrix surrounding the nucleocapsids of some insect viruses after their release in the environment. Produced in the host cell, the occlusion body protects the infectious virion after death of the host.
rolling circle viral DNA replication (GO:0039682)
Namespace: biological_process
Definition: A process of unidirectional viral DNA replication that takes place on a circular DNA to rapidly produce numerous copies of the viral genome. Involves creating a nick in one strand of the circular DNA molecule at the origin of replication. DNA is then synthesized by DNA polymerase. Using the non-nicked strand as a template, replication proceeds around the circular DNA molecule, displacing the nicked strand as single-stranded DNA.
DNA-templated viral transcription (GO:0039695)
Namespace: biological_process
Definition: A transcription process that uses a viral DNA as a template.
RNA-templated viral transcription (GO:0039696)
Namespace: biological_process
Definition: A transcription process that uses viral RNA as a template.