LiteFold/GO huggingface dataset:
ER overload response (GO:0006983)
Namespace: biological_process
Definition: The series of molecular signals initiated by the accumulation of normal or misfolded proteins in the endoplasmic reticulum and leading to activation of transcription by NF-kappaB.
Synonyms: endoplasmic reticulum overload response; EOR; EOR-mediated activation of NF-kappaB; EOR-mediated NF-kappaB activation; ER-overload response; positive regulation of NF-kappaB transcription factor activity by EOR; positive regulation of NF-kappaB transcription factor activity by ER overload response
ER-nucleus signaling pathway (GO:0006984)
Namespace: biological_process
Definition: The series of molecular signals that conveys information from the endoplasmic reticulum to the nucleus, usually resulting in a change in transcriptional regulation.
Synonyms: endoplasmic reticulum to nucleus signaling pathway; endoplasmic reticulum-nuclear signaling pathway; ER to nucleus signaling pathway; ER to nucleus signalling pathway; ER-nuclear signaling pathway; ER-nuclear signalling pathway
response to unfolded protein (GO:0006986)
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 unfolded protein stimulus.
Synonyms: heat shock protein activity
Comment: Note that this term should not be confused with 'unfolded protein response ; GO:0030968', which refers to one specific response to the presence of unfolded proteins in the ER.
obsolete activation of signaling protein activity involved in unfolded protein response (GO:0006987)
Namespace: biological_process
Definition: OBSOLETE. The conversion of a specific protein, possessing protein kinase and endoribonuclease activities, to an active form as a result of signaling via the unfolded protein response.
Synonyms: unfolded protein response, activation of signaling protein activity; unfolded protein response, activation of signaling protein kinase/endonuclease; unfolded protein response, activation of signalling protein kinase/endonuclease
Comment: The reason for obsoletion is that this process represents a single step (molecular function) of the IRE1-mediated unfolded protein response (GO:0036498).
obsolete unfolded protein response, cleavage of primary transcript encoding UFP-specific transcription factor (GO:0006988)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: unfolded protein response, cleavage of primary transcript encoding UFP-specific transcription factor
Comment: This term was made obsolete because it represents a function rather than a process.
obsolete unfolded protein response, ligation of mRNA encoding UFP-specific transcription factor by RNA ligase (GO:0006989)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: unfolded protein response, ligation of mRNA encoding UFP-specific transcription factor by RNA ligase
Comment: This term was made obsolete because it represents a function rather than a process.
obsolete positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response (GO:0006990)
Namespace: biological_process
Definition: OBSOLETE. The activation of genes whose promoters contain a specific sequence elements such as the unfolded protein response element (UPRE; consensus CAGCGTG) or the ER stress-response element (ERSE; CCAAN(N)9CCACG), as a result of signaling via the unfolded protein response.
Synonyms: positive regulation of transcription of target genes involved in unfolded protein response; unfolded protein response, activation of target gene transcription; unfolded protein response, positive regulation of target gene transcription; unfolded protein response, stimulation of target gene transcription; unfolded protein response, target gene transcriptional activation; unfolded protein response, up regulation of target gene transcription; unfolded protein response, up-regulation of target gene transcription; unfolded protein response, upregulation of target gene transcription
Comment: This term was obsoleted because is represents a GO-CAM model.
response to sterol depletion (GO:0006991)
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 stimulus indicating deprivation of sterols. Sterols are a group of steroids characterized by the presence of one or more hydroxyl groups and a hydrocarbon side-chain in the molecule.
Synonyms: sterol depletion response
cellular response to nitrogen starvation (GO:0006995)
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 deprivation of nitrogen.
organelle organization (GO:0006996)
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 an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane.
Synonyms: organelle organisation; organelle organization and biogenesis; single organism organelle organization; single-organism organelle organization
Comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC.
nucleus organization (GO:0006997)
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 the nucleus.
Synonyms: nuclear morphology; nuclear organisation; nuclear organization; nuclear organization and biogenesis; nucleus organization and biogenesis
nuclear envelope organization (GO:0006998)
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 the nuclear envelope.
Synonyms: nuclear envelope organisation; nuclear envelope organization and biogenesis
nuclear pore organization (GO:0006999)
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 the nuclear pore.
Synonyms: nuclear pore complex organization and biogenesis; nuclear pore organisation; nuclear pore organization and biogenesis
nucleolus organization (GO:0007000)
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 the nucleolus.
Synonyms: nucleolus organisation; nucleolus organization and biogenesis
obsolete centromere binding (GO:0007002)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: centromere binding
Comment: This term was made obsolete because it represents a molecular function and not a biological process.
telomere maintenance via telomerase (GO:0007004)
Namespace: biological_process
Definition: The maintenance of proper telomeric length by the addition of telomeric repeats by telomerase.
Synonyms: telomerase-dependent telomere maintenance
mitochondrion organization (GO:0007005)
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 mitochondrion; includes mitochondrial morphogenesis and distribution, and replication of the mitochondrial genome as well as synthesis of new mitochondrial components.
Synonyms: mitochondria organization; mitochondrial biogenesis; mitochondrial organization; mitochondrion biogenesis; mitochondrion morphogenesis; mitochondrion organisation; mitochondrion organization and biogenesis
mitochondrial membrane organization (GO:0007006)
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 mitochondrial membrane, either of the lipid bilayer surrounding a mitochondrion.
Synonyms: mitochondrial membrane organisation; mitochondrial membrane organization and biogenesis
inner mitochondrial membrane organization (GO:0007007)
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 the mitochondrial inner membrane.
Synonyms: inner mitochondrial membrane organisation; inner mitochondrial membrane organization and biogenesis; mitochondrial inner membrane organization
Comment: See also the cellular component term 'mitochondrial inner membrane ; GO:0005743'.
outer mitochondrial membrane organization (GO:0007008)
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 the mitochondrial outer membrane.
Synonyms: outer mitochondrial membrane organisation; outer mitochondrial membrane organization and biogenesis
Comment: See also the cellular component term 'mitochondrial outer membrane ; GO:0005741'.
plasma membrane organization (GO:0007009)
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 the plasma membrane.
Synonyms: plasma membrane organisation; plasma membrane organization and biogenesis
cytoskeleton organization (GO:0007010)
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 cytoskeletal structures.
Synonyms: cytoskeletal organization and biogenesis; cytoskeletal regulator activity; cytoskeleton organisation; cytoskeleton organization and biogenesis
actin ubiquitination (GO:0007014)
Namespace: biological_process
Definition: The modification of actin by addition of ubiquitin groups.
Synonyms: indirect flight muscle actin ubiquitination
actin filament organization (GO:0007015)
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 cytoskeletal structures comprising actin filaments. Includes processes that control the spatial distribution of actin filaments, such as organizing filaments into meshworks, bundles, or other structures, as by cross-linking.
Synonyms: actin filament organisation; regulation of actin filament localization
obsolete cytoskeletal anchoring at plasma membrane (GO:0007016)
Namespace: biological_process
Definition: OBSOLETE. A cytoskeleton organization process that directly or indirectly links cytoskeletal filaments to the plasma membrane.
Synonyms: cytoskeletal anchoring activity
Comment: This term was obsoleted because it represents a molecular function.
microtubule-based process (GO:0007017)
Namespace: biological_process
Definition: Any cellular process that depends upon or alters the microtubule cytoskeleton, that part of the cytoskeleton comprising microtubules and their associated proteins.
microtubule-based movement (GO:0007018)
Namespace: biological_process
Definition: A microtubule-based process that results in the movement of organelles, other microtubules, or other cellular components. Examples include motor-driven movement along microtubules and movement driven by polymerization or depolymerization of microtubules.
microtubule depolymerization (GO:0007019)
Namespace: biological_process
Definition: The removal of tubulin heterodimers from one or both ends of a microtubule.
Synonyms: microtubule catastrophe; microtubule depolymerization during nuclear congression; microtubule disassembly; microtubule shortening
microtubule nucleation (GO:0007020)
Namespace: biological_process
Definition: The process in which tubulin alpha-beta heterodimers begin aggregation to form an oligomeric tubulin structure (a microtubule seed). Microtubule nucleation is the initiating step in the formation of a microtubule in the absence of any existing microtubules ('de novo' microtubule formation).
post-chaperonin tubulin folding pathway (GO:0007023)
Namespace: biological_process
Definition: Completion of folding of alpha- and beta-tubulin; takes place subsequent to chaperonin-mediated partial folding; mediated by a complex of folding cofactors.
negative regulation of microtubule depolymerization (GO:0007026)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of microtubule depolymerization; prevention of depolymerization of a microtubule can result from binding by 'capping' at the plus end (e.g. by interaction with another cellular protein of structure) or by exposing microtubules to a stabilizing drug such as taxol.
Synonyms: down regulation of microtubule depolymerization; down-regulation of microtubule depolymerization; downregulation of microtubule depolymerization; inhibition of microtubule depolymerization; microtubule rescue; microtubule stabilization; negative regulation of microtubule catastrophe; negative regulation of microtubule disassembly
negative regulation of axonemal microtubule depolymerization (GO:0007027)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of the depolymerization of the specialized microtubules of the axoneme.
Synonyms: axonemal microtubule stabilization; negative regulation of microtubule depolymerization in axoneme
cytoplasm organization (GO:0007028)
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 the cytoplasm. The cytoplasm is all of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
Synonyms: cytoplasm organisation; cytoplasm organization and biogenesis
endoplasmic reticulum organization (GO:0007029)
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 the endoplasmic reticulum.
Synonyms: endoplasmic reticulum morphology; endoplasmic reticulum organisation; endoplasmic reticulum organization and biogenesis; ER organisation; ER organization and biogenesis
peroxisome organization (GO:0007031)
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 peroxisome. A peroxisome is a small, membrane-bounded organelle that uses dioxygen (O2) to oxidize organic molecules.
Synonyms: peroxisome organisation; peroxisome organization and biogenesis
endosome organization (GO:0007032)
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 endosomes.
Synonyms: endosome organisation; endosome organization and biogenesis
vacuole organization (GO:0007033)
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 vacuole.
Synonyms: vacuolar assembly; vacuole biogenesis; vacuole organisation; vacuole organization and biogenesis
vacuolar acidification (GO:0007035)
Namespace: biological_process
Definition: Any process that reduces the pH of the vacuole, corresponding to an increase in hydrogen ion concentration.
vacuolar calcium ion homeostasis (GO:0007036)
Namespace: biological_process
Definition: Any process involved in the maintenance of an internal steady state of calcium ions in the vacuole or between a vacuole and its surroundings.
endocytosed protein transport to vacuole (GO:0007038)
Namespace: biological_process
Definition: The directed movement of proteins imported into a cell by endocytosis to the vacuole.
Synonyms: delivery of endocytosed proteins to the vacuole
Comment: See also the biological process term 'endocytosis ; GO:0006897'.
protein catabolic process in the vacuole (GO:0007039)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of a protein in the vacuole, usually by the action of vacuolar proteases.
Synonyms: vacuolar protein breakdown; vacuolar protein catabolic process; vacuolar protein catabolism; vacuolar protein degradation
lysosome organization (GO:0007040)
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 lysosome. A lysosome is a cytoplasmic, membrane-bounded organelle that is found in most animal cells and that contains a variety of hydrolases.
Synonyms: lysosome organisation; lysosome organization and biogenesis
lysosomal transport (GO:0007041)
Namespace: biological_process
Definition: The directed movement of substances into, out of or within a lysosome.
lysosomal lumen acidification (GO:0007042)
Namespace: biological_process
Definition: Any process that reduces the pH of the lysosomal lumen, corresponding to an increase in hydrogen ion concentration.
Synonyms: lysosome pH reduction
cell-cell junction assembly (GO:0007043)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form a junction between cells.
Synonyms: intercellular junction assembly
cell-substrate junction assembly (GO:0007044)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form a junction between a cell and its substrate.
Synonyms: cell-substrate adherens junction assembly
Comment: The primary label for merged term was 'cell-substrate adherens junction assembly' GO:0007045. The term was merged into the parent 'cell-substrate junction assembly', because, based on the most recent litarature, 'adherens junction' is always a 'cell-cell junction' (PMID:20571587, PMID:17854762, PMID:21422226, PMID:28096264, PMID:28401269, PMID:26923917).
obsolete oncogenesis (GO:0007048)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: oncogenesis
Comment: This term was made obsolete because it represents a pathological process.
cell cycle (GO:0007049)
Namespace: biological_process
Definition: The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.
Synonyms: cell-division cycle
spindle organization (GO:0007051)
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 the spindle, the array of microtubules and associated molecules that forms between opposite poles of a eukaryotic cell during DNA segregation and serves to move the duplicated chromosomes apart.
Synonyms: spindle organisation; spindle organization and biogenesis; spindle stabilization
mitotic spindle organization (GO:0007052)
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 the microtubule spindle during a mitotic cell cycle.
Synonyms: mitotic spindle organisation; mitotic spindle organisation in nucleus; mitotic spindle organization and biogenesis; mitotic spindle organization and biogenesis in cell nucleus; mitotic spindle organization and biogenesis in nucleus; mitotic spindle organization in nucleus; mitotic spindle stabilization; spindle organization and biogenesis during mitosis; spindle organization and biogenesis in nucleus during mitosis
Comment: In fission yeast most mitotic spindle organization occurs in the nucleus.
spindle assembly involved in male meiosis (GO:0007053)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form the spindle during a meiotic cell cycle in males. An example of this is found in Drosophila melanogaster.
spindle assembly involved in male meiosis II (GO:0007055)
Namespace: biological_process
Definition: The formation of the spindle during meiosis II of a meiotic cell cycle in males. An example of this is found in Drosophila melanogaster.
Synonyms: male meiosis II spindle assembly
spindle assembly involved in female meiosis (GO:0007056)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form the spindle during a meiotic cell cycle in females. An example of this is found in Drosophila melanogaster.
Synonyms: female meiotic spindle assembly
spindle assembly involved in female meiosis I (GO:0007057)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form the spindle during meiosis I of a meiotic cell cycle in females. An example of this is found in Drosophila melanogaster.
Synonyms: female meiosis I spindle assembly
spindle assembly involved in female meiosis II (GO:0007058)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form the spindle during meiosis II of a meiotic cell cycle in females. An example of this is found in Drosophila melanogaster.
Synonyms: female meiosis II spindle assembly
chromosome segregation (GO:0007059)
Namespace: biological_process
Definition: The process in which genetic material, in the form of chromosomes, is organized into specific structures and then physically separated and apportioned to two or more sets. In eukaryotes, chromosome segregation begins with the condensation of chromosomes, includes chromosome separation, and ends when chromosomes have completed movement to the spindle poles.
Synonyms: chromosome division; chromosome transmission
male meiosis chromosome segregation (GO:0007060)
Namespace: biological_process
Definition: The cell cycle process in which genetic material, in the form of chromosomes, is organized and then physically separated and apportioned to two or more sets during the meiotic cell cycle in a male.
regulation of sister chromatid cohesion (GO:0007063)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of sister chromatid cohesion.
mitotic sister chromatid cohesion (GO:0007064)
Namespace: biological_process
Definition: The cell cycle process in which the sister chromatids of a replicated chromosome are joined along the entire length of the chromosome, from their formation in S phase through metaphase during a mitotic cell cycle. This cohesion cycle is critical for high fidelity chromosome transmission.
male meiosis sister chromatid cohesion (GO:0007065)
Namespace: biological_process
Definition: The joining of the sister chromatids of a replicated chromosome along the entire length of the chromosome that occurs during meiosis in a male.
female meiosis sister chromatid cohesion (GO:0007066)
Namespace: biological_process
Definition: The joining of the sister chromatids of a replicated chromosome along the entire length of the chromosome that occurs during meiosis in a female.