LiteFold/GO huggingface dataset:
peptide biosynthetic process (GO:0043043)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of peptides, compounds of 2 or more (but usually less than 100) amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another. This may include the translation of a precursor protein and its subsequent processing into a functional peptide.
Synonyms: peptide anabolism; peptide biosynthesis; peptide formation; peptide synthesis
epigenetic programming of gene expression (GO:0043045)
Namespace: biological_process
Definition: A epigenetic process that happens during embryonic development that modulates gene expression potential at later stages of development of the organism, including the adult. Epigenetic regulation takes place via chromatin remodeling either by modifying higher order chromatin fiber structure, nucleosomal histones, or cytosine DNA methylation.
Synonyms: de novo DNA methylation; DNA methylation involved in embryo development; epigenetic regulation of embryonic gene expression; post-fertilization epigenetic regulation of gene expression
obsolete DNA methylation involved in gamete generation (GO:0043046)
Namespace: biological_process
Definition: OBSOLETE. The covalent transfer of a methyl group to C-5 of cytosine that contributes to the establishment of DNA methylation patterns in the gamete.
Synonyms: de novo DNA methylation
Comment: This term was obsoleted because it represent the same process as genomic imprinting ; GO:0071514 .
single-stranded telomeric DNA binding (GO:0043047)
Namespace: molecular_function
Definition: Binding to single-stranded telomere-associated DNA.
Synonyms: telomeric ssDNA binding
dolichyl monophosphate biosynthetic process (GO:0043048)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of dolichyl monophosphate, a phosphorylated dolichol derivative.
Synonyms: dolichyl monophosphate anabolism; dolichyl monophosphate biosynthesis; dolichyl monophosphate formation; dolichyl monophosphate synthesis
otic placode formation (GO:0043049)
Namespace: biological_process
Definition: The initial developmental process that will lead to the formation of the vertebrate inner ear. The otic placode forms as a thickening of the head ectoderm adjacent to the developing hindbrain.
nematode pharyngeal pumping (GO:0043050)
Namespace: biological_process
Definition: The contraction and relaxation movements of the pharyngeal muscle that mediate feeding in nematodes.
Synonyms: pumping behavior
regulation of nematode pharyngeal pumping (GO:0043051)
Namespace: biological_process
Definition: Any process that modulates the contraction and relaxation movements of the pharyngeal muscle that mediates feeding in nematodes.
thermotaxis (GO:0043052)
Namespace: biological_process
Definition: The directed movement of a motile cell or organism in response to a temperature gradient. Movement may be towards either a higher or lower temperature.
Synonyms: taxis in response to temperature stimulus
dauer entry (GO:0043053)
Namespace: biological_process
Definition: Entry into the facultative diapause of the dauer (enduring) larval stage of nematode development.
Synonyms: nematode entry into dormancy
dauer exit (GO:0043054)
Namespace: biological_process
Definition: Exit from the facultative diapause of the dauer (enduring) larval stage of nematode development.
Synonyms: exit from nematode dormancy
maintenance of dauer (GO:0043055)
Namespace: biological_process
Definition: Maintenance of a nematode during the facultative diapause of the dauer (enduring) larval stage of nematode development.
Synonyms: maintenance of dormancy in the nematode
backward locomotion (GO:0043057)
Namespace: biological_process
Definition: Posterior movement of an organism, e.g. following the direction of the tail of an animal.
regulation of backward locomotion (GO:0043058)
Namespace: biological_process
Definition: Any process that modulates the speed, mechanical force, or rhythm of the posterior movement of an organism.
regulation of forward locomotion (GO:0043059)
Namespace: biological_process
Definition: Any process that modulates the speed, mechanical force, or rhythm of the anterior movement of an organism.
meiotic metaphase I homologous chromosome alignment (GO:0043060)
Namespace: biological_process
Definition: A cell cycle process whereby homlogous chromosomes are positioned in a specific order and orientation at the metaphase plate (spindle equator) by the spindle machinery and centromere/kinetochore arrangement during meiosis I chromosome segregation. This alignment ensures that each daughter cell will receive the correct number of chromosomes during cell division.
Synonyms: meiotic metaphase I chromosome alignment
meiotic metaphase II chromosome alignment (GO:0043061)
Namespace: biological_process
Definition: A chromosome localization process whereby chromosomes are positioned in a specific order and orientation at the metaphase plate (spindle equator), during meiosis II chromosome segregation. This alignment ensures that each daughter cell will receive the correct number of chromosomes during cell division.
extracellular structure organization (GO:0043062)
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 structures in the space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane, and also covers the host cell environment outside an intracellular parasite.
Synonyms: extracellular structure organisation; extracellular structure organization and biogenesis
intercellular bridge organization (GO:0043063)
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 intracellular bridge. An intracellular bridge is a direct link between the cytoplasms of sister cells that allows cells to communicate with one another.
Synonyms: intercellular bridge organisation; intercellular bridge organization and biogenesis
obsolete flagellum organization (GO:0043064)
Namespace: biological_process
Definition: OBSOLETE. A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a flagellum, a long thin projection from a cell, used in movement.
Synonyms: flagellum organisation; flagellum organization; flagellum organization and biogenesis
Comment: This term was made obsolete because microtubule-based flagellum (GO:0009434) and motile cilium (GO:0031514), as referenced by this term, were determined to be equivalent and merged. When a merge for this term was considered, it was noticed that both eukaryotic and prokaryotic proteins are annotated to it because its meaning had been ambiguous so obsoletion was considered safest.
positive regulation of apoptotic process (GO:0043065)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of cell death by apoptotic process.
Synonyms: activation of apoptosis; positive regulation of apoptosis; pro-apoptosis; stimulation of apoptosis; up regulation of apoptosis; up-regulation of apoptosis; upregulation of apoptosis
Comment: This term should only be used when it is not possible to determine which phase or subtype of the apoptotic process is positively regulated by a gene product. Whenever detailed information is available, the more granular children terms should be used.
negative regulation of apoptotic process (GO:0043066)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process.
Synonyms: anti-apoptosis; apoptosis inhibitor activity; down regulation of apoptosis; down-regulation of apoptosis; downregulation of apoptosis; inhibition of apoptosis; negative regulation of apoptosis; pro-survival
Comment: This term should only be used when it is not possible to determine which phase or subtype of the apoptotic process is negatively regulated by a gene product. Whenever detailed information is available, the more granular children terms should be used.
regulation of programmed cell death (GO:0043067)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of programmed cell death, cell death resulting from activation of endogenous cellular processes.
Synonyms: regulation of non-apoptotic programmed cell death
negative regulation of programmed cell death (GO:0043069)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of programmed cell death, cell death resulting from activation of endogenous cellular processes.
Synonyms: down regulation of programmed cell death; down-regulation of programmed cell death; downregulation of programmed cell death; inhibition of programmed cell death; negative regulation of non-apoptotic programmed cell death
germ cell nucleus (GO:0043073)
Namespace: cellular_component
Definition: The nucleus of a germ cell, a reproductive cell in multicellular organisms.
Synonyms: germ-cell nucleus
obsolete sperm cell nucleus (sensu Magnoliophyta) (GO:0043075)
Namespace: cellular_component
Definition: OBSOLETE. The nucleus of a plant pollen cell, the male gamete, and its descendents.
Synonyms: pollen germ cell nucleus; pollen germ-cell nucleus; sperm cell nucleus (sensu Magnoliophyta)
Comment: This term was made obsolete because the definition was incorrect.
obsolete initiation of acetate catabolic process (GO:0043077)
Namespace: biological_process
Definition: OBSOLETE. The activation of the chemical reactions and pathways resulting in the breakdown of acetate.
Synonyms: initiation of acetate breakdown; initiation of acetate catabolism; initiation of acetate degradation
Comment: The reason for obsoletion is that this term represents a molecular function.
polar nucleus (GO:0043078)
Namespace: cellular_component
Definition: Either of two nuclei located centrally in a flowering plant embryo sac that eventually fuse to form the endosperm nucleus.
antipodal cell nucleus (GO:0043079)
Namespace: cellular_component
Definition: The nucleus of an antipodal cell, one of three cells of the embryo sac in angiosperms, found at the chalazal end of the embryo away from the point of entry of the pollen tube, and its descendents.
megagametophyte egg cell nucleus (GO:0043082)
Namespace: cellular_component
Definition: The nucleus of a plant egg cell. This nucleus is found at the micropylar end of the embryo.
penile erection (GO:0043084)
Namespace: biological_process
Definition: The hardening, enlarging and rising of the penis which often occurs in the sexually aroused male and enables sexual intercourse. Achieved by increased inflow of blood into the vessels of erectile tissue, and decreased outflow.
positive regulation of catalytic activity (GO:0043085)
Namespace: biological_process
Definition: Any process that activates or increases the activity of an enzyme.
Synonyms: activation of enzyme activity; activation of metalloenzyme activity; positive regulation of enzyme activity; positive regulation of metalloenzyme activity; stimulation of enzyme activity; stimulation of metalloenzyme activity; up regulation of enzyme activity; up regulation of metalloenzyme activity; up-regulation of enzyme activity; up-regulation of metalloenzyme activity; upregulation of enzyme activity; upregulation of metalloenzyme activity
negative regulation of catalytic activity (GO:0043086)
Namespace: biological_process
Definition: Any process that stops or reduces the activity of an enzyme.
Synonyms: down regulation of enzyme activity; down regulation of metalloenzyme activity; down-regulation of enzyme activity; down-regulation of metalloenzyme activity; downregulation of enzyme activity; downregulation of metalloenzyme activity; inhibition of enzyme activity; inhibition of metalloenzyme activity; negative regulation of enzyme activity; negative regulation of metalloenzyme activity
regulation of GTPase activity (GO:0043087)
Namespace: biological_process
Definition: Any process that modulates the rate of GTP hydrolysis by a GTPase.
Synonyms: regulation of ARF GTPase activity; regulation of Cdc42 GTPase activity; regulation of Rab GTPase activity; regulation of Rac GTPase activity; regulation of Ral GTPase activity; regulation of Ran GTPase activity; regulation of Rap GTPase activity; regulation of Ras GTPase activity; regulation of Rho GTPase activity
amino acid import (GO:0043090)
Namespace: biological_process
Definition: The directed movement of amino acids into a cell or organelle.
Synonyms: amino acid uptake
FtsZ-dependent cytokinesis (GO:0043093)
Namespace: biological_process
Definition: A cytokinesis process that involves a set of conserved proteins including FtsZ, and results in the formation of two similarly sized and shaped cells.
Synonyms: cytokinesis by binary fission; prokaryote-type cytokinesis; prokaryotic fission
Comment: Note that this term is intended for the annotation of prokaryotic gene products.
metabolic compound salvage (GO:0043094)
Namespace: biological_process
Definition: Any process which produces a useful metabolic compound from derivatives of it without de novo synthesis, as carried out by individual cells.
obsolete regulation of GTP cyclohydrolase I activity (GO:0043095)
Namespace: biological_process
Definition: OBSOLETE. Any process that modulates the activity of the enzyme GTP cyclohydrolase I.
Comment: This term was obsoleted because it represents a molecular function.
purine nucleobase salvage (GO:0043096)
Namespace: biological_process
Definition: Any process that generates purine nucleobases, one of the two classes of nitrogen-containing ring compounds found in DNA and RNA, from derivatives of them without de novo synthesis.
Synonyms: purine base salvage
pyrimidine nucleoside salvage (GO:0043097)
Namespace: biological_process
Definition: Any process that generates a pyrimidine nucleoside, one of a family of organic molecules consisting of a pyrimidine base covalently bonded to a sugar ribose, from derivatives of it, without de novo synthesis.
purine deoxyribonucleoside salvage (GO:0043098)
Namespace: biological_process
Definition: Any process which produces a purine deoxyribonucleoside from derivatives of it, without de novo synthesis.
pyrimidine deoxyribonucleoside salvage (GO:0043099)
Namespace: biological_process
Definition: Any process that generates a pyrimidine deoxyribonucleoside from derivatives of it, without de novo synthesis.
pyrimidine nucleobase salvage (GO:0043100)
Namespace: biological_process
Definition: Any process that generates pyrimidine nucleobases, 1,3-diazine organic nitrogenous bases, from derivatives of them without de novo synthesis.
Synonyms: pyrimidine base salvage
purine-containing compound salvage (GO:0043101)
Namespace: biological_process
Definition: Any process that generates a purine-containing compound, any nucleobase, nucleoside, nucleotide or nucleic acid that contains a purine base, from derivatives of them without de novo synthesis.
Synonyms: purine salvage
amino acid salvage (GO:0043102)
Namespace: biological_process
Definition: Any process which produces an amino acid from derivatives of it, without de novo synthesis.
hypoxanthine salvage (GO:0043103)
Namespace: biological_process
Definition: Any process that generates hypoxanthine, 6-hydroxy purine, from derivatives of it without de novo synthesis.
Synonyms: adenine, hypoxanthine and their nucleoside salvage; guanine, xanthine and their nucleoside salvage
obsolete positive regulation of GTP cyclohydrolase I activity (GO:0043104)
Namespace: biological_process
Definition: OBSOLETE. Any process that activates or increases the activity of the enzyme GTP cyclohydrolase I.
Synonyms: activation of GTP cyclohydrolase I activity; stimulation of GTP cyclohydrolase I activity; up regulation of GTP cyclohydrolase I activity; up-regulation of GTP cyclohydrolase I activity; upregulation of GTP cyclohydrolase I activity
Comment: This term was obsoleted because it represents a molecular function.
obsolete negative regulation of GTP cyclohydrolase I activity (GO:0043105)
Namespace: biological_process
Definition: OBSOLETE. Any process that stops or reduces the activity of the enzyme GTP cyclohydrolase I.
Synonyms: down regulation of GTP cyclohydrolase I activity; down-regulation of GTP cyclohydrolase I activity; downregulation of GTP cyclohydrolase I activity; inhibition of GTP cyclohydrolase I activity
Comment: This term was obsoleted because it represents a molecular function.
type IV pilus-dependent motility (GO:0043107)
Namespace: biological_process
Definition: Any process involved in the controlled movement of a bacterial cell which is dependent on the presence of type IV pili. Includes social gliding motility and twitching motility.
Synonyms: social gliding motility; TFP-dependent motility; TFP-dependent movement; twitching motility; type 4 pilus-dependent motility; type four pilus-dependent motility
pilus retraction (GO:0043108)
Namespace: biological_process
Definition: The process of withdrawing a pilus back into a cell.
rDNA spacer replication fork barrier binding (GO:0043110)
Namespace: molecular_function
Definition: Binding to replication fork barriers found in rDNA spacers, sites that inhibit replication forks in the direction opposite to rDNA transcription.
Synonyms: RFB binding
replication fork arrest (GO:0043111)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of DNA replication by impeding the progress of the DNA replication fork. Replication fork arrest is one of the 'quality control' processes ensuring that DNA-dependent DNA replication occurs correctly. DNA replication fork arrest during DNA-dependent DNA replication is not known to occur outside of cases where a replication error needs to be prevented or corrected.
Synonyms: negative regulation of DNA replication at replication fork barrier; replication fork blocking; replication fork stalling
Comment: See also the biological process term 'site-specific replication termination ; GO:0071170' and its children.
receptor clustering (GO:0043113)
Namespace: biological_process
Definition: The receptor metabolic process that results in grouping of a set of receptors at a cellular location, often to amplify the sensitivity of a signaling response.
regulation of vascular permeability (GO:0043114)
Namespace: biological_process
Definition: Any process that modulates the extent to which blood vessels can be pervaded by fluid.
precorrin-2 dehydrogenase activity (GO:0043115)
Namespace: molecular_function
Definition: Catalysis of the reaction: NAD+ + precorrin-2 = 2 H+ + NADH + sirohydrochlorin.
Synonyms: 1,3-dimethyluroporphyrinogen III dehydrogenase activity; CysG; dihydrosirohydrochlorin dehydrogenase activity; Met8p; precorrin-2 oxidase activity; precorrin-2:NAD+ oxidoreductase activity; SirC; siroheme synthase activity
negative regulation of vascular permeability (GO:0043116)
Namespace: biological_process
Definition: Any process that reduces the extent to which blood vessels can be pervaded by fluid.
Synonyms: down regulation of vascular permeability; down-regulation of vascular permeability; downregulation of vascular permeability; inhibition of vascular permeability
positive regulation of vascular permeability (GO:0043117)
Namespace: biological_process
Definition: Any process that increases the extent to which blood vessels can be pervaded by fluid.
Synonyms: activation of vascular permeability; stimulation of vascular permeability; up regulation of vascular permeability; up-regulation of vascular permeability; upregulation of vascular permeability
tumor necrosis factor binding (GO:0043120)
Namespace: molecular_function
Definition: Binding to tumor necrosis factor, a proinflammatory cytokine produced by monocytes and macrophages.
neurotrophin binding (GO:0043121)
Namespace: molecular_function
Definition: Binding to a neurotrophin, any of a family of growth factors that prevent apoptosis in neurons and promote nerve growth.
Synonyms: neurotrophic factor binding; neurotrophin 3 binding; neurotrophin 4/5 binding; neurotrophin TRK receptor activity; neurotrophin TRKA receptor activity; neurotrophin TRKB receptor activity; neurotrophin TRKC receptor activity; neurotrophin-3 binding; neurotrophin-4/5 binding; NT 4/5 binding; NT-3 binding; NT-4 binding; NT-4/5 binding; NT-5 binding; NT3 binding; NT4 binding; NT5 binding
Comment: Note that mammalian NT-5 was initially named differently from amphibian NT-4 because of sequence differences, but the two genes were later shown to be functionally equivalent [SF:919858].
regulation of canonical NF-kappaB signal transduction (GO:0043122)
Namespace: biological_process
Definition: Any process that modulates the canonical NF-kappaB signaling cascade.
Synonyms: regulation of I-kappaB kinase/NF-kappaB cascade; regulation of I-kappaB kinase/NF-kappaB signaling
positive regulation of canonical NF-kappaB signal transduction (GO:0043123)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of a canonical NF-kappaB signaling cascade.
Synonyms: activation of I-kappaB kinase/NF-kappaB cascade; positive regulation of I-kappaB kinase/NF-kappaB cascade; positive regulation of I-kappaB kinase/NF-kappaB signaling; stimulation of I-kappaB kinase/NF-kappaB cascade; up regulation of I-kappaB kinase/NF-kappaB cascade; up-regulation of I-kappaB kinase/NF-kappaB cascade; upregulation of I-kappaB kinase/NF-kappaB cascade
negative regulation of canonical NF-kappaB signal transduction (GO:0043124)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of a canonical NF-kappaB signaling cascade.
Synonyms: down regulation of I-kappaB kinase/NF-kappaB cascade; down-regulation of I-kappaB kinase/NF-kappaB cascade; downregulation of I-kappaB kinase/NF-kappaB cascade; inhibition of I-kappaB kinase/NF-kappaB cascade; negative regulation of I-kappaB kinase/NF-kappaB cascade; negative regulation of I-kappaB kinase/NF-kappaB signaling
ErbB-3 class receptor binding (GO:0043125)
Namespace: molecular_function
Definition: Binding to the protein-tyrosine kinase receptor ErbB-3/HER3.
Synonyms: HER3 receptor binding; Neu/ErbB-2 receptor activity
obsolete regulation of 1-phosphatidylinositol 4-kinase activity (GO:0043126)
Namespace: biological_process
Definition: OBSOLETE. Any process that modulates the activity of the enzyme 1-phosphatidylinositol 4-kinase.
Synonyms: regulation of PI4K activity
Comment: This term was obsoleted because it represents a molecular function.
obsolete negative regulation of 1-phosphatidylinositol 4-kinase activity (GO:0043127)
Namespace: biological_process
Definition: OBSOLETE. Any process that stops or reduces the activity of the enzyme 1-phosphatidylinositol 4-kinase.
Synonyms: down regulation of 1-phosphatidylinositol 4-kinase activity; down-regulation of 1-phosphatidylinositol 4-kinase activity; downregulation of 1-phosphatidylinositol 4-kinase activity; inhibition of 1-phosphatidylinositol 4-kinase activity; negative regulation of PI4K activity
Comment: This term was obsoleted because it represents a molecular function.
obsolete positive regulation of 1-phosphatidylinositol 4-kinase activity (GO:0043128)
Namespace: biological_process
Definition: OBSOLETE. Any process that activates or increases the activity of 1-phosphatidylinositol 4-kinase.
Synonyms: activation of 1-phosphatidylinositol 4-kinase activity; positive regulation of PI4K activity; stimulation of 1-phosphatidylinositol 4-kinase activity; up regulation of 1-phosphatidylinositol 4-kinase activity; up-regulation of 1-phosphatidylinositol 4-kinase activity; upregulation of 1-phosphatidylinositol 4-kinase activity
Comment: This term was obsoleted because it represents a molecular function.