LiteFold/GO huggingface dataset:
aerial mycelium formation (GO:0097736)
Namespace: biological_process
Definition: The process by which hyphae grow in an upward or outward direction from the surface of the substrate; from there, propagative spores develop in or on characteristic structures that are distinctive of some fungal and bacterial species. The species that form an aerial mycelium develop conidiophores at the ends of the aerial hyphae.
Synonyms: aerial hyphal growth; fertile mycelium formation
substrate mycelium formation (GO:0097738)
Namespace: biological_process
Definition: The process by which, in some fungal species, hyphae grow as a network of invasive thread-like filaments formed from chains of attached cells within a solid or semi-solid substrate.
negative regulation of ferrichrome biosynthetic process in response to iron (GO:0097739)
Namespace: biological_process
Definition: Any process that stops, prevents or reduces the rate of ferrichrome biosynthetic process in response to an iron stimulus.
paraflagellar rod (GO:0097740)
Namespace: cellular_component
Definition: A large lattice-like axial structure found in some flagellated protists which extends alongside the axoneme. Protein components of the paraflagellar rod are likely implicated, among other, in adenine nucleotide signaling and metabolism, and in calcium signaling.
Synonyms: PFR
mastigoneme (GO:0097741)
Namespace: cellular_component
Definition: A hair-like structure covering the flagella found in some algae (heterokonts and cryptophytes). It is approximately 15 nm in diameter, and usually consist of a tubular shaft that itself terminates in smaller hairs. It is composed of glycoproteins and, likely, carbohydrates. Mastigonemes may assist in locomotion by increasing the surface area of a flagellum.
de novo centriole assembly (GO:0097742)
Namespace: biological_process
Definition: Centriole assembly in which a centriole arises de novo, rather than by replication from an existing centriole. This process may occur via different mechanisms. Examples include the deuterosome pathway in multicilated epithelial animal cells and formation of centrioles during parthenogenesis in some insects.
Synonyms: acentriolar basal body biogenesis; de novo basal body amplification; de novo basal body assembly; de novo basal body biogenesis; de novo basal body generation; de novo centriole amplification; de novo ciliary basal body assembly; multiciliation; multiciliogenesis
de novo centriole assembly via blepharoplast (GO:0097743)
Namespace: biological_process
Definition: A de novo centriole assembly process observed in multi-ciliated sperm cells of some primitive land plants, and where centrioles are formed from a blepharoplast, ultimately giving rise to multiple cilia on the sperm surface.
Synonyms: multiciliation; multiciliogenesis
renal urate salt excretion (GO:0097744)
Namespace: biological_process
Definition: The elimination of urate salt or uric acid from peritubular capillaries (or surrounding hemolymph in invertebrates) into the renal tubules to be incorporated subsequently into the urine.
Synonyms: urate excretion; urate salt excretion
mitochondrial tRNA 5'-end processing (GO:0097745)
Namespace: biological_process
Definition: The process in which the 5' end of a pre-tRNA molecule is converted to that of a mature tRNA in the mitochondrion.
blood vessel diameter maintenance (GO:0097746)
Namespace: biological_process
Definition: Any process that modulates the diameter of blood vessels.
Synonyms: blood vessel diameter homeostasis; regulation of blood vessel diameter; regulation of blood vessel size; regulation of vasodilatation; regulation of vasodilation
RNA polymerase activity (GO:0097747)
Namespace: molecular_function
Definition: Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1); the synthesis of RNA from ribonucleotide triphosphates in the presence of a nucleic acid template.
3'-5' RNA polymerase activity (GO:0097748)
Namespace: molecular_function
Definition: Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1); the synthesis of RNA from ribonucleotide triphosphates in the presence of a nucleic acid template, via extension of the 5'-end.
membrane tubulation (GO:0097749)
Namespace: biological_process
Definition: A membrane organization process resulting in the formation of a tubular projection. This may face inwardly (as in tubular membrane invaginations) or outwardly (as in endosomal tubules).
endosome membrane tubulation (GO:0097750)
Namespace: biological_process
Definition: A membrane tubulation process occurring in an endosome membrane.
Synonyms: endosomal membrane tubulation
spore-bearing structure formation (GO:0097751)
Namespace: biological_process
Definition: The process of generating a spore-bearing structure. A spore-bearing structure is an anatomical structure that produces new spores.
Synonyms: sporangium formation; sporophore formation
regulation of DNA stability (GO:0097752)
Namespace: biological_process
Definition: Any process that modulates the stability of DNA.
clathrin-mediated membrane bending (GO:0097754)
Namespace: biological_process
Definition: A membrane bending process mediated by clathrin.
obsolete positive regulation of blood vessel diameter (GO:0097755)
Namespace: biological_process
Definition: OBSOLETE. Any process that increases the diameter of blood vessels.
Synonyms: positive regulation of vasodilation
Comment: This term was obsoleted because it corresponded to an existing term, GO:0042311 ; vasodilation.
obsolete negative regulation of blood vessel diameter (GO:0097756)
Namespace: biological_process
Definition: OBSOLETE. Any process that decreases the diameter of blood vessels.
Synonyms: negative regulation of vasodilation
Comment: This term was obsoleted because it corresponded to an existing term, GO:0042310 ; vasocontriction.
receptor-mediated bacteriophage reversible attachment to host cell (GO:0098001)
Namespace: biological_process
Definition: Process by which a bacteriophage, using its tail fibers, spikes or a baseplate component, initially recognizes and binds to its specific receptor on the host cell surface. This process is reversible and allows the release of a bacteriophage without affecting infection.
Synonyms: phage reversible adsorption; reversible bacteriophage attachment, binding of host cell surface receptor
Comment: This process was historically defined by the release, by Waring blending or sonication, by dilution and centrifugation, or by filtration and washing, of infective virions from their complexes with cells, thus contrary to what is observed after irreversible adsorption.
receptor-mediated bacteriophage irreversible attachment to host cell (GO:0098002)
Namespace: biological_process
Definition: The processes by which a bacteriophage initially commits to infection by binding the host receptor irreversibly. Disruption of the phage:cell complex at this step results in the loss of infective phage virions since the process is characterized by conformational changes of bacteriophage head and tail proteins and injection of bacteriophage proteins into the infected cell.
Synonyms: irreversible bacteriophage attachment, binding of host cell surface receptor; phage irreversible adsorption
viral tail assembly (GO:0098003)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form a virus tail.
Synonyms: bacteriophage tail assembly; virus tail assembly
virus tail fiber assembly (GO:0098004)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form a virus tail fiber.
viral head-tail joining (GO:0098005)
Namespace: biological_process
Definition: Process by which virus heads and tails are attached to each other.
Synonyms: phage head tail joining; virus head-tail joining
viral DNA genome packaging, headful (GO:0098006)
Namespace: biological_process
Definition: The encapsulation of the viral genome within the capsid where DNA is packaged into the capsid until the capsid is full.
Synonyms: phage headful packaging
Comment: Generalized transducing phages usually use this mode of DNA packaging.
viral terminase, large subunit (GO:0098009)
Namespace: cellular_component
Definition: The part of the viral terminase complex that contains the translocase and endonuclease activities and allows the translocation of the phage DNA into the procapsid. The large subunit usually assembles as a heterooligomer with the small subunit.
Synonyms: virus terminase, large subunit
Comment: This term should only be used when the large subunit consists of more than one polypeptide.
virus tail (GO:0098015)
Namespace: cellular_component
Definition: Part of the virion that may be used to recognize, attach and inject the viral genome and accessory proteins into the host cell.
Synonyms: bacteriophage tail; viral tail
Comment: Many bacteriophages with dsDNA genomes, or Caudovirales, have a tail. The viral tail can be short (Podoviridae), long and non-contractile (Siphoviridae) or long and contractile (Myoviridae). The tail is the channel through which the phage genome is injected into the host bacterial cell.
viral capsid, major subunit (GO:0098017)
Namespace: cellular_component
Definition: The part of the viral capsid that comprises the most common capsomere type. For example, in a T=3 icosahedral capsid, which is composed of 12 pentameric and 20 hexameric capsomeres, the hexameric capsomeres are major subunits.
Synonyms: major capsomere; major head protein
viral capsid, minor subunit (GO:0098018)
Namespace: cellular_component
Definition: The part of the viral capsid that comprises the less common capsomere type. For example, in a T=3 icosahedral capsid, which is composed of 12 pentameric and 20 hexameric capsomeres, the pentameric capsomeres are minor subunits.
Synonyms: minor capsomere; minor head protein
obsolete virus tail, major subunit (GO:0098019)
Namespace: cellular_component
Definition: OBSOLETE. The part of the viral tail that comprises the most common subunit type.
Synonyms: major tail protein
Comment: The reason for obsoletion is that these are not precise structures: major (most abundant) and minor subunits of viral tails vary in different viruses/phages.
obsolete virus tail, minor subunit (GO:0098020)
Namespace: cellular_component
Definition: OBSOLETE. The part of the viral tail that comprises the least common subunit type.
Synonyms: bacteriophage minor protein subunit; minor tail protein
Comment: The reason for obsoletion is that these are not precise structures: major (most abundant) and minor subunits of viral tails vary in different viruses/phages.
viral capsid, decoration (GO:0098021)
Namespace: cellular_component
Definition: Component of the virus capsid (head), located on the outer head surface. Involved in the stabilization of the head structure and usually non-essential.
Synonyms: decoration protein
virus tail, tip (GO:0098023)
Namespace: cellular_component
Definition: The basal end of the virus tail, which is used by the virus to attach to the host cell.
Synonyms: bacteriophage tail tip
virus tail, fiber (GO:0098024)
Namespace: cellular_component
Definition: The fibrous region of the virus tail used to scan, recognize and attach to the host cell.
Synonyms: bacteriophage tail fiber
Comment: For tailed bacteriophages, fibers typically bind to particular Lipopolysaccharide (LPS), polysaccharide or protein receptors on the cell surface.
virus tail, baseplate (GO:0098025)
Namespace: cellular_component
Definition: Multiprotein component at the distal (head) end of the virus tail to which fibers of tailed viruses may be attached.
Synonyms: bacteriophage baseplate; tail structure; tail tip
Comment: Tail fibers are often attached to the baseplate of Caudovirales (tailed bacteriophages with dsDNA genomes). Sometimes referred to as the tail tip or tip structure in Siphoviridae.
virus tail, tube (GO:0098026)
Namespace: cellular_component
Definition: The internal tube of the tail of some viruses. The virus tail tube is the channel for DNA ejection into the host cytoplasm.
Synonyms: bacteriophage tail tube
Comment: Applies in particular the Myoviridae bacteriophages. Many bacteriophages with dsDNA genomes, or Caudovirales, have a tail. The viral tail can be short (Podoviridae), long and non-contractile (Siphoviridae) or long and contractile (Myoviridae). The tail is the channel through which the phage genome is injected into the host bacterial cell.
virus tail, sheath (GO:0098027)
Namespace: cellular_component
Definition: The external contractile envelope of the tail of some viruses. Its contraction ensures ejection of the virus DNA into the host cytoplasm.
Synonyms: bacteriophage tail sheath
virus tail, shaft (GO:0098028)
Namespace: cellular_component
Definition: The tube of the non-contractile tails of some viruses.
Synonyms: bacteriophage tail shaft
Comment: This term applies in particular to the Siphoviridae bacteriophages, where the shaft is the channel for DNA translocation into the host cytoplasm.
icosahedral viral capsid, spike (GO:0098029)
Namespace: cellular_component
Definition: A short structure attached to an icosahedral virion capsid, and used for attachment to the host cell.
icosahedral viral capsid, neck (GO:0098030)
Namespace: cellular_component
Definition: A region of constriction located below the head and above the tail sheath of viruses with contractile tails (Myoviridae).
icosahedral viral capsid, collar (GO:0098031)
Namespace: cellular_component
Definition: A small disk located at the base of some icosahedral virus capsids.
icosahedral viral capsid, collar fiber (GO:0098032)
Namespace: cellular_component
Definition: A fiber attached to the collar structure of some icosahedral viral capsids.
icosahedral viral capsid, neck fiber (GO:0098033)
Namespace: cellular_component
Definition: A fiber attached to the neck at the base of some icosahedral viral capsids.
viral DNA genome packaging via site-specific sequence recognition (GO:0098035)
Namespace: biological_process
Definition: The encapsulation of the viral DNA genome within the capsid, which proceeds via cleavage of the viral DNA at specific sites by a viral terminase.
viral DNA genome packaging, 3' extended cos packaging (GO:0098036)
Namespace: biological_process
Definition: The encapsulation of the viral DNA genome within the capsid, which proceeds via cleavage of the viral DNA at specific sites to produce 3' protruding ends.
viral DNA genome packaging, 5' extended cos packaging (GO:0098037)
Namespace: biological_process
Definition: The encapsulation of the viral DNA genome within the capsid, which proceeds via cleavage of the viral DNA at specific sites to produce 5' protruding ends.
non-replicative DNA transposition (GO:0098038)
Namespace: biological_process
Definition: Process by which a transposable element is excised from the donor site and integrated at the target site without replication of the element. Also referred to as cut-and-paste transposition.
Synonyms: cut-and-paste transposition; non-replicative transposition, DNA-mediated
replicative DNA transposition (GO:0098039)
Namespace: biological_process
Definition: Process of transposition in which the existing element is replicated and one of the copies is excised and integrated at a new target site. Also referred to as copy-and-paste transposition.
Synonyms: copy-and-paste transposition; replicative transposition, DNA-mediated; transpositional DNA genome replication
virus baseplate assembly (GO:0098045)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form a virus baseplate.
type V protein secretion system complex (GO:0098046)
Namespace: cellular_component
Definition: A complex of proteins that permits the translocation of proteins across the outer membrane via a transmembrane pore, formed by a beta-barrel, into the extracellular milieu or directly into host cells; the secreted proteins contain all the information required for translocation of an effector molecule through the cell envelope. The type V secretion systems includes the autotransporters (type Va), the two-partner secretion system (type Vb) and the Oca family (type Vc).
Synonyms: autotransporter system complex; T5SS complex
Comment: Note that the type II protein secretion system complex does not include components of the Sec or Tat pathways. For components of these pathways, consider annotating to 'cell envelope Sec complex ; GO:0031522' or 'TAT protein translocation system complex ; GO:0033281'.
viral capsid, internal space (GO:0098061)
Namespace: cellular_component
Definition: The region of a virus contained within the capsid shell, and usually containing the viral genome and accessory proteins.
Synonyms: internal head protein
obsolete polynucleotide dephosphorylation (GO:0098501)
Namespace: biological_process
Definition: OBSOLETE. The process of removing one or more phosphate groups from a polynucleotide.
Comment: This term was obsoleted because it represents a molecular function.
obsolete DNA dephosphorylation (GO:0098502)
Namespace: biological_process
Definition: OBSOLETE. The process of removing one or more phosphate groups from a DNA molecule.
Comment: This term was obsoleted because it represents a molecular function.
obsolete DNA 3' dephosphorylation (GO:0098503)
Namespace: biological_process
Definition: OBSOLETE. The process of removing a 3' phosphate group from a DNA molecule.
Comment: This term was obsoleted because it represents a molecular function, and not a specific coordinated process.
obsolete DNA 3' dephosphorylation involved in DNA repair (GO:0098504)
Namespace: biological_process
Definition: OBSOLETE. Any 3' DNA dephosphorylation that is involved in the process of DNA repair.
Comment: This term was obsoleted because it represents a molecular function, and not a specific coordinated process.
G-rich strand telomeric DNA binding (GO:0098505)
Namespace: molecular_function
Definition: Binding to G-rich, single-stranded, telomere-associated DNA.
polynucleotide 3' dephosphorylation (GO:0098506)
Namespace: biological_process
Definition: The process of removing one or more phosphate groups from the 3' end of a polynucleotide.
polynucleotide 5' dephosphorylation (GO:0098507)
Namespace: biological_process
Definition: The process of removing one or more phosphate groups from the 5' end of a polynucleotide.
endothelial to hematopoietic transition (GO:0098508)
Namespace: biological_process
Definition: The generation of hematopoietic stem cells from hemogenic endothelial cells by a process that includes tight-junction dissolution and loss of cell polarity followed by delamination from the endothelium.
sensory perception of humidity (GO:0098509)
Namespace: biological_process
Definition: The series of events required for an organism to detect some level of humidity in its environment, convert this detection into a molecular signal, and recognize and characterize the signal. This is a neurological process.
Synonyms: hygrosensory perception
Comment: Note, this is not classified under 'detection of chemical stimulus' as there are various potential mechanisms of hygroperception including detection of mechanical stimulus.
sensory perception of high humidity (GO:0098510)
Namespace: biological_process
Definition: The series of events required for an organism to detect high environmental humidity, convert this detection into a molecular signal, and recognize and characterize the signal. This is a neurological process.
sensory perception of low humidity (GO:0098511)
Namespace: biological_process
Definition: The series of events required for an organism to detect low environmental humidity, convert this detection into a molecular signal, and recognize and characterize the signal. This is a neurological process.
detection of humidity stimulus involved in sensory perception (GO:0098512)
Namespace: biological_process
Definition: The series of events in which a humidity stimulus is received and converted into a molecular signal as part of the sensory perception of humidity.
detection of humidity (GO:0098513)
Namespace: biological_process
Definition: The series of events in which a humidity stimulus is received and converted into a molecular signal.
obsolete detection of high humidity stimulus involved in sensory perception (GO:0098514)
Namespace: biological_process
Definition: OBSOLETE. The series of events in which a high humidity stimulus is detected and converted into a molecular signal as a part of the sensory detection of high humidity.
Comment: This term was obsoleted because it is a pre-composed term that should be captured as a GO-CAM model.
obsolete detection of low humidity stimulus involved in sensory perception (GO:0098515)
Namespace: biological_process
Definition: OBSOLETE. The series of events in which a low humidity stimulus is detected and converted into a molecular signal as a part of the sensory detection of low humidity.
Comment: This term was obsoleted because it is a pre-composed term that should be captured as a GO-CAM model.
detection of high humidity (GO:0098516)
Namespace: biological_process
Definition: The series of events in which high humidity is detected and converted into a molecular signal.
detection of low humidity (GO:0098517)
Namespace: biological_process
Definition: The series of events in which low humidity is detected and converted into a molecular signal.
obsolete polynucleotide phosphatase activity (GO:0098518)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: phosphopolynucleotide + H2O = polynucleotide + phosphate.
Comment: This term was obsoleted because it is an unnecessary grouping class.
obsolete nucleotide phosphatase activity, acting on free nucleotides (GO:0098519)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: nucleotide + H2O = nucleotide + phosphate.
Synonyms: nucleotide phosphatase activity
Comment: This term was obsoleted because it represented an unnecessary grouping class.
excitatory neuromuscular junction (GO:0098520)
Namespace: cellular_component
Definition: The junction between the axon of a motor neuron and a muscle fiber. In response to the arrival of action potentials, the presynaptic button releases molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane of the muscle fiber, leading to a post-synaptic potential responsible for muscle contraction.
neuromuscular junction of skeletal muscle fiber (GO:0098522)
Namespace: cellular_component
Definition: A neuromuscular junction in which the target muscle cell is a skeletal muscle fiber.
Comment: In vertebrates, the term 'neuromuscular junction' is limited to synapses targeting skeletal muscle fibers - all of which are cholinergic and excitatory. Both inhibitory and excitatory neuromuscular junctions exist in invertebrates, utilizing a range of neurotransmitters including glutamate, GABA and 5-HT.
neuromuscular junction of myotube (GO:0098523)
Namespace: cellular_component
Definition: A neuromuscular junction in which the target muscle cell is a myotube.
Comment: In vertebrates, the term 'neuromuscular junction' is limited to synapses targeting the myotubes of skeletal muscle (AKA skeletal muscle fibers). Neuromuscular junctions targeting other muscle cell types exist in invertebrates such as the mononucleate somatic muscles of nematodes.
neuromuscular junction of somatic muscle myotube (GO:0098524)
Namespace: cellular_component
Definition: A neuromuscular junction in which the target muscle cell is a somatic muscle myotube, such as an arthropod somatic muscle cell.
excitatory neuromuscular junction of somatic myotube (GO:0098525)
Namespace: cellular_component
Definition: A neuromuscular junction that functions in the excitation of somatic muscle myotubes, such as an arthropod somatic muscle cells.
inhibitory neuromuscular junction of somatic myotube (GO:0098526)
Namespace: cellular_component
Definition: A neuromuscular junction that functions in the inhibition of somatic muscle myotube contraction. Examples of somatic muscle myotubes include the somatic muscle cells of arthropods.