LiteFold/GO huggingface dataset:
calcium ion transport (GO:0006816)
Namespace: biological_process
Definition: The directed movement of calcium (Ca) ions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
Synonyms: calcium transport; mitochondrial sodium/calcium ion exchange; sodium:calcium exchange
phosphate ion transport (GO:0006817)
Namespace: biological_process
Definition: The directed movement of phosphate ions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
Synonyms: phosphate transport
monoatomic anion transport (GO:0006820)
Namespace: biological_process
Definition: The directed movement of a monoatomic anion, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Monatomic anions (also called simple anions) are negatively charged ions consisting of exactly one atom.
Synonyms: anion transport
chloride transport (GO:0006821)
Namespace: biological_process
Definition: The directed movement of chloride into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
obsolete heavy metal ion transport (GO:0006823)
Namespace: biological_process
Definition: OBSOLETE. The directed movement of heavy metal ions into, out of or within a cell, or between cells. Heavy metals are those that can form a coordination bond with a protein, as opposed to an alkali or alkaline-earth metal that can only form an ionic bond; this definition includes the following biologically relevant heavy metals: Cd, Co, Cu, Fe, Hg, Mn, Mo, Ni, V, W, Zn.
Synonyms: heavy metal ion transport
Comment: This term was made obsolete because 'heavy metal' is an ambiguous grouping term which has no set meaning (see Pure Appl. Chem. Vol. 74, No. 5, pp. 793-807, 2002, for more information).
cobalt ion transport (GO:0006824)
Namespace: biological_process
Definition: The directed movement of cobalt (Co2+) ions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
Synonyms: cobalt transport
iron ion transport (GO:0006826)
Namespace: biological_process
Definition: The directed movement of iron (Fe) ions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
Synonyms: ferric ion import; ferric ion transport; ferric iron import; ferric iron transport; ferric iron uptake; ferrous ion transport; ferrous iron transport; iron ion import; iron transport
manganese ion transport (GO:0006828)
Namespace: biological_process
Definition: The directed movement of manganese (Mn) ions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
zinc ion transport (GO:0006829)
Namespace: biological_process
Definition: The directed movement of zinc (Zn II) ions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
Synonyms: zinc II ion transport; zinc transport
obsolete small molecule transport (GO:0006832)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: small molecule transport
Comment: This term was made obsolete because it was an unnecessary grouping term.
water transport (GO:0006833)
Namespace: biological_process
Definition: The directed movement of water (H2O) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
dicarboxylic acid transport (GO:0006835)
Namespace: biological_process
Definition: The directed movement of dicarboxylic acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
Synonyms: sodium:dicarboxylate transport
neurotransmitter transport (GO:0006836)
Namespace: biological_process
Definition: The directed movement of a neurotransmitter into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Neurotransmitters are any chemical substance that is capable of transmitting (or inhibiting the transmission of) a nerve impulse from a neuron to another cell.
Synonyms: sodium:neurotransmitter transport
serotonin transport (GO:0006837)
Namespace: biological_process
Definition: The directed movement of serotonin into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Serotonin (5-hydroxytryptamine) is a monoamine neurotransmitter occurring in the peripheral and central nervous systems.
obsolete allantoin/allantoate transport (GO:0006838)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: allantoin/allantoate transport
Comment: This term was made obsolete because it is a composite term that represents two individual processes.
mitochondrial transport (GO:0006839)
Namespace: biological_process
Definition: Transport of substances into, out of or within a mitochondrion.
obsolete mitochondrial alpha-ketoglutarate/malate transport (GO:0006840)
Namespace: biological_process
Definition: OBSOLETE. The directed movement of alpha-ketoglutarate and malate into, out of or within a mitochondrion.
Synonyms: mitochondrial alpha-ketoglutarate/malate transport; mitochondrial oxoglutarate/malate transport
Comment: This term was made obsolete because it represents a function rather than a process.
tricarboxylic acid transport (GO:0006842)
Namespace: biological_process
Definition: The directed movement of tricarboxylic acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
obsolete acyl carnitine transport (GO:0006844)
Namespace: biological_process
Definition: OBSOLETE. The directed movement of acyl carnitine into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Acyl carnitine is the condensation product of a carboxylic acid and carnitine and is the transport form for a fatty acid crossing the mitochondrial membrane.
Comment: This term was obsoleted because it represents the same process as acyl carnitine transmembrane transport ; GO:1902616.
plasma membrane pyruvate transport (GO:0006849)
Namespace: biological_process
Definition: The directed movement of pyruvate, 2-oxopropanoate, across a plasma membrane.
pyruvate import into mitochondria (GO:0006850)
Namespace: biological_process
Definition: The process in which pyruvate is transported from the cytosol into the mitochondrial matrix.
Synonyms: mitochondrial pyruvate transport; pyruvate membrane transport in mitochondria; pyruvate membrane transport in mitochondrion; pyruvate transmembrane transport in mitochondria; pyruvate transmembrane transport in mitochondrion
mitochondrial calcium ion transmembrane transport (GO:0006851)
Namespace: biological_process
Definition: The process in which a calcium ion (Ca2+) is transported across a mitochondrial membrane, into or out of the mitochondrion.
Synonyms: mitochondrial calcium transport
obsolete mitochondrial sodium/calcium ion exchange (GO:0006852)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: mitochondrial sodium/calcium exchange; mitochondrial sodium/calcium ion exchange
Comment: This term was made obsolete because it represents function rather than a process.
carnitine shuttle (GO:0006853)
Namespace: biological_process
Definition: The transfer of acyl groups to and from acyl-CoA molecules to form O-acylcarnitine, which can exchange across the mitochondrial inner membrane with unacylated carnitine.
Comment: See also the cellular component term 'mitochondrial inner membrane ; GO:0005743'.
obsolete ATP/ADP exchange (GO:0006854)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: ATP/ADP exchange
Comment: This term was made obsolete because it represents a molecular function and not a biological process.
xenobiotic transmembrane transport (GO:0006855)
Namespace: biological_process
Definition: The process in which a xenobiotic, a compound foreign to the organism exposed to it, is transported across a membrane. It may be synthesized by another organism (like ampicilin) or it can be a synthetic chemical.
Synonyms: drug membrane transport; drug transmembrane transport; multidrug transport
Comment: Note that this term is not intended for use in annotating lateral movement within membranes.
eye pigment precursor transport (GO:0006856)
Namespace: biological_process
Definition: The directed movement of eye pigment precursors, the inactive forms of visual pigments, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
oligopeptide transport (GO:0006857)
Namespace: biological_process
Definition: The directed movement of oligopeptides into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Oligopeptides are molecules that contain a small number (2 to 20) of amino-acid residues connected by peptide linkages.
extracellular transport (GO:0006858)
Namespace: biological_process
Definition: The transport of substances that occurs outside cells.
obsolete extracellular carbohydrate transport (GO:0006859)
Namespace: biological_process
Definition: OBSOLETE. The directed extracellular movement of carbohydrates.
Comment: This term was obsoleted because there is no evidence that this process exists.
extracellular amino acid transport (GO:0006860)
Namespace: biological_process
Definition: The directed extracellular movement of amino acids.
nucleotide transport (GO:0006862)
Namespace: biological_process
Definition: The directed movement of a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate, into, out of or within a cell.
purine nucleobase transport (GO:0006863)
Namespace: biological_process
Definition: The directed movement of purine bases, one of the two classes of nitrogen-containing ring compounds found in DNA and RNA, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
Synonyms: purine base transmembrane transport; purine base transport; purine transmembrane transport; purine transport
pyrimidine nucleotide transport (GO:0006864)
Namespace: biological_process
Definition: The directed movement of a pyrimidine nucleotide, any compound consisting of a pyrimidine nucleoside esterified with (ortho)phosphate, into, out of or within a cell.
asparagine transport (GO:0006867)
Namespace: biological_process
Definition: The directed movement of asparagine, alpha-aminosuccinamic acid, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
Synonyms: L-asparagine transport
L-glutamine transport (GO:0006868)
Namespace: biological_process
Definition: The directed movement of glutamine, 2-amino-4-carbamoylbutanoic acid, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
Synonyms: glutamine transport
lipid transport (GO:0006869)
Namespace: biological_process
Definition: The directed movement of lipids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Lipids are compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent.
intracellular monoatomic ion homeostasis (GO:0006873)
Namespace: biological_process
Definition: A homeostatic process involved in the maintenance of a steady state level of monoatomic ions within a cell. Monatomic ions (also called simple ions) are ions consisting of exactly one atom.
Synonyms: cellular ion homeostasis; cellular monoatomic ion homeostasis
intracellular calcium ion homeostasis (GO:0006874)
Namespace: biological_process
Definition: A homeostatic process involved in the maintenance of a steady state level of calcium ions within a cell.
Synonyms: cellular calcium ion homeostasis; regulation of calcium ion concentration
obsolete intracellular metal ion homeostasis (GO:0006875)
Namespace: biological_process
Definition: OBSOLETE. A homeostatic process involved in the maintenance of a steady state level of metal ions within a cell.
Synonyms: cellular heavy metal ion homeostasis; cellular metal ion homeostasis
Comment: This term was obsoleted because it is an unnecessary grouping class.
obsolete intracellular cadmium ion homeostasis (GO:0006876)
Namespace: biological_process
Definition: OBSOLETE. A homeostatic process involved in the maintenance of a steady state level of cadmium ions within a cell.
Synonyms: cadmium homeostasis; cellular cadmium ion homeostasis
Comment: This term was obsoleted because it is not a normal process.
intracellular cobalt ion homeostasis (GO:0006877)
Namespace: biological_process
Definition: A homeostatic process involved in the maintenance of a steady state level of cobalt (Co2+) ions within a cell.
Synonyms: cellular cobalt ion homeostasis; cobalt homeostasis
intracellular copper ion homeostasis (GO:0006878)
Namespace: biological_process
Definition: A homeostatic process involved in the maintenance of a steady state level of copper ions within a cell.
Synonyms: cellular copper ion homeostasis; copper homeostasis
intracellular iron ion homeostasis (GO:0006879)
Namespace: biological_process
Definition: A homeostatic process involved in the maintenance of a steady state level of iron ions within a cell.
Synonyms: cellular iron ion homeostasis; iron homeostasis
obsolete intracellular sequestering of iron ion (GO:0006880)
Namespace: biological_process
Definition: OBSOLETE. The process of binding or confining iron ions in an intracellular area such that they are separated from other components of a biological system.
Synonyms: intracellular iron ion retention; intracellular iron ion sequestering; intracellular iron ion sequestration; intracellular iron ion storage; intracellular retention of iron ion; intracellular sequestration of iron ion; intracellular storage of iron ion
Comment: The reason for obsoletion is that this term represents a molecular function, not a biological process.
obsolete extracellular sequestering of iron ion (GO:0006881)
Namespace: biological_process
Definition: OBSOLETE. The process of binding or confining iron ions in an extracellular area such that they are separated from other components of a biological system.
Synonyms: extracellular iron ion retention; extracellular iron ion sequestering; extracellular iron ion sequestration; extracellular iron ion storage; extracellular retention of iron ion; extracellular sequestration of iron ion; extracellular storage of iron ion
Comment: The reason for obsoletion is that this term represents a molecular function, not a biological process.
intracellular zinc ion homeostasis (GO:0006882)
Namespace: biological_process
Definition: A homeostatic process involved in the maintenance of a steady state level of zinc ions within a cell.
Synonyms: cellular zinc ion homeostasis; zinc homeostasis
intracellular sodium ion homeostasis (GO:0006883)
Namespace: biological_process
Definition: A homeostatic process involved in the maintenance of a steady state level of sodium ions within a cell.
Synonyms: cellular sodium ion homeostasis
cell volume homeostasis (GO:0006884)
Namespace: biological_process
Definition: Any process involved in maintaining the steady state of a cell's volume. The cell's volume refers to the three-dimensional space occupied by a cell.
Synonyms: regulation of cell volume
regulation of pH (GO:0006885)
Namespace: biological_process
Definition: Any process involved in the maintenance of an internal equilibrium of hydrogen ions, thereby modulating the internal pH, within an organism or cell.
Synonyms: hydrogen ion homeostasis
intracellular protein transport (GO:0006886)
Namespace: biological_process
Definition: The directed movement of proteins in a cell, including the movement of proteins between specific compartments or structures within a cell, such as organelles of a eukaryotic cell.
Synonyms: copper-induced intracellular protein transport
exocytosis (GO:0006887)
Namespace: biological_process
Definition: A process of secretion by a cell that results in the release of intracellular molecules (e.g. hormones, matrix proteins) contained within a membrane-bounded vesicle. Exocytosis can occur either by full fusion, when the vesicle collapses into the plasma membrane, or by a kiss-and-run mechanism that involves the formation of a transient contact, a pore, between a granule (for example of chromaffin cells) and the plasma membrane. The latter process most of the time leads to only partial secretion of the granule content. Exocytosis begins with steps that prepare vesicles for fusion with the membrane (tethering and docking) and ends when molecules are secreted from the cell.
Synonyms: nonselective vesicle exocytosis; vesicle exocytosis
endoplasmic reticulum to Golgi vesicle-mediated transport (GO:0006888)
Namespace: biological_process
Definition: The directed movement of substances from the endoplasmic reticulum (ER) to the Golgi, mediated by COP II vesicles. Small COP II coated vesicles form from the ER and then fuse directly with the cis-Golgi. Larger structures are transported along microtubules to the cis-Golgi.
Synonyms: anterograde (ER to Golgi) transport; anterograde transport, endoplasmic reticulum to Golgi; anterograde transport, ER to Golgi; anterograde vesicle-mediated transport, endoplasmic reticulum to Golgi; anterograde vesicle-mediated transport, ER to Golgi; endoplasmic reticulum to Golgi transport; ER to Golgi transport; ER to Golgi vesicle-mediated transport; rough endoplasmic reticulum to cis-Golgi transport; rough endoplasmic reticulum to cis-Golgi vesicle-mediated transport; rough ER to cis-Golgi transport; rough ER to cis-Golgi vesicle-mediated transport
obsolete regulation of calcium in ER (GO:0006889)
Namespace: biological_process
Definition: OBSOLETE. Any process that modulates the concentration of calcium in the endoplasmic reticulum.
Synonyms: regulation of calcium in ER
Comment: This term was made obsolete because the term name is ambiguous and as a result, the term was incorrectly placed in the ontology (it was a descendant of 'protein transport').
intra-Golgi vesicle-mediated transport (GO:0006891)
Namespace: biological_process
Definition: The directed movement of substances within the Golgi, mediated by small transport vesicles. These either fuse with the cis-Golgi or with each other to form the membrane stacks known as the cis-Golgi reticulum (network).
Synonyms: intra-Golgi transport
Golgi to plasma membrane transport (GO:0006893)
Namespace: biological_process
Definition: The directed movement of substances from the Golgi to the plasma membrane in transport vesicles that move from the trans-Golgi network to the plasma membrane. Golgi to plasma membrane transport precedes exocytosis.
Synonyms: Golgi to plasma membrane vesicle-mediated transport
obsolete Golgi to secretory vesicle transport (GO:0006894)
Namespace: biological_process
Definition: OBSOLETE. The directed movement of proteins from the Golgi to one of two types of secretory vesicle. Continuously secreted proteins are sorted into transport vesicles that fuse with the plasma membrane, releasing their contents by exocytosis. Specialized secretory cells have a second secretory pathway in which soluble proteins and other substances are initially stored in secretory vesicles for later release.
Synonyms: Golgi to secretory vesicle transport; Golgi to secretory vesicle transport, vesicle-mediated
Comment: This term was made obsolete because it mixes two processes that can be better captured in separate terms.
Golgi to endosome transport (GO:0006895)
Namespace: biological_process
Definition: The directed movement of substances from the Golgi to early sorting endosomes. Clathrin vesicles transport substances from the trans-Golgi to endosomes.
Synonyms: Golgi to endosome vesicle-mediated transport; TGN to endosome transport; trans-Golgi to endosome transport
Golgi to vacuole transport (GO:0006896)
Namespace: biological_process
Definition: The directed movement of substances from the Golgi to the vacuole.
Synonyms: Golgi to vacuole vesicle-mediated transport
endocytosis (GO:0006897)
Namespace: biological_process
Definition: A vesicle-mediated transport process in which cells take up external materials or membrane constituents by the invagination of a part of the plasma membrane to form a new membrane-bounded vesicle.
Synonyms: endocytic import into cell; nonselective vesicle endocytosis; plasma membrane invagination; vesicle endocytosis
receptor-mediated endocytosis (GO:0006898)
Namespace: biological_process
Definition: An endocytosis process in which cell surface receptors ensure specificity of transport. A specific receptor on the cell surface binds tightly to the extracellular macromolecule (the ligand) that it recognizes; the plasma-membrane region containing the receptor-ligand complex then undergoes endocytosis, forming a transport vesicle containing the receptor-ligand complex and excluding most other plasma-membrane proteins. Receptor-mediated endocytosis generally occurs via clathrin-coated pits and vesicles.
Synonyms: receptor mediated endocytosis
vesicle budding from membrane (GO:0006900)
Namespace: biological_process
Definition: The evagination of a membrane, resulting in formation of a vesicle.
Synonyms: membrane evagination; nonselective vesicle assembly; single organism membrane budding; single-organism membrane budding; vesicle biosynthesis; vesicle budding; vesicle formation
vesicle coating (GO:0006901)
Namespace: biological_process
Definition: A protein coat is added to the vesicle to form the proper shape of the vesicle and to target the vesicle for transport to its destination.
Synonyms: vesicle coat assembly
vesicle targeting (GO:0006903)
Namespace: biological_process
Definition: The process in which vesicles are directed to specific destination membranes. Targeting involves coordinated interactions among cytoskeletal elements (microtubules or actin filaments), motor proteins, molecules at the vesicle membrane and target membrane surfaces, and vesicle cargo.
vesicle docking involved in exocytosis (GO:0006904)
Namespace: biological_process
Definition: The initial attachment of a vesicle membrane to a target membrane, mediated by proteins protruding from the membrane of the vesicle and the target membrane, that contributes to exocytosis.
Synonyms: vesicle docking during exocytosis
vesicle fusion (GO:0006906)
Namespace: biological_process
Definition: Fusion of the membrane of a transport vesicle with its target membrane.
pinocytosis (GO:0006907)
Namespace: biological_process
Definition: An endocytosis process that results in the uptake of liquid material by cells from their external environment; literally 'cell drinking'. Liquid is enclosed in vesicles, called pinosomes, formed by invagination of the plasma membrane.
Synonyms: clathrin-independent pinocytosis; fluid-phase endocytosis; single-organism pinocytosis
phagocytosis (GO:0006909)
Namespace: biological_process
Definition: A vesicle-mediated transport process that results in the engulfment of external particulate material by phagocytes and their delivery to the lysosome. The particles are initially contained within phagocytic vacuoles (phagosomes), which then fuse with primary lysosomes to effect digestion of the particles.
phagocytosis, recognition (GO:0006910)
Namespace: biological_process
Definition: The initial step in phagocytosis involving adhesion to bacteria, immune complexes and other particulate matter, or an apoptotic cell and based on recognition of factors such as bacterial cell wall components, opsonins like complement and antibody or protein receptors and lipids like phosphatidyl serine, and leading to intracellular signaling in the phagocytosing cell.
Synonyms: recognition of phagocytosed substance by phagocytic cell
Comment: Note that cell surface molecules involved in the direct binding of bacteria may be also annotated to the molecular function term 'bacterial cell surface binding ; GO:0051635'. Note that cell surface molecules involved in the direct binding to opsonins such as complement components or antibodies may be also annotated to the term 'opsonin binding ; GO:0001846'.