part_of part of BFO:0000050 part_of Intended meaning: Ambiguous between continuant-parthood and occurrent-parthood. domain: continuant range: continuant time: at some time domain: occurrent range: occurrent time: atemporal Parthood as a relation between instances: The primitive instance-level relation p part_of p1 is illustrated in assertions such as: this instance of rhodopsin mediated phototransduction part_of this instance of visual perception. This relation satisfies at least the following standard axioms of mereology: reflexivity (for all p, p part_of p); anti-symmetry (for all p, p1, if p part_of p1 and p1 part_of p then p and p1 are identical); and transitivity (for all p, p1, p2, if p part_of p1 and p1 part_of p2, then p part_of p2). Analogous axioms hold also for parthood as a relation between spatial regions. For parthood as a relation between continuants, these axioms need to be modified to take account of the incorporation of a temporal argument. Thus for example the axiom of transitivity for continuants will assert that if c part_of c1 at t and c1 part_of c2 at t, then also c part_of c2 at t. Parthood as a relation between classes: To define part_of as a relation between classes we again need to distinguish the two cases of continuants and processes, even though the explicit reference to instants of time now falls away. For continuants, we have C part_of C1 if and only if any instance of C at any time is an instance-level part of some instance of C1 at that time, as for example in: cell nucleus part_ of cell. http://www.obofoundry.org/ro/#OBO_REL:part_of part of part_of has part has_part has part BFO:0000051 has_part has_part Intended meaning: Ambiguous between continuant-parthood and occurrent-parthood. domain: continuant range: continuant time: at some time domain: occurrent range: occurrent time: atemporal has part has_part overlaps overlaps x overlaps y if and only if there exists some z such that x has part z and z part of y http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.obolibrary.org/obo/BFO_0000050 some ?Y) temporally related to https://docs.google.com/document/d/1kBv1ep_9g3sTR-SD3jqzFqhuwo9TPNF-l-9fUDbO6rM/edit?pli=1 Allen A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. starts Allen Chris Mungall inverse of starts with starts with Every insulin receptor signaling pathway starts with the binding of a ligand to the insulin receptor x starts with y if and only if x has part y and the time point at which x starts is equivalent to the time point at which y starts. Formally: α(y) = α(x) ∧ ω(y) < ω(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point. started by ends inverse of ends with ends with finished by x ends with y if and only if x has part y and the time point at which x ends is equivalent to the time point at which y ends. Formally: α(y) > α(x) ∧ ω(y) = ω(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point. mereotopologically related to Chris Mungall A mereological relationship or a topological relationship entity entity occurrent An entity that has temporal parts and that happens, unfolds or develops through time. a surgical operation as processual context for a nosocomical infection occurrent perdurant the life of an organism the most interesting part of Van Gogh's life the spatiotemporal context occupied by a process of cellular meiosis the spatiotemporal region occupied by the development of a cancer tumor molecular_function nucleic acid binding DNA binding DNA replication origin binding catalytic activity DNA-directed DNA polymerase activity DNA primase activity DNA-directed RNA polymerase activity DNA ligase activity nuclease activity endonuclease activity endoribonuclease activity RNA-DNA hybrid ribonuclease activity ribonuclease activity binding nucleobase-containing compound metabolic process DNA metabolic process DNA replication DNA-dependent DNA replication DNA ligation DNA unwinding involved in DNA replication DNA replication, synthesis of RNA primer DNA replication initiation DNA strand elongation involved in DNA replication leading strand elongation lagging strand elongation DNA replication termination RNA catabolic process cellular aromatic compound metabolic process nitrogen compound metabolic process biological_process metabolic process catabolic process macromolecule catabolic process biosynthetic process macromolecule biosynthetic process cellular process cellular component organization RNA metabolic process transferase activity transferase activity, transferring phosphorus-containing groups nucleotidyltransferase activity hydrolase activity hydrolase activity, acting on ester bonds ligase activity ligase activity, forming phosphoric ester bonds endoribonuclease activity, producing 5'-phosphomonoesters endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters heterocycle biosynthetic process aromatic compound biosynthetic process aromatic compound catabolic process cellular component assembly DNA strand elongation DNA geometric change DNA duplex unwinding RNA biosynthetic process DNA replication, Okazaki fragment processing DNA polymerase activity RNA polymerase activity cellular macromolecular complex assembly cellular nitrogen compound metabolic process cellular macromolecule biosynthetic process nucleobase-containing compound biosynthetic process nucleobase-containing compound catabolic process pre-replicative complex assembly DNA replication, removal of RNA primer macromolecule metabolic process sequence-specific DNA binding macromolecular complex subunit organization cellular component biogenesis cellular metabolic process primary metabolic process cellular catabolic process cellular biosynthetic process cellular macromolecule metabolic process cellular macromolecule catabolic process cellular nitrogen compound catabolic process cellular nitrogen compound biosynthetic process heterocycle metabolic process heterocycle catabolic process DNA ligation involved in DNA-dependent DNA replication macromolecular complex assembly protein-DNA complex assembly DNA conformation change organic substance metabolic process protein-DNA complex subunit organization cellular component organization or biogenesis DNA biosynthetic process nucleic acid metabolic process nucleic acid phosphodiester bond hydrolysis RNA phosphodiester bond hydrolysis RNA phosphodiester bond hydrolysis, endonucleolytic organic cyclic compound binding organic cyclic compound metabolic process organic cyclic compound catabolic process organic cyclic compound biosynthetic process heterocyclic compound binding organic substance catabolic process organic substance biosynthetic process