Term IRI Term label Parent term IRI Parent term label Alternative term Definition http://purl.obolibrary.org/obo/RO_0000052 characteristic of http://purl.obolibrary.org/obo/RO_0002314 characteristic of part of inheres_in a relation between a specifically dependent continuant (the characteristic) and any other entity (the bearer), in which the characteristic depends on the bearer for its existence. http://purl.obolibrary.org/obo/RO_0000080 quality of http://purl.obolibrary.org/obo/RO_0000052 characteristic of quality_of a relation between a quality and an independent continuant (the bearer), in which the quality specifically depends on the bearer for its existence http://purl.obolibrary.org/obo/RO_0000086 has_quality http://purl.obolibrary.org/obo/RO_0000053 bearer_of has_quality a relation between an independent continuant (the bearer) and a quality, in which the quality specifically depends on the bearer for its existence http://purl.obolibrary.org/obo/BFO_0000051 has_part http://purl.obolibrary.org/obo/RO_0002131 overlaps has_part a core relation that holds between a whole and its part http://purl.obolibrary.org/obo/BFO_0000050 part_of http://purl.obolibrary.org/obo/RO_0002131 overlaps part_of For continuants: C part_of C' if and only if: given any c that instantiates C at a time t, there is some c' such that c' instantiates C' at time t, and c *part_of* c' at t. For processes: P part_of P' if and only if: given any p that instantiates P at a time t, there is some p' such that p' instantiates P' at time t, and p *part_of* p' at t. (Here *part_of* is the instance-level part-relation.) http://purl.obolibrary.org/obo/RO_0002314 characteristic of part of http://purl.obolibrary.org/obo/RO_0002502 depends on inheres in part of q characteristic of part of w if and only if there exists some p such that q inheres in p and p part of w. http://purl.obolibrary.org/obo/RO_0002151 partially overlaps http://purl.obolibrary.org/obo/RO_0002131 overlaps proper overlaps x partially overlaps y iff there exists some z such that z is part of x and z is part of y, and it is also the case that neither x is part of y or y is part of x http://purl.obolibrary.org/obo/RO_0004027 disease has inflammation site http://www.ebi.ac.uk/efo/EFO_0000784 has_disease_location A relationship between a disease and an anatomical entity where the disease is triggered by an inflammatory response to stimuli occurring in the anatomical entity http://purl.obolibrary.org/obo#has_role has_role http://purl.obolibrary.org/obo/RO_0000053 bearer_of A relation between a continuant C and a role R. The reciprocal relation of role_of. http://purl.obolibrary.org/obo/OBI_0000293 has_input http://purl.obolibrary.org/obo/RO_0000057 has_participant The inverse property of is specified input of http://purl.obolibrary.org/obo/OBI_0000295 is_input_of http://purl.obolibrary.org/obo/RO_0000056 participates_in A relation between a completely executed planned process and a continuant participating in that process that is not created during the process. The presence of the continuant during the process is explicitly specified in the plan specification which the process realizes the concretization of. http://purl.obolibrary.org/obo/OBI_0000299 has specified output http://purl.obolibrary.org/obo/RO_0000057 has_participant The inverse property of is specified output of http://purl.obolibrary.org/obo/RO_0020337 has_constituent_monomer http://purl.obolibrary.org/obo/RO_0002180 has_component A relation that holds between a polymer and its constituent monomers. P has_constituent_monomer c if and only if P has_component multiple instances of c and each instance of c is covalently attached to another instance of c. http://purl.obolibrary.org/obo/RO_0020339 non-covalently_bound_to http://purl.obolibrary.org/obo/RO_0002436 molecularly_interacts_with A relation that holds between two distinct chemical entities that are held in close proximity to each other specifically via the force of non-covalent interactions. Such entities will colocalize at all times of the interaction. http://purl.obolibrary.org/obo/RO_0002131 overlaps http://purl.obolibrary.org/obo/RO_0002323 mereotopologically related to A overlaps B if they share some part in common. http://purl.obolibrary.org/obo/pr#has_gene_template has_gene_template http://purl.obolibrary.org/obo/RO_0002330 genomically_related_to See document https://docs.google.com/document/d/15iVMtMyYbQSlvUDgn2XUaDzpwkB0USZI for full definition. http://purl.obolibrary.org/obo/RO_0002473 composed primarily of http://purl.obolibrary.org/obo/BFO_0000051 has_part x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y. http://purl.obolibrary.org/obo/RO_0001018 contained_in http://purl.obolibrary.org/obo/RO_0000053 bearer_of Containment obtains in each case between material and immaterial continuants, for instance: lung contained_in thoracic cavity; bladder contained_in pelvic cavity. Hence containment is not a transitive relation. If c part_of c1 at t then we have also, by our definition and by the axioms of mereology applied to spatial regions, c located_in c1 at t. Thus, many examples of instance-level location relations for continuants are in fact cases of instance-level parthood. For material continuants location and parthood coincide. Containment is location not involving parthood, and arises only where some immaterial continuant is involved. To understand this relation, we first define overlap for continuants as follows: c1 overlap c2 at t =def for some c, c part_of c1 at t and c part_of c2 at t. http://www.ebi.ac.uk/efo/EFO_0000741 has_tumor_type http://www.ebi.ac.uk/efo/EFO_0000824 relationship http://www.ebi.ac.uk/efo/EFO_0000742 is_tumor_of http://www.ebi.ac.uk/efo/EFO_0000824 relationship http://www.ebi.ac.uk/efo/EFO_0000794 is_broader_than http://www.ebi.ac.uk/efo/EFO_0000824 relationship http://www.ebi.ac.uk/efo/EFO_0001697 is_unit_of http://www.ebi.ac.uk/efo/EFO_0000824 relationship http://www.ebi.ac.uk/efo/EFO_0001698 has_unit http://www.ebi.ac.uk/efo/EFO_0000824 relationship http://purl.obolibrary.org/obo/RO_0000081 role_of http://purl.obolibrary.org/obo/RO_0000052 characteristic of http://purl.obolibrary.org/obo/HANCESTRO_0301 hasAncestryStatus http://purl.obolibrary.org/obo/RO_0000086 has_quality http://www.ebi.ac.uk/efo/EFO_0000785 is_location_of_disease http://purl.obolibrary.org/obo/RO_0001015 location_of http://www.ebi.ac.uk/efo/EFO_0000784 has_disease_location http://purl.obolibrary.org/obo/RO_0001025 located_in http://purl.obolibrary.org/obo/RO_0002180 has_component http://purl.obolibrary.org/obo/BFO_0000051 has_part http://purl.obolibrary.org/obo/RO_0004009 has primary input http://purl.obolibrary.org/obo/RO_0002233 has input http://purl.obolibrary.org/obo/OBI_0000300 obsolete_is_realized_by is_realized_as Relation between a realizable and a process. Reciprocal relation of realizes [GOC:cjm] http://purl.obolibrary.org/obo/OBI_0000308 obsolete_realizes is_realization_of Relation between a process and a function, where the unfolding of the process requires the execution of the function. Class level: P realizes F iff: given any p that instantiates P, there exists some f, t such that f instantiates F at t and p *realizes* f. Here, *realizes* is the primitive instance level relation [GOC:cjm] http://purl.obolibrary.org/obo/RO_0000053 has characteristic is bearer of A relation between an entity and a dependent continuant; the reciprocal relation of inheres_in [GOC:cjm] example of usage: red eye bearer_of redness http://purl.obolibrary.org/obo/RO_0004029 disease has feature A relationship between a disease and some feature of that disease, where the feature is either a phenotype or an isolated disease. http://purl.obolibrary.org/obo/RO_0002160 only_in_taxon S only_in_taxon T iff: S SubClassOf in_taxon only T http://purl.org/oban/frequency_of_association frequency_of_association The frequency with which a given association between two biological entities occurs. Typically expressed as a string e.g. 'very frequent', 'occasional'. http://purl.obolibrary.org/obo/BFO_0000055 realizes Paraphrase of elucidation: a relation between a process and a realizable entity, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process http://purl.obolibrary.org/obo/RO_0000056 participates_in Participates in is a primitive instance-level relation between a continuant and a process in which it participates. For example a scanner participates in a scanning process at some specific time. http://purl.obolibrary.org/obo/RO_0000057 has_participant Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the A continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time. http://purl.obolibrary.org/obo/RO_0001000 derives_from Derivation as a relation between instances. The temporal relation of derivation is more complex. Transformation, on the instance level, is just the relation of identity: each adult is identical to some child existing at some earlier time. Derivation on the instance-level is a relation holding between non-identicals. More precisely, it holds between distinct material continuants when one succeeds the other across a temporal divide in such a way that at least a biologically significant portion of the matter of the earlier continuant is inherited by the later. Thus we will have axioms to the effect that from c derives_from c1 we can infer that c and c1 are not identical and that there is some instant of time t such that c1 exists only prior to and c only subsequent to t. We will also be able to infer that the spatial region occupied by c as it begins to exist at t overlaps with the spatial region occupied by c1 as it ceases to exist in the same instant. http://purl.obolibrary.org/obo/RO_0002200 has phenotype A relationship that holds between a biological entity and a phenotype. Here a phenotype is construed broadly as any kind of quality of an organism part, a collection of these qualities, or a change in quality or qualities (e.g. abnormally increased temperature). The subject of this relationship can be an organism (where the organism has the phenotype, i.e. the qualities inhere in parts of this organism), a genomic entity such as a gene or genotype (if modifications of the gene or the genotype causes the phenotype), or a condition such as a disease (such that if the condition inheres in an organism, then the organism has the phenotype). http://purl.obolibrary.org/obo/RO_0003000 produces a produces b if some process that occurs_in a has_output b, where a and b are material entities. Examples: hybridoma cell line produces monoclonal antibody reagent; chondroblast produces avascular GAG-rich matrix. http://purl.obolibrary.org/obo/pr#lacks_part lacks_part A negation of the has_part relation. http://purl.obolibrary.org/obo/RO_0002233 has input p has input c iff: p is a process, c is a material entity, c is a participant in p, c is present at the start of p, and the state of c is modified during p. http://purl.obolibrary.org/obo/RO_0002323 mereotopologically related to A mereological relationship or a topological relationship http://www.ebi.ac.uk/efo/has_flag has_flag Relation to flag that an EFO class qualifies as an Atlas validation type http://purl.obolibrary.org/obo/mondo#disease_has_basis_in_development_of disease_has_basis_in_development_of http://purl.obolibrary.org/obo/mondo#predisposes_towards predisposes towards http://purl.obolibrary.org/obo/RO_0002162 in taxon http://purl.obolibrary.org/obo/bto#develops_from derives from/develops from http://purl.obolibrary.org/obo/bto#related_to related to http://www.ebi.ac.uk/efo/EFO_0000824 relationship http://www.ebi.ac.uk/efo/EFO_0005515 has_p-value http://www.ebi.ac.uk/efo/EFO_0005516 has_t-statistic http://www.ebi.ac.uk/efo/EFO_0006351 has_about_it http://www.ebi.ac.uk/efo/is_executed_in is_executed_in http://purl.obolibrary.org/obo/RO_0004020 disease has basis in dysfunction of http://purl.obolibrary.org/obo/RO_0004022 disease arises from feature http://purl.obolibrary.org/obo/RO_0004024 disease disrupts http://purl.obolibrary.org/obo/RO_0004025 disease causes dysfunction of http://purl.obolibrary.org/obo/BFO_0000054 realized in http://purl.obolibrary.org/obo/IAO_0000136 is_about http://purl.obolibrary.org/obo/RO_0001001 derives_into http://purl.obolibrary.org/obo/RO_0001015 location_of http://purl.obolibrary.org/obo/RO_0001025 located_in http://purl.obolibrary.org/obo/RO_0002202 develops_from http://purl.obolibrary.org/obo/RO_0002451 transmitted by http://purl.obolibrary.org/obo/mondo#disease_has_major_feature disease has major feature http://purl.obolibrary.org/obo/mondo#disease_shares_features_of disease shares features of http://purl.obolibrary.org/obo/mondo#part_of_progression_of_disease part of progression of disease http://purl.obolibrary.org/obo/HANCESTRO_0308 hasCountryOfOrigin http://purl.obolibrary.org/obo/HANCESTRO_0329 hasDemonym http://purl.obolibrary.org/obo/HANCESTRO_0330 isDemonymOf http://purl.obolibrary.org/obo/RO_0002436 molecularly_interacts_with http://purl.obolibrary.org/obo/RO_0002573 has modifier http://purl.obolibrary.org/obo/MONDO_0100333 disease caused by reactivation of latent infectious agent http://purl.obolibrary.org/obo/mondo#has_onset_before has_onset_before http://purl.obolibrary.org/obo/mondo#has_onset_during_or_after has_onset_during_or_after http://purl.obolibrary.org/obo/AfPO_0000447 Population_group http://purl.obolibrary.org/obo/BFO_0000066 occurs in http://purl.obolibrary.org/obo/RO_0002211 regulates http://purl.obolibrary.org/obo/RO_0002353 output_of http://purl.obolibrary.org/obo/RO_0002502 depends on http://purl.obolibrary.org/obo/RO_0002104 has_plasma_membrane_part http://purl.obolibrary.org/obo/RO_0002215 capable_of http://purl.obolibrary.org/obo/RO_0002330 genomically_related_to http://purl.obolibrary.org/obo/RO_0002503 towards http://purl.obolibrary.org/obo/mondo#disease_has_basis_in_accumulation_of disease has basis in accumulation of http://purl.obolibrary.org/obo/mondo#disease_responds_to disease responds to http://purl.obolibrary.org/obo/RO_0001019 contains http://purl.obolibrary.org/obo/RO_0002201 phenotype of http://purl.obolibrary.org/obo/RO_0004026 disease has location http://purl.obolibrary.org/obo/MONDO_0100332 disease has primary infectious agent