@prefix : . @prefix owl: . @prefix rdf: . @prefix xml: . @prefix xsd: . @prefix rdfs: . @base . rdf:type owl:Ontology . ################################################################# # Annotation properties ################################################################# ### http://purl.obolibrary.org/obo/IAO_0000112 rdf:type owl:AnnotationProperty . ### http://purl.obolibrary.org/obo/IAO_0000115 rdf:type owl:AnnotationProperty . ### http://purl.obolibrary.org/obo/IAO_0000116 rdf:type owl:AnnotationProperty . ### http://www.w3.org/2004/02/skos/core#definition rdf:type owl:AnnotationProperty . ################################################################# # Object Properties ################################################################# ### http://purl.obolibrary.org/obo/BFO_0000054 rdf:type owl:ObjectProperty ; owl:inverseOf ; rdfs:domain ; rdfs:range ; rdfs:label "has realization"@en ; "b has realization c =Def c realizes b"@en . ### http://purl.obolibrary.org/obo/BFO_0000055 rdf:type owl:ObjectProperty ; rdfs:domain ; rdfs:range ; rdfs:label "realizes"@en ; "(Elucidation) realizes is a relation between a process b and realizable entity c such that c inheres in some d & for all t, if b has participant d then c exists & the type instantiated by b is correlated with the type instantiated by c"@en . ### http://purl.obolibrary.org/obo/BFO_0000197 rdf:type owl:ObjectProperty ; rdfs:domain ; rdfs:range [ owl:intersectionOf ( [ rdf:type owl:Class ; owl:complementOf ] ) ; rdf:type owl:Class ] ; rdfs:label "inheres in"@en ; "b inheres in c =Def b is a specifically dependent continuant & c is an independent continuant that is not a spatial region & b specifically depends on c"@en . ### http://purl.obolibrary.org/obo/BFO_0000199 rdf:type owl:ObjectProperty , owl:FunctionalProperty ; rdfs:domain [ rdf:type owl:Class ; owl:unionOf ( ) ] ; rdfs:range ; rdfs:label "occupies temporal region"@en ; "p occupies temporal region t =Def p is a process or process boundary & the spatiotemporal region occupied by p temporally projects onto t"@en . ### http://purl.obolibrary.org/obo/RO_0000057 rdf:type owl:ObjectProperty ; rdfs:domain ; rdfs:range ; "this blood coagulation has participant this blood clot"@en , "this investigation has participant this investigator"@en , "this process has participant this input material (or this output material)"@en ; "a relation between a process and a continuant, in which the continuant is somehow involved in the process"@en ; "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the 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."@en ; rdfs:label "has participant"@en . ### http://purl.obolibrary.org/obo/RO_0000059 rdf:type owl:ObjectProperty ; rdfs:domain [ rdf:type owl:Class ; owl:unionOf ( ) ] ; rdfs:range ; "A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The quality (a specifically dependent continuant) concretizes the journal article (a generically dependent continuant), and both depend on that copy of the printed journal (an independent continuant)."@en , "An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process)."@en ; "A relationship between a specifically dependent continuant or process and a generically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant or process also depends on that same independent continuant. Multiple specifically dependent continuants or processes can concretize the same generically dependent continuant."@en ; rdfs:label "concretizes"@en . ################################################################# # Classes ################################################################# ### http://purl.obolibrary.org/obo/BFO_0000001 rdf:type owl:Class ; "Julius Caesar"@en , "Verdi’s Requiem"@en , "the Second World War"@en , "your body mass index"@en ; "BFO 2 Reference: In all areas of empirical inquiry we encounter general terms of two sorts. First are general terms which refer to universals or types:animaltuberculosissurgical procedurediseaseSecond, are general terms used to refer to groups of entities which instantiate a given universal but do not correspond to the extension of any subuniversal of that universal because there is nothing intrinsic to the entities in question by virtue of which they – and only they – are counted as belonging to the given group. Examples are: animal purchased by the Emperortuberculosis diagnosed on a Wednesdaysurgical procedure performed on a patient from Stockholmperson identified as candidate for clinical trial #2056-555person who is signatory of Form 656-PPVpainting by Leonardo da VinciSuch terms, which represent what are called ‘specializations’ in [81"@en ; rdfs:label "entity"@en ; "(Elucidation) An entity is anything that exists or has existed or will exist"@en . ### http://purl.obolibrary.org/obo/BFO_0000002 rdf:type owl:Class ; rdfs:subClassOf ; owl:disjointWith ; "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts."@en ; "BFO 2 Reference: Continuant entities are entities which can be sliced to yield parts only along the spatial dimension, yielding for example the parts of your table which we call its legs, its top, its nails. ‘My desk stretches from the window to the door. It has spatial parts, and can be sliced (in space) in two. With respect to time, however, a thing is a continuant.’ [60, p. 240"@en ; rdfs:label "continuant"@en ; "(Elucidation) A continuant is an entity that persists, endures, or continues to exist through time while maintaining its identity"@en . ### http://purl.obolibrary.org/obo/BFO_0000003 rdf:type owl:Class ; rdfs:subClassOf ; "An entity that has temporal parts and that happens, unfolds or develops through time."@en ; "BFO 2 Reference: every occurrent that is not a temporal or spatiotemporal region is s-dependent on some independent continuant that is not a spatial region"@en , "BFO 2 Reference: s-dependence obtains between every process and its participants in the sense that, as a matter of necessity, this process could not have existed unless these or those participants existed also. A process may have a succession of participants at different phases of its unfolding. Thus there may be different players on the field at different times during the course of a football game; but the process which is the entire game s-depends_on all of these players nonetheless. Some temporal parts of this process will s-depend_on on only some of the players."@en ; rdfs:label "occurrent"@en ; "(Elucidation) An occurrent is an entity that unfolds itself in time or it is the start or end of such an entity or it is a temporal or spatiotemporal region"@en . ### http://purl.obolibrary.org/obo/BFO_0000004 rdf:type owl:Class ; rdfs:subClassOf ; owl:disjointWith , ; "a chair"@en , "a heart"@en , "a leg"@en , "a molecule"@en , "a spatial region"@en , "an atom"@en , "an orchestra."@en , "an organism"@en , "the bottom right portion of a human torso"@en , "the interior of your mouth"@en ; "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])"@en ; rdfs:label "independent continuant"@en ; "b is an independent continuant =Def b is a continuant & there is no c such that b specifically depends on c or b generically depends on c"@en . ### http://purl.obolibrary.org/obo/BFO_0000006 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "spatial region"@en ; "(Elucidation) A spatial region is a continuant entity that is a continuant part of the spatial projection of a portion of spacetime at a given time"@en . ### http://purl.obolibrary.org/obo/BFO_0000008 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "temporal region"@en ; "(Elucidation) A temporal region is an occurrent over which processes can unfold"@en . ### http://purl.obolibrary.org/obo/BFO_0000015 rdf:type owl:Class ; rdfs:subClassOf ; "a process of cell-division, \\ a beating of the heart"@en , "a process of meiosis"@en , "a process of sleeping"@en , "the course of a disease"@en , "the flight of a bird"@en , "the life of an organism"@en , "your process of aging."@en ; "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])"@en ; "BFO 2 Reference: The realm of occurrents is less pervasively marked by the presence of natural units than is the case in the realm of independent continuants. Thus there is here no counterpart of ‘object’. In BFO 1.0 ‘process’ served as such a counterpart. In BFO 2.0 ‘process’ is, rather, the occurrent counterpart of ‘material entity’. Those natural – as contrasted with engineered, which here means: deliberately executed – units which do exist in the realm of occurrents are typically either parasitic on the existence of natural units on the continuant side, or they are fiat in nature. Thus we can count lives; we can count football games; we can count chemical reactions performed in experiments or in chemical manufacturing. We cannot count the processes taking place, for instance, in an episode of insect mating behavior.Even where natural units are identifiable, for example cycles in a cyclical process such as the beating of a heart or an organism’s sleep/wake cycle, the processes in question form a sequence with no discontinuities (temporal gaps) of the sort that we find for instance where billiard balls or zebrafish or planets are separated by clear spatial gaps. Lives of organisms are process units, but they too unfold in a continuous series from other, prior processes such as fertilization, and they unfold in turn in continuous series of post-life processes such as post-mortem decay. Clear examples of boundaries of processes are almost always of the fiat sort (midnight, a time of death as declared in an operating theater or on a death certificate, the initiation of a state of war)"@en ; rdfs:label "process"@en ; "(Elucidation) p is a process means p is an occurrent that has some temporal proper part and for some time t, p has some material entity as participant"@en . ### http://purl.obolibrary.org/obo/BFO_0000017 rdf:type owl:Class ; rdfs:subClassOf ; "the disposition of this piece of metal to conduct electricity."@en , "the disposition of your blood to coagulate"@en , "the function of your reproductive organs"@en , "the role of being a doctor"@en , "the role of this boundary to delineate where Utah and Colorado meet"@en ; "A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances."@en ; rdfs:label "realizable entity"@en ; "(Elucidation) A realizable entity is a specifically dependent continuant that inheres in some independent continuant which is not a spatial region & which is of a type some instances of which are realized in processes of a correlated type"@en . ### http://purl.obolibrary.org/obo/BFO_0000020 rdf:type owl:Class ; rdfs:subClassOf ; owl:disjointWith ; "Reciprocal specifically dependent continuants: the function of this key to open this lock and the mutually dependent disposition of this lock: to be opened by this key"@en , "of one-sided specifically dependent continuants: the mass of this tomato"@en , "of relational dependent continuants (multiple bearers): John’s love for Mary, the ownership relation between John and this statue, the relation of authority between John and his subordinates."@en , "the disposition of this fish to decay"@en , "the function of this heart: to pump blood"@en , "the mutual dependence of proton donors and acceptors in chemical reactions [79"@en , "the mutual dependence of the role predator and the role prey as played by two organisms in a given interaction"@en , "the pink color of a medium rare piece of grilled filet mignon at its center"@en , "the role of being a doctor"@en , "the shape of this hole."@en , "the smell of this portion of mozzarella"@en ; "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])"@en ; rdfs:label "specifically dependent continuant"@en ; "b is a specifically dependent continuant =Def b is a continuant & there is some independent continuant c which is not a spatial region & which is such that b specifically depends on c"@en . ### http://purl.obolibrary.org/obo/BFO_0000023 rdf:type owl:Class ; rdfs:subClassOf ; "John’s role of husband to Mary is dependent on Mary’s role of wife to John, and both are dependent on the object aggregate comprising John and Mary as member parts joined together through the relational quality of being married."@en , "the priest role"@en , "the role of a boundary to demarcate two neighboring administrative territories"@en , "the role of a building in serving as a military target"@en , "the role of a stone in marking a property boundary"@en , "the role of subject in a clinical trial"@en , "the student role"@en ; "A realizable entity the manifestation of which brings about some result or end that is not essential to a continuant in virtue of the kind of thing that it is but that can be served or participated in by that kind of continuant in some kinds of natural, social or institutional contexts."@en ; "BFO 2 Reference: One major family of examples of non-rigid universals involves roles, and ontologies developed for corresponding administrative purposes may consist entirely of representatives of entities of this sort. Thus ‘professor’, defined as follows,b instance_of professor at t =Def. there is some c, c instance_of professor role & c inheres_in b at t.denotes a non-rigid universal and so also do ‘nurse’, ‘student’, ‘colonel’, ‘taxpayer’, and so forth. (These terms are all, in the jargon of philosophy, phase sortals.) By using role terms in definitions, we can create a BFO conformant treatment of such entities drawing on the fact that, while an instance of professor may be simultaneously an instance of trade union member, no instance of the type professor role is also (at any time) an instance of the type trade union member role (any more than any instance of the type color is at any time an instance of the type length).If an ontology of employment positions should be defined in terms of roles following the above pattern, this enables the ontology to do justice to the fact that individuals instantiate the corresponding universals – professor, sergeant, nurse – only during certain phases in their lives."@en ; rdfs:label "role"@en ; "(Elucidation) A role b is a realizable entity such that b exists because there is some single bearer that is in some special physical, social, or institutional set of circumstances in which this bearer does not have to be & b is not such that, if it ceases to exist, then the physical make-up of the bearer is thereby changed"@en . ### http://purl.obolibrary.org/obo/BFO_0000031 rdf:type owl:Class ; rdfs:subClassOf ; "The entries in your database are patterns instantiated as quality instances in your hard drive. The database itself is an aggregate of such patterns. When you create the database you create a particular instance of the generically dependent continuant type database. Each entry in the database is an instance of the generically dependent continuant type IAO: information content entity."@en , "the pdf file on your laptop, the pdf file that is a copy thereof on my laptop"@en , "the sequence of this protein molecule; the sequence that is a copy thereof in that protein molecule."@en ; "b is a generically dependent continuant = Def. b is a continuant that g-depends_on one or more other entities. (axiom label in BFO2 Reference: [074-001])"@en ; rdfs:label "generically dependent continuant"@en ; "(Elucidation) A generically dependent continuant is an entity that exists in virtue of the fact that there is at least one of what may be multiple copies which is the content or the pattern that multiple copies would share"@en . ### http://purl.obolibrary.org/obo/BFO_0000035 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "process boundary"@en ; "p is a process boundary =Def p is a temporal part of a process & p has no proper temporal parts"@en . ### http://purl.obolibrary.org/obo/BFO_0000141 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "immaterial entity"@en ; "b is an immaterial entity =Def b is an independent continuant which is such that there is no time t when it has a material entity as continuant part"@en . ### http://purl.obolibrary.org/obo/IAO_0000444 rdf:type owl:Class ; rdfs:subClassOf ; "A planned process of making information, such as literature, music, and software etc., available to the public for sale or for free."@en ; rdfs:label "publishing process"@en . ### http://purl.obolibrary.org/obo/OBI_0000245 rdf:type owl:Class ; rdfs:subClassOf ; "PMID: 16353909.AAPS J. 2005 Sep 22;7(2):E274-80. Review. The joint food and agriculture organization of the United Nations/World Health Organization Expert Committee on Food Additives and its role in the evaluation of the safety of veterinary drug residues in foods."@en ; "An entity that can bear roles, has members, and has a set of organization rules. Members of organizations are either organizations themselves or individual people. Members can bear specific organization member roles that are determined in the organization rules. The organization rules also determine how decisions are made on behalf of the organization by the organization members."@en ; """BP: The definition summarizes long email discussions on the OBI developer, roles, biomaterial and denrie branches. It leaves open if an organization is a material entity or a dependent continuant, as no consensus was reached on that. The current placement as material is therefore temporary, in order to move forward with development. Here is the entire email summary, on which the definition is based: 1) there are organization_member_roles (president, treasurer, branch editor), with individual persons as bearers 2) there are organization_roles (employer, owner, vendor, patent holder) 3) an organization has a charter / rules / bylaws, which specify what roles there are, how they should be realized, and how to modify the charter/rules/bylaws themselves. It is debatable what the organization itself is (some kind of dependent continuant or an aggregate of people). This also determines who/what the bearer of organization_roles' are. My personal favorite is still to define organization as a kind of 'legal entity', but thinking it through leads to all kinds of questions that are clearly outside the scope of OBI. Interestingly enough, it does not seem to matter much where we place organization itself, as long as we can subclass it (University, Corporation, Government Agency, Hospital), instantiate it (Affymetrix, NCBI, NIH, ISO, W3C, University of Oklahoma), and have it play roles. This leads to my proposal: We define organization through the statements 1 - 3 above, but without an 'is a' statement for now. We can leave it in its current place in the is_a hierarchy (material entity) or move it up to 'continuant'. We leave further clarifications to BFO, and close this issue for now."""@en ; rdfs:label "organization"@en . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0000102 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "agent"@en ; "An independent continuant that acts autonomously and is entrusted with the authority to represent, negotiate, or act on behalf of another agent."@en . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0000114 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "contact point role"@en ; "A role inherent in an agent that is realized when the agent is a contact point of a resource or a project."@en . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0000118 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "contributor role"@en ; "A role inherent in an agent that provides input, resources, or effort to support or enhance a project, work, or process."@en . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0000193 rdf:type owl:Class ; rdfs:subClassOf , [ owl:intersectionOf ( [ rdf:type owl:Restriction ; owl:onProperty ; owl:someValuesFrom ] ) ; rdf:type owl:Class ] ; rdfs:label "publisher role"@en ; "A role inherent in an agent that is realized when the bearer participates in the publishing of the document."@en . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0000228 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "service product role"@en ; "Role of an immaterial entity that facilitates the delivery or support of a service product, ensuring its proper execution and value realization."@en . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0000229 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "agent role"@en ; "Role of an independent continuant that is realized through an agent's actions, enabling the agent to perform specific functions or achieve particular outcomes within a system or context."@en . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0001058 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "co spokesperson role"@en ; "A role inherent in an agent that is realized when shareing the responsibilities of representing an organization, group, or initiative, typically communicating its views, policies, or findings to the public."@en . ### Generated by the OWL API (version 4.5.9.2019-02-01T07:24:44Z) https://github.com/owlcs/owlapi