@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/IAO_0000235 rdf:type owl:ObjectProperty ; rdfs:domain ; rdfs:range ; "inverse of the relation 'denotes'"@en ; rdfs:label "denoted by"@en . ### http://purl.obolibrary.org/obo/RO_0000056 rdf:type owl:ObjectProperty ; rdfs:domain ; rdfs:range ; "this blood clot participates in this blood coagulation"@en , "this input material (or this output material) participates in this process"@en , "this investigator participates in this investigation"@en ; "a relation between a continuant and a process, in which the continuant is somehow involved in the process"@en ; rdfs:label "participates in"@en . ### http://purl.obolibrary.org/obo/RO_0002350 rdf:type owl:ObjectProperty ; "An organism that is a member of a population of organisms" ; "is member of is a mereological relation between a item and a collection." ; rdfs:label "member of"@en . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0001006 rdf:type owl:ObjectProperty ; rdfs:subPropertyOf ; rdfs:range ; rdfs:label "has external identifier"@en ; "The property relates a thing to the corresponding entry or related concept of the item in a central register, e.g. GND, VIAF, RISM, Wikidata or ROR."@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_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_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/IAO_0000030 rdf:type owl:Class ; rdfs:subClassOf ; "Examples of information content entites include journal articles, data, graphical layouts, and graphs."@en , "Examples of information content entites include journal articles, data, graphical layouts, and graphs." ; "A generically dependent continuant that is about some thing."@en , "An information content entity is an entity that is generically dependent on some artifact and stands in relation of aboutness to some entity." ; "2014-03-10: The use of \"thing\" is intended to be general enough to include universals and configurations (see https://groups.google.com/d/msg/information-ontology/GBxvYZCk1oc/-L6B5fSBBTQJ)."@en , """information_content_entity 'is_encoded_in' some digital_entity in obi before split (040907). information_content_entity 'is_encoded_in' some physical_document in obi before split (040907). Previous. An information content entity is a non-realizable information entity that 'is encoded in' some digital or physical entity."""@en ; rdfs:label "information content entity"@en , "information content entity" . ### http://purl.obolibrary.org/obo/IAO_0000578 rdf:type owl:Class ; rdfs:subClassOf ; "The sentence \"The article has Pubmed ID 12345.\" contains a CRID that has two parts: one part is the CRID symbol, which is '12345'; the other part denotes the CRID registry, which is Pubmed."@en ; "An information content entity that consists of a CRID symbol and additional information about the CRID registry to which it belongs."@en ; "2014-05-05: In defining this term we take no position on what the CRID denotes. In particular do not assume it denotes a *record* in the CRID registry (since the registry might not have 'records')."@en , "Alan, IAO call 20101124: potentially the CRID denotes the instance it was associated with during creation."@en , "Note, IAO call 20101124: URIs are not always CRID, as not centrally registered. We acknowledge that CRID is a subset of a larger identifier class, but this subset fulfills our current needs. OBI PURLs are CRID as they are registered with OCLC. UPCs (Universal Product Codes from AC Nielsen)are not CRID as they are not centrally registered."@en ; rdfs:label "centrally registered identifier"@en . ### http://purl.obolibrary.org/obo/IAO_0000708 rdf:type owl:Class ; rdfs:subClassOf ; "A centrally registered identifier that is issued by ORCID (https://orcid.org/) and used to persistantly identify oneself as a human researcher or contributor." ; "\"You can connect your iD with your professional information — affiliations, grants, publications, peer review, and more. You can use your iD to share your information with other systems, ensuring you get recognition for all your contributions, saving you time and hassle, and reducing the risk of errors.\" [https://orcid.org/]" , "This class was originally defined in Apollo_SV (http://purl.obolibrary.org/obo/APOLLO_SV_00000496) but due to it being more in scope of IAO, it was decided to add it to IAO and deprecate its Apollo_SV equivalent. (2022-10-25)" ; rdfs:label "ORCID identifier"@en . ### http://purl.obolibrary.org/obo/IAO_0020000 rdf:type owl:Class ; rdfs:subClassOf ; "An information content entity that is the outcome of a dubbing process and is used to refer to one instance of entity shared by a group of people to refer to that individual entity."@en ; rdfs:label "identifier"@en . ### http://purl.obolibrary.org/obo/IAO_0020015 rdf:type owl:Class ; rdfs:subClassOf ; "An identifier referring to an individual entity that is ascribed personhood by the user of the identifier."@en ; rdfs:label "personal name"@en . ### http://purl.obolibrary.org/obo/IAO_0020016 rdf:type owl:Class ; rdfs:subClassOf ; "A personal name that specifies and differentiates between members of a group of individuals, especially in a family, all of whose members usually share the same family name (surname). A given name is purposefully given, usually by a child's parents at or near birth, in contrast to an inherited one such as a family name"@en ; rdfs:label "given name"@en . ### http://purl.obolibrary.org/obo/IAO_0020017 rdf:type owl:Class ; rdfs:subClassOf ; "An identifier that is typically a part of a person's name which has been passed, according to law or custom, from one or both parents to their children."@en ; rdfs:label "family name"@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_0000002 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "project"@en ; "A process of a scientific or business endeavor that aims to conclude an investigation or to answer a research question."@en . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0000004 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "person"@en ; "An object that represents a single human individual."@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 . ### Generated by the OWL API (version 4.5.9.2019-02-01T07:24:44Z) https://github.com/owlcs/owlapi