@prefix : . @prefix owl: . @prefix rdf: . @prefix xml: . @prefix xsd: . @prefix rdfs: . @base . rdf:type owl:Ontology . # MWO 3.0.2 reading of Pattern 5 "Resource description" (https://ise-fizkarlsruhe.github.io/mwo/docs/patterns/). # The figure was drawn against MWO 3.0.0. Every term below was checked against the 3.0.2 release; domains, ranges and # characteristics are 3.0.2's own and none is narrowed to the classes the figure draws. # Edges of the figure (tail --property--> head); nine of nineteen are carried: # resource --denoted by--> title obo:IAO_0000235 (the figure's 'Title/Identifier' box) # title --denoted by--> abbreviation textual entity obo:IAO_0000235 # resource --denoted by--> document obo:IAO_0000235; document is obo:IAO_0000310 (nfdi:NFDI_0000022 in 3.0.0) # resource --denoted by--> document part obo:IAO_0000235 # resource --denoted by--> symbol obo:IAO_0000235 # resource --denoted by--> textual entity obo:IAO_0000235 # resource --denoted by--> website obo:IAO_0000235 # resource --denoted by--> data portal obo:IAO_0000235 # document --has part--> document part obo:BFO_0000051 (the figure's obo:BFO_0000178 'has continuant part' is not in 3.0.2) # NOT carried, absent from MWO 3.0.1 and 3.0.2 (all of them nfdicore properties, 3.0.0 IRI in brackets): # has subject area (nfdi:NFDI_0000211) has data set (nfdi:NFDI_0000125) has specification (nfdi:NFDI_0000204) # has file format (nfdi:NFDI_0000132) has programming language (nfdi:NFDI_0000187) has technology (nfdi:NFDI_0000216) # has software (nfdi:NFDI_0000199) has standard (nfdi:NFDI_0000207) has external identifier (nfdi:NFDI_0001006) # has license (nfdi:NFDI_0000142) # nfdi:NFDI_0000226 'is subject of', which these properties specialised in 3.0.0, survives and declares no domain or range; the # MatWerk software tab uses it for runtime environment and documentation. The figure does not draw it, so no edge is carried through it. # The figure's 'NFDI resource' hub (nfdi:NFDI_0000001) is deprecated in 3.0.2 with no replacement, so it is not declared here; # the domain of denoted by is obo:BFO_0000001, so any entity can be the resource. # nfdicore:Software is deprecated in favour of obo:IAO_0000010, which is declared here for the worked example. ################################################################# # 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_0000051 rdf:type owl:ObjectProperty , owl:TransitiveProperty ; "my body has part my brain (continuant parthood, two material entities)"@en , "my stomach has part my stomach cavity (continuant parthood, material entity has part immaterial entity)"@en , "this year has part this day (occurrent parthood)"@en ; "a core relation that holds between a whole and its part"@en ; "Everything has itself as a part. Any part of any part of a thing is itself part of that thing. Two distinct things cannot have each other as a part."@en , "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/"@en , """Parthood requires the part and the whole to have compatible classes: only an occurrent have an occurrent as part; only a process can have a process as part; only a continuant can have a continuant as part; only an independent continuant can have an independent continuant as part; only a specifically dependent continuant can have a specifically dependent continuant as part; only a generically dependent continuant can have a generically dependent continuant as part. (This list is not exhaustive.) A continuant cannot have an occurrent as part: use 'participates in'. An occurrent cannot have a continuant as part: use 'has participant'. An immaterial entity cannot have a material entity as part: use 'location of'. An independent continuant cannot have a specifically dependent continuant as part: use 'bearer of'. A specifically dependent continuant cannot have an independent continuant as part: use 'inheres in'."""@en ; rdfs:label "has part"@en . ### http://purl.obolibrary.org/obo/IAO_0000136 rdf:type owl:ObjectProperty ; owl:inverseOf ; rdfs:domain ; "This document is about information artifacts and their representations"@en ; "A (currently) primitive relation that relates an information artifact to an entity."@en ; """7/6/2009 Alan Ruttenberg. Following discussion with Jonathan Rees, and introduction of \"mentions\" relation. Weaken the is_about relationship to be primitive. We will try to build it back up by elaborating the various subproperties that are more precisely defined. Some currently missing phenomena that should be considered \"about\" are predications - \"The only person who knows the answer is sitting beside me\" , Allegory, Satire, and other literary forms that can be topical without explicitly mentioning the topic."""@en ; rdfs:label "is about"@en . ### http://purl.obolibrary.org/obo/IAO_0000235 rdf:type owl:ObjectProperty ; rdfs:subPropertyOf ; rdfs:domain ; rdfs:range ; "inverse of the relation 'denotes'"@en ; rdfs:label "denoted by"@en . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0000226 rdf:type owl:ObjectProperty ; rdfs:label "is subject of"@en ; "inverse of the relation 'is about'" . ################################################################# # Data properties ################################################################# ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0001007 rdf:type owl:DatatypeProperty ; rdfs:label "has value"@en ; "A relation between an information content entity and its specific value."@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 ; "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_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_0000010 rdf:type owl:Class ; rdfs:subClassOf ; """Software is a plan specification composed of a series of instructions that can be interpreted by or directly executed by a processing unit."""@en ; "see sourceforge tracker discussion at http://sourceforge.net/tracker/index.php?func=detail&aid=1958818&group_id=177891&atid=886178"@en ; rdfs:label "software"@en . ### http://purl.obolibrary.org/obo/IAO_0000028 rdf:type owl:Class ; rdfs:subClassOf ; "a serial number such as \"12324X\""@en , "a stop sign"@en , "a written proper name such as \"OBI\""@en ; "An information content entity that is a mark(s) or character(s) used as a conventional representation of another entity."@en ; "20091104, MC: this needs work and will most probably change"@en , "2014-03-31: We would like to have a deeper analysis of 'mark' and 'sign' in the future (see https://github.com/information-artifact-ontology/IAO/issues/154)."@en ; rdfs:label "symbol"@en . ### http://purl.obolibrary.org/obo/IAO_0000030 rdf:type owl:Class ; rdfs:subClassOf , [ rdf:type owl:Restriction ; owl:onProperty ; owl:someValuesFrom ] ; "Examples of information content entites include journal articles, data, graphical layouts, and graphs." , "Examples of information content entites include journal articles, data, graphical layouts, and graphs."@en ; "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 , "Pier: 'data, information or knowledge'. OR 'representation'"@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" , "information content entity"@en . ### http://purl.obolibrary.org/obo/IAO_0000033 rdf:type owl:Class ; rdfs:subClassOf ; "An information content entity whose concretizations indicate to their bearer how to realize them in a process."@en ; "2009-03-16: provenance: a term realizable information entity was proposed for OBI (OBI_0000337) , edited by the PlanAndPlannedProcess branch. Original definition was \"is the specification of a process that can be concretized and realized by an actor\" with alternative term \"instruction\".It has been subsequently moved to IAO where the objective for which the original term was defined was satisfied with the definitionof this, different, term."@en , "2013-05-30 Alan Ruttenberg: What differentiates a directive information entity from an information concretization is that it can have concretizations that are either qualities or realizable entities. The concretizations that are realizable entities are created when an individual chooses to take up the direction, i.e. has the intention to (try to) realize it."@en , "8/6/2009 Alan Ruttenberg: Changed label from \"information entity about a realizable\" after discussions at ICBO"@en , "Werner pushed back on calling it realizable information entity as it isn't realizable. However this name isn't right either. An example would be a recipe. The realizable entity would be a plan, but the information entity isn't about the plan, it, once concretized, *is* the plan. -Alan"@en ; rdfs:label "directive information entity"@en . ### http://purl.obolibrary.org/obo/IAO_0000098 rdf:type owl:Class ; rdfs:subClassOf ; """A data format specification is the information content borne by the document published defining the specification. Example: The ISO document specifying what encompasses an XML document; The instructions in a XSD file"""@en ; """2009-03-16: provenance: term imported from OBI_0000187, which had original definition \"A data format specification is a plan which organizes information. Example: The ISO document specifying what encompasses an XML document; The instructions in a XSD file\""""@en ; rdfs:label "data format specification"@en . ### http://purl.obolibrary.org/obo/IAO_0000104 rdf:type owl:Class ; rdfs:subClassOf ; "PMID: 18323827.Nat Med. 2008 Mar;14(3):226.New plan proposed to help resolve conflicting medical advice."@en ; "A directive information entity with action specifications and objective specifications as parts, and that may be concretized as a realizable entity that, if realized, is realized in a process in which the bearer tries to achieve the objectives by taking the actions specified."@en ; "2009-03-16: provenance: a term a plan was proposed for OBI (OBI_0000344) , edited by the PlanAndPlannedProcess branch. Original definition was \" a plan is a specification of a process that is realized by an actor to achieve the objective specified as part of the plan\". It has been subsequently moved to IAO where the objective for which the original term was defined was satisfied with the definitionof this, different, term."@en , "2014-03-31: A plan specification can have other parts, such as conditional specifications."@en , "2022-01-16 Updated definition to that proposed by Clint Dowloand, IAO Issue 231."@en , "Alternative previous definition: a plan is a set of instructions that specify how an objective should be achieved"@en ; rdfs:label "plan specification"@en . ### http://purl.obolibrary.org/obo/IAO_0000129 rdf:type owl:Class ; rdfs:subClassOf ; "A version number is an information content entity which is a sequence of characters borne by part of each of a class of manufactured products or its packaging and indicates its order within a set of other products having the same name."@en ; "Note: we feel that at the moment we are happy with a general version number, and that we will subclass as needed in the future. For example, see 7. genome sequence version"@en ; rdfs:label "version number"@en . ### http://purl.obolibrary.org/obo/IAO_0000300 rdf:type owl:Class ; rdfs:subClassOf ; "Words, sentences, paragraphs, and the written (non-figure) parts of publications are all textual entities"@en ; "A textual entity is a part of a manifestation (FRBR sense), a generically dependent continuant whose concretizations are patterns of glyphs intended to be interpreted as words, formulas, etc."@en ; "AR, (IAO call 2009-09-01): a document as a whole is not typically a textual entity, because it has pictures in it - rather there are parts of it that are textual entities. Examples: The title, paragraph 2 sentence 7, etc."@en , "MC, 2009-09-14 (following IAO call 2009-09-01): textual entities live at the FRBR (http://en.wikipedia.org/wiki/Functional_Requirements_for_Bibliographic_Records) manifestation level. Everything is significant: line break, pdf and html versions of same document are different textual entities."@en ; rdfs:label "textual entity"@en . ### http://purl.obolibrary.org/obo/IAO_0000310 rdf:type owl:Class ; rdfs:subClassOf ; "A journal article, patent application, laboratory notebook, or a book"@en ; "A collection of information content entities intended to be understood together as a whole"@en ; rdfs:label "document"@en . ### 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_0000605 rdf:type owl:Class ; rdfs:subClassOf ; """From Shiba et al. Acta Neuropathol Commun. 2013; 1: 45. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3893467/): BAC: Bacterial artificial chromosome; CR: Calretinin; GFAP: Glial fibrillary acidic protein; MAP: Microtubule-associated protein; MRI: Magnetic resonance imaging; NSC: Neural stem cell; PDA: Patent ductus arteriosus; PMG: Polymicrogyria; PNH: Periventricular nodular heterotopia; VSD: Ventricular septal defect."""@en ; "A textual entity listing abbreviations and their expansions that are used in a document."@en ; rdfs:label "abbreviation textual entity"@en . ### http://purl.obolibrary.org/obo/IAO_0000629 rdf:type owl:Class ; rdfs:subClassOf ; """From: Fu and Lin. Identification of gene-oriented exon orthology between human and mouse. BMC Genomics. 2012; 13(Suppl 1): S10. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3303729/): Exon orthology; alternative splicing; exon duplication; intron-exon structure."""@en ; "A textual entity listing keywords indicating the major theme(s) of a document."@en ; rdfs:label "keyword textual entity"@en . ### http://purl.obolibrary.org/obo/IAO_0000642 rdf:type owl:Class ; rdfs:subClassOf ; """From Qi et al. BMC Bioinformatics. 2014; 15: 11. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897912/): • Operating systems: Platform independent • Programming language: Matlab, R, Python • Other requirements: None • License: GNU GPL v3 • Any restrictions to use by non-academics: None"""@en ; "A textual entity that expresses the requirements necessary to use a resource, e.g. software."@en ; rdfs:label "requirements textual entity"@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://www.ebi.ac.uk/swo/SWO_0000002 rdf:type owl:Class ; rdfs:subClassOf ; "A licence is a legal instrument (usually by way of contract law, with or without printed material) governing the use or redistribution of the resource containing the licence." ; rdfs:label "licence"@en , "software license" . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0000030 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "source code repository"@en ; "A document that organizes and stores source code files, associated metadata, and version history to facilitate the management, sharing, and collaborative development of software projects. It serves as a structured collection of information that tracks changes, maintains integrity, and supports workflows such as version control, branching, and merging." . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0000100 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "academic discipline"@en ; "An information content entity that specifies the subject area, domain or academic discipline of an entity. An academic discipline, a research field or domain of an entity, e.g. a domain of a data portal or a field of study of a person."@en . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0000123 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "data portal"@en ; "A website that serves as a centralized platform for accessing, managing, and sharing datasets, information, or resources related to a specific topic, theme, or domain."@en . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0000145 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "media type"@en ; "A directive information entity that describes a media type a bearer has."@en . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0000206 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "standard"@en ; "A specification that establishes a set of guidelines, criteria, or norms recognized and adopted by internationational community."@en . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0000223 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "website"@en ; "An information content entity that represents a collection of interconnected web pages, multimedia content, and digital resources accessible via the World Wide Web."@en . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0001001 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "citation"@en ; "A textual entity intended to identify a particular publication." . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0001017 rdf:type owl:Class ; rdfs:label "export format specification"@en ; "A directive information entity that defines the structural, syntactic, and encoding rules for representing data when it is exported from a system."@en . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0001018 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "textual description"@en ; "A textual entity that describe some resource."@en . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0001019 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "title"@en ; "A textual entity that denotes some resource."@en . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0001029 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "document part"@en ; "An information content entity that is part of a document." . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0001037 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "digital object identifier"@en ; "A Digital Object Identifier (DOI) is a centrally registered identifier that provides a unique, persistent reference to digital objects such as publications, datasets, and software, ensuring reliable access and citation." . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0001102 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "affiliation"@en ; "An affiliation is a textual entity that specifies the organizational or institutional association of an individual, group, or entity, typically used in academic, professional, or research contexts." . ### https://nfdi.fiz-karlsruhe.de/ontology/NFDI_0001210 rdf:type owl:Class ; rdfs:subClassOf ; rdfs:label "software repository"@en ; "A Software Repository is a data portal designed to store, manage, and distribute software packages, source code, and related documentation for research, development, and deployment purposes." . ### Generated by the OWL API (version 4.5.9.2019-02-01T07:24:44Z) https://github.com/owlcs/owlapi