@prefix : . @prefix dc: . @prefix obo: . @prefix owl: . @prefix rdf: . @prefix xml: . @prefix xsd: . @prefix rdfs: . @base . rdf:type owl:Ontology ; owl:imports , , , , , ; dc:contributor "Ramona Walls" , "John Wieczorek" , "Biocode Commons Ontology Hackathon members" , "John Deck" , "Barry Smith" , "Robert Guralnick" ; "The BCO supports the interoperability of biodiversity and biodiversity related data, including data on museum collections, environmental/metagenomic samples, and ecological surveys. A key aspect of the BCO is distinguishing among material samples (i.e. specimens), observing processes, and data about either of those entities." ; ; "The Biological Collections Ontology" ; rdfs:comment """This is the editor's version of the ontology. Use with caution. For the live version of the ontology, use http://purl.obolibrary.org/obo/bco.owl. The Biological Collections Ontology was originally created at the Biocode Commons Hackathon at GSC14. Older versions can be viewed at http://code.google.com/p/biocode-commons/source/browse/#svn%2Ftrunk%2Fontologies%2Fbiocollections. Some of the classes in this ontology may be replaced by existing or newly requested terms from OBI or other ontologies."""^^xsd:string . ################################################################# # Annotation properties ################################################################# ### http://purl.obolibrary.org/obo/BCO_0000057 obo:BCO_0000057 rdf:type owl:AnnotationProperty ; obo:IAO_0000115 "The label used in Humbolt Core." ; rdfs:label "taxonomic inventory metadata preferred name"@en ; rdfs:subPropertyOf obo:IAO_0000118 . [ rdf:type owl:Axiom ; owl:annotatedSource obo:BCO_0000057 ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedTarget "The label used in Humbolt Core." ; dc:source ] . ### http://purl.obolibrary.org/obo/BCO_0000060 obo:BCO_0000060 rdf:type owl:AnnotationProperty ; obo:IAO_0000115 "The label preferred for use with this ontology. To be added only with imported terms." ; rdfs:label "BCO preferred label"@en . ### http://purl.obolibrary.org/obo/IAO_0000231 obo:IAO_0000231 rdf:type owl:AnnotationProperty . ### http://purl.obolibrary.org/obo/IAO_0000424 obo:IAO_0000424 rdf:type owl:AnnotationProperty . ### http://purl.obolibrary.org/obo/IAO_0000589 obo:IAO_0000589 rdf:type owl:AnnotationProperty . ### http://purl.obolibrary.org/obo/IAO_creation_date obo:IAO_creation_date rdf:type owl:AnnotationProperty . ### http://purl.obolibrary.org/obo/OBI_0000293 obo:OBI_0000293 rdf:type owl:AnnotationProperty . ### http://purl.obolibrary.org/obo/RO_0002233 obo:RO_0002233 rdf:type owl:AnnotationProperty . ### http://purl.org/dc/elements/1.1/creator dc:creator rdf:type owl:AnnotationProperty . ### http://purl.org/dc/elements/1.1/source dc:source rdf:type owl:AnnotationProperty . ### http://purl.org/dc/terms/description rdf:type owl:AnnotationProperty . ### http://purl.org/dc/terms/title rdf:type owl:AnnotationProperty . ################################################################# # Object Properties ################################################################# ### http://purl.obolibrary.org/obo/BCO_0000058 obo:BCO_0000058 rdf:type owl:ObjectProperty ; obo:IAO_0000115 "The relationship between an independent continuant and a role. Slightly more specific than the parent class bearer of." ; obo:IAO_0000231 obo:IAO_0000423 ; rdfs:comment """This property was originally created in OBI, but in OBI it was deprecated and replaced by BFO:0000087. However, BFO:0000087 was replaced by 'has role at some time', which is not yet part of a stable release. Once the BFO role has been tested and released, it may replace 'has role' in both BCO and OBI. There are currently two versions of 'has role', the old one from BFO (which is used in OBI's definition of specimen) and the RO version. For consistency with OBI, we have used the BFO relation in BCO, but this should be resolved at a higher level.""" ; rdfs:label "obsolete has role"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/BCO_0000067 obo:BCO_0000067 rdf:type owl:ObjectProperty ; rdfs:subPropertyOf owl:topObjectProperty ; rdf:type owl:TransitiveProperty ; obo:IAO_0000231 obo:IAO_0000423 ; rdfs:label "obsolete derives from by planned process"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/BCO_0000068 obo:BCO_0000068 rdf:type owl:ObjectProperty ; rdfs:subPropertyOf owl:topObjectProperty ; rdf:type owl:TransitiveProperty ; obo:IAO_0000116 "This property used an old version of the has input relation, so it has been deprecated."^^rdfs:Literal ; obo:IAO_0000231 obo:IAO_0000423 ; rdfs:label "obsotlete is derived into by planned process"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/BCO_0000085 obo:BCO_0000085 rdf:type owl:ObjectProperty ; rdfs:subPropertyOf obo:IAO_0000136 ; rdfs:domain obo:BCO_0000084 ; rdfs:range ; obo:IAO_0000115 "A relation used to link a taxonomic association to a taxon. Should be used with the of organism relation." ; rdfs:label "to taxon"@en . ### http://purl.obolibrary.org/obo/BCO_0000086 obo:BCO_0000086 rdf:type owl:ObjectProperty ; rdfs:subPropertyOf obo:IAO_0000136 ; rdfs:domain obo:BCO_0000084 ; rdfs:range obo:PCO_0000031 ; obo:IAO_0000115 "A relation used to link an identification association to an organismal entity. Should be used together with the to taxon relation." ; rdfs:label "of organism"@en . ### http://purl.obolibrary.org/obo/BCO_0000087 obo:BCO_0000087 rdf:type owl:ObjectProperty ; rdfs:subPropertyOf obo:BFO_0000050 ; owl:propertyChainAxiom ( [ owl:inverseOf obo:BCO_0000086 ] obo:BCO_0000085 ) ; obo:IAO_0000115 "A shortcut relation from an organsimal entity to a taxon." ; rdfs:label "member of taxon"@en . ### http://purl.obolibrary.org/obo/BFO_0000051 obo:BFO_0000051 rdf:type owl:ObjectProperty . ### http://purl.obolibrary.org/obo/BFO_0000066 obo:BFO_0000066 rdf:type owl:ObjectProperty . ### http://purl.obolibrary.org/obo/BFO_0000087 obo:BFO_0000087 rdf:type owl:ObjectProperty . ### http://purl.obolibrary.org/obo/IAO_0000136 obo:IAO_0000136 rdf:type owl:ObjectProperty . ### http://purl.obolibrary.org/obo/OBI_0000295 obo:OBI_0000295 rdf:type owl:ObjectProperty ; rdfs:label "is_specified_input_of" . ### http://purl.obolibrary.org/obo/OBI_0000299 obo:OBI_0000299 rdf:type owl:ObjectProperty . ### http://purl.obolibrary.org/obo/OBI_0000312 obo:OBI_0000312 rdf:type owl:ObjectProperty . ### http://purl.obolibrary.org/obo/RO_0000053 obo:RO_0000053 rdf:type owl:ObjectProperty . ### http://purl.obolibrary.org/obo/RO_0000058 obo:RO_0000058 rdf:type owl:ObjectProperty . ### http://purl.obolibrary.org/obo/RO_0000059 obo:RO_0000059 rdf:type owl:ObjectProperty . ################################################################# # Classes ################################################################# ### http://purl.obolibrary.org/obo/BCO_0000003 obo:BCO_0000003 rdf:type owl:Class ; rdfs:subClassOf obo:OBI_0000011 , [ rdf:type owl:Restriction ; owl:onProperty obo:OBI_0000293 ; owl:someValuesFrom obo:BFO_0000040 ] , [ rdf:type owl:Restriction ; owl:onProperty obo:OBI_0000299 ; owl:someValuesFrom obo:IAO_0000030 ] ; obo:BCO_0000057 "sighting"@en ; obo:IAO_0000112 "A trip camera capture of an image of a jaguar is an observation, because it is \"selected\" by the camera as worthy of obsevation simply by virtue of moving in front of the camera." , "Observing and recording the presence or absence of butterflies during a transect walk." , "Seeing three pelicans flying overhead on Christmas day and report them as part of the Christmas Bird Count." ; obo:IAO_0000114 obo:IAO_0000125 ; obo:IAO_0000115 "A process in which a person or machine sees or detects a material entity and selects it as worthy of observation, and which has as output an information content entity about the selected material entity." ; obo:IAO_0000116 "This class replaces class bco_0000003, which was made obsolete because of identifier format." , "We are having conversation with OBI developers about how this term relates to OBI:assay (). Is it equivalent, broader, narrower? What does it mean to be the input to an observation." ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:comment "An observing process is distinguished from a specimen collecting process in by having an information content entity as an output rather than a specimen. The information artifact may be written or recorded or just be stored in someone's head (specifically depenedent upon that person). In the context of a taxonomic inventory, an observing process may be called a sighting, which is an ad hoc reporting of, typically, a single taxon occurrence, usually motivated by rarity, individual interest in the taxon, or atypicality of circumstances."@en ; rdfs:label "observing process"@en . ### http://purl.obolibrary.org/obo/BCO_0000016 obo:BCO_0000016 rdf:type owl:Class ; rdfs:subClassOf obo:OBI_0000011 , [ rdf:type owl:Restriction ; owl:onProperty obo:OBI_0000299 ; owl:someValuesFrom obo:BFO_0000040 ] ; obo:IAO_0000112 "a curator submitting a herbarium speciman to a museum"@en , "a researcher submitting a water sample to a laboratory storage collection"@en ; obo:IAO_0000114 obo:IAO_0000428 ; obo:IAO_0000115 "A planned process whereby a person submits a material sample to an organization." ; obo:IAO_0000116 "false"^^xsd:boolean ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:label "submitting process"@en . ### http://purl.obolibrary.org/obo/BCO_0000025 obo:BCO_0000025 rdf:type owl:Class ; rdfs:subClassOf obo:IAO_0000030 ; obo:IAO_0000114 obo:IAO_0000428 ; obo:IAO_0000115 "An information artifact that is about a spatio-temporal region at which a process (such as collecting process, observing process, or material sampling process) occured."@en ; obo:IAO_0000116 "This term replaces the obsolete class bco_0000025, but with the correct identifier format." ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:comment "Darwin Core needs to describe both the site and time where some activity occurred as an information content entity (e.g., in recording data from a lab notebook),therefore, we made locality description about a spatial temporal region, rather than a site."@en ; rdfs:label "locality description"@en . ### http://purl.obolibrary.org/obo/BCO_0000031 obo:BCO_0000031 rdf:type owl:Class ; rdfs:subClassOf obo:BFO_0000027 , [ rdf:type owl:Restriction ; owl:onProperty obo:BFO_0000051 ; owl:someValuesFrom obo:OBI_0100051 ] ; obo:IAO_0000112 "The herbarium collection at the New York Botanical Garden." , "the painting collection at the Louvre Museum"@en ; obo:IAO_0000114 obo:IAO_0000428 ; obo:IAO_0000115 "An object aggregate that has as member part a material sample that is located in museum as a result of a process of curation."@en ; obo:IAO_0000116 "This term replaced bco_0000031, which was made obsolete because of incorrect identifier format." ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:comment "Intent is to document biodiversity for research and education. The class museum collection has meaning that is much broader than biological collections. It would probably be better to import this term from another, more general ontology and create a specific subclass for natural history museum collection."@en ; rdfs:label "museum collection"@en . ### http://purl.obolibrary.org/obo/BCO_0000032 obo:BCO_0000032 rdf:type owl:Class ; rdfs:subClassOf obo:BCO_0000031 ; obo:IAO_0000112 "the insect collection at the Smithsonian Institution"@en ; obo:IAO_0000114 obo:IAO_0000428 ; obo:IAO_0000115 "A museum collection that has as member part a material sample that was derived from an organism."@en ; obo:IAO_0000116 "This term replaced bco_0000032, which was made obsolete because of incorrect identifier format." ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:label "organismal museum collection"@en . ### http://purl.obolibrary.org/obo/BCO_0000042 obo:BCO_0000042 rdf:type owl:Class ; owl:equivalentClass ; rdfs:subClassOf obo:OBI_0000011 ; obo:IAO_0000112 "Associating a museum specimen with a specific taxonomic concept based on its characters." , "Using BLAST to identify the taxa present in an environmental (metagenomic) sample." , "Using DNA barcoding to identify a plant species." , "Using a key to identify a plant in the field." ; obo:IAO_0000114 obo:IAO_0000125 ; obo:IAO_0000115 "A planned process by which an organismal entity is associated with a taxon or taxa." ; obo:IAO_0000116 "Need to add a relation for has specified output some taxonomic association." , "This term replaces bco_0000042, which was made obsolete because of incorrect identifier format." ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:label "taxonomic identification process"@en . ### http://purl.obolibrary.org/obo/BCO_0000044 obo:BCO_0000044 rdf:type owl:Class ; owl:equivalentClass [ owl:intersectionOf ( obo:BFO_0000040 [ rdf:type owl:Restriction ; owl:onProperty obo:BFO_0000087 ; owl:someValuesFrom obo:BCO_0000046 ] ) ; rdf:type owl:Class ] ; rdfs:subClassOf obo:BFO_0000040 ; obo:IAO_0000112 "A bird observed during a Christmas Bird Count"@en , "A bird observed during a transect walk." , "A lizard observed in the field that is not collected but whose location is recorded in a field notebook." , "A tree is forest plot that is measured for diameter at breast height (DBH)." ; obo:IAO_0000114 obo:IAO_0000428 ; obo:IAO_0000115 "A material entity that has a target of observation role, that is, a material entity that is the input of some observing process."@en ; obo:IAO_0000116 "This term replaces bco_0000044, which was made obsolete because of incorrect identifier format." ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:label "material target of observation"@en . ### http://purl.obolibrary.org/obo/BCO_0000046 obo:BCO_0000046 rdf:type owl:Class ; owl:equivalentClass [ owl:intersectionOf ( obo:BFO_0000023 [ rdf:type owl:Restriction ; owl:onProperty obo:BFO_0000054 ; owl:someValuesFrom obo:BCO_0000003 ] ) ; rdf:type owl:Class ] ; rdfs:subClassOf obo:BFO_0000023 ; obo:IAO_0000112 "the role borne by a bird during a Christmas Bird Count"@en ; obo:IAO_0000114 obo:IAO_0000125 ; obo:IAO_0000115 "A role that is borne by some material entity and is realized by the material entity being the input of an observing process." ; obo:IAO_0000116 "This term replaced bco_0000046, which was made obsolete because of incorrect identifier format." ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:label "material target of observation role"@en . ### http://purl.obolibrary.org/obo/BCO_0000047 obo:BCO_0000047 rdf:type owl:Class ; owl:equivalentClass [ owl:intersectionOf ( obo:BCO_0000003 [ rdf:type owl:Restriction ; owl:onProperty obo:OBI_0000299 ; owl:someValuesFrom obo:BCO_0000048 ] ) ; rdf:type owl:Class ] ; obo:BCO_0000057 "inventory type"@en ; obo:IAO_0000114 obo:IAO_0000124 ; obo:IAO_0000115 "A planned process by which a taxonomic inventory is created."@en ; dc:creator "Taxonomic Inventory Metadata Workshop" ; rdfs:comment "not sure if this should be a type of assay or a type of planned process" ; rdfs:label "taxonomic inventory process"@en . [ rdf:type owl:Axiom ; owl:annotatedSource obo:BCO_0000047 ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedTarget "A planned process by which a taxonomic inventory is created."@en ; obo:IAO_0000119 "http://onlinelibrary.wiley.com/doi/10.1111/ecog.02942/full" ] . ### http://purl.obolibrary.org/obo/BCO_0000048 obo:BCO_0000048 rdf:type owl:Class ; owl:equivalentClass [ owl:intersectionOf ( obo:IAO_0000030 [ rdf:type owl:Restriction ; owl:onProperty obo:OBI_0000312 ; owl:someValuesFrom obo:BCO_0000047 ] ) ; rdf:type owl:Class ] ; rdfs:subClassOf obo:IAO_0000030 ; obo:IAO_0000112 "\"The Flora of North America\"" , "The butterflies of Great Britain" , "The plants of Yosemite National Park" ; obo:IAO_0000114 obo:IAO_0000125 ; obo:IAO_0000115 "A list of names ascribed to biological entities of specified organismal scope recorded over some defined spatial and temporal scope following a described sampling protocol and sampling effort, potentially including values indicating abundance or biomass of the biological entities"@en ; dc:creator "Taxonomic Inventory Metadata Workshop" ; dc:source "https://docs.google.com/spreadsheet/ccc?key=0AhrY0qRdO4budC1mSUNWTDlkOXBVMjcza2Y3aV84SkE#gid=0"@en ; rdfs:comment "The biological entities are almost always species and the organismal scope typically a taxon but potentially also an ecologically or functionally defined grouping (e.g. ‘water birds’ or ‘trees’) or other operational unit (e.g. genes). The list would typically contain multiple entities, but may be as short as a single entity or, if a sampling effort focused on a certain taxon yielded no results, even contain none." ; rdfs:label "taxonomic inventory"@en . ### http://purl.obolibrary.org/obo/BCO_0000051 obo:BCO_0000051 rdf:type owl:Class ; rdfs:subClassOf obo:BCO_0000047 ; obo:BCO_0000057 "restricted search"@en ; obo:IAO_0000112 "Pollard transect-- \"walk a 1km transect at a slow&steady pace, and report on all TOI within 5m in front, and 2.5m on either side of you.\"" ; obo:IAO_0000114 obo:IAO_0000122 ; obo:IAO_0000115 "A taxonomic inventory process that is restricted to plots, transects, or points, in which a person or group of people is comprehensively covering the entire area, usually with a well-described survey time or pace. The search is restricted to a defined and human-scale geospatial area (usually traversable within a time course of less than a day) within which there is an expectation of a comprehensive accounting of the taxonomic items of interest." ; dc:creator "Taxonomic Inventory Metadata Workshop" ; rdfs:label "restricted search taxonomic inventory process"@en . [ rdf:type owl:Axiom ; owl:annotatedSource obo:BCO_0000051 ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedTarget "A taxonomic inventory process that is restricted to plots, transects, or points, in which a person or group of people is comprehensively covering the entire area, usually with a well-described survey time or pace. The search is restricted to a defined and human-scale geospatial area (usually traversable within a time course of less than a day) within which there is an expectation of a comprehensive accounting of the taxonomic items of interest." ; obo:IAO_0000119 "http://onlinelibrary.wiley.com/doi/10.1111/ecog.02942/full" ] . ### http://purl.obolibrary.org/obo/BCO_0000052 obo:BCO_0000052 rdf:type owl:Class ; rdfs:subClassOf obo:BCO_0000047 ; obo:BCO_0000057 "open search"@en ; obo:IAO_0000112 "Individual Christmas Bird Count by some team. Organized field trip to a State Park." ; obo:IAO_0000114 obo:IAO_0000122 ; obo:IAO_0000115 "A taxonomic inventory process in which the search is restricted within a larger defined geographic area, but where effort isn't even or complete across the region, and thus not a comprehensive accounting of taxa of interest. Temporal duration is typically longer than restricted searches, lasting hours to several days." ; dc:creator "Taxonomic Inventory Metadata Workshop" ; rdfs:label "open search taxonomic inventory process"@en . [ rdf:type owl:Axiom ; owl:annotatedSource obo:BCO_0000052 ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedTarget "A taxonomic inventory process in which the search is restricted within a larger defined geographic area, but where effort isn't even or complete across the region, and thus not a comprehensive accounting of taxa of interest. Temporal duration is typically longer than restricted searches, lasting hours to several days." ; obo:IAO_0000119 "http://onlinelibrary.wiley.com/doi/10.1111/ecog.02942/full" ] . ### http://purl.obolibrary.org/obo/BCO_0000053 obo:BCO_0000053 rdf:type owl:Class ; rdfs:subClassOf obo:BCO_0000047 ; obo:BCO_0000057 "opportunistic search"@en ; obo:IAO_0000112 "Many E-Bird lists are of this nature; useful supplementary information is that observers should state whether they documented every taxon of interest they saw." ; obo:IAO_0000114 obo:IAO_0000122 ; obo:IAO_0000115 "A taxonomic inventory process that is a more casual reporting of occurrences of taxa of interest, still intended to be a comprehensive accounting of the taxa of interest, but with no pre-specified investment of effort nor planned trajectory for discovery, thus of often idiosyncratic length or spatial scope." ; dc:creator "Taxonomic Inventory Metadata Workshop" ; rdfs:comment "This is more typically used to report multiple sightings, where the motivation is to record presence and abundance, rather than for individual anecdotal occurrences that are noteworthy."@en ; rdfs:label "opportunistic search taxonomic inventory process"@en . [ rdf:type owl:Axiom ; owl:annotatedSource obo:BCO_0000053 ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedTarget "A taxonomic inventory process that is a more casual reporting of occurrences of taxa of interest, still intended to be a comprehensive accounting of the taxa of interest, but with no pre-specified investment of effort nor planned trajectory for discovery, thus of often idiosyncratic length or spatial scope." ; obo:IAO_0000119 "http://onlinelibrary.wiley.com/doi/10.1111/ecog.02942/full" ] . ### http://purl.obolibrary.org/obo/BCO_0000054 obo:BCO_0000054 rdf:type owl:Class ; rdfs:subClassOf obo:BCO_0000047 ; obo:BCO_0000057 "trap or sample inventory"@en ; obo:IAO_0000112 "an inventory of insects in a area using pheremone traps"@en , "an inventory of the large mammals of a park based on camera traps"@en , "inventories based on trawl samples"@en ; obo:IAO_0000114 obo:IAO_0000122 ; obo:IAO_0000115 "A taxonomic inventory process that is typically restricted in geospatial extent that involves either the physical extraction of some evidence of the presence of the taxa of interest, such as a whole organisms, scat, fur, other material samples or information artifacts such as photographs or sound recordings"@en ; dc:creator "Taxonomic Inventory Metadata Workshop" ; rdfs:comment "Can be highly targeted and or baited (pheromone trap), or general (pitfall). Trap events can either be \"triggered\" but of long-term deployment, or rigorously temporally specified (left out overnight). "@en ; rdfs:label "trap or sample taxonomic inventory process"@en . [ rdf:type owl:Axiom ; owl:annotatedSource obo:BCO_0000054 ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedTarget "A taxonomic inventory process that is typically restricted in geospatial extent that involves either the physical extraction of some evidence of the presence of the taxa of interest, such as a whole organisms, scat, fur, other material samples or information artifacts such as photographs or sound recordings"@en ; obo:IAO_0000119 "http://onlinelibrary.wiley.com/doi/10.1111/ecog.02942/full" ] . ### http://purl.obolibrary.org/obo/BCO_0000055 obo:BCO_0000055 rdf:type owl:Class ; rdfs:subClassOf obo:BCO_0000047 ; obo:BCO_0000057 "incidental or adventitious inventory"@en ; obo:IAO_0000112 "data from ecological studies in which presence of some taxa is recorded to clarify population or community parameters" ; obo:IAO_0000114 obo:IAO_0000122 ; obo:IAO_0000115 "A taxonomic inventory process in which taxon occurrences are recorded as co-variates of another study, or by happenstance, and later compiled as a taxonomic inventory." ; dc:creator "Taxonomic Inventory Metadata Workshop" ; rdfs:label "adventitious taxonomic inventory process"@en . [ rdf:type owl:Axiom ; owl:annotatedSource obo:BCO_0000055 ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedTarget "A taxonomic inventory process in which taxon occurrences are recorded as co-variates of another study, or by happenstance, and later compiled as a taxonomic inventory." ; obo:IAO_0000119 "http://onlinelibrary.wiley.com/doi/10.1111/ecog.02942/full" ] . ### http://purl.obolibrary.org/obo/BCO_0000056 obo:BCO_0000056 rdf:type owl:Class ; rdfs:subClassOf obo:BCO_0000047 ; obo:BCO_0000057 "compilation inventory"@en ; obo:IAO_0000112 "Atlases and Checklists" ; obo:IAO_0000114 obo:IAO_0000124 ; obo:IAO_0000115 "A taxonomic inventory process in which a list of taxa of interest is assembled from various combinations of existing taxonomic inventories, rather than generated de novo from observations or samples."@en ; dc:creator "Taxonomic Inventory Metadata Workshop" ; rdfs:comment "A compiliation taxonomic inventory process is typically required to document the occurences of taxa of interest over large geospatial areas, or to derive the most comprehensive accounting of presence and absence of taxa of interest in a larger region."@en ; rdfs:label "compilation taxonomic inventory process"@en . [ rdf:type owl:Axiom ; owl:annotatedSource obo:BCO_0000056 ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedTarget "A taxonomic inventory process in which a list of taxa of interest is assembled from various combinations of existing taxonomic inventories, rather than generated de novo from observations or samples."@en ; obo:IAO_0000119 "http://onlinelibrary.wiley.com/doi/10.1111/ecog.02942/full" ] . ### http://purl.obolibrary.org/obo/BCO_0000059 obo:BCO_0000059 rdf:type owl:Class ; rdfs:subClassOf obo:OBI_0000245 , [ rdf:type owl:Restriction ; owl:onProperty obo:BFO_0000051 ; owl:someValuesFrom obo:BCO_0000031 ] ; obo:IAO_0000112 "The Louvre Museum"@en , "The Smithsonian Institution"@en ; obo:IAO_0000114 obo:IAO_0000122 ; obo:IAO_0000115 "An institution that cares for (conserves) a collection of artifacts and other objects of scientific, artistic, cultural, or historical importance." ; obo:IAO_0000119 "ISBN:9780759105096" ; rdfs:comment "A museum may make its collections available for public viewing through exhibits that may be permanent or temporary. The class museum has meaning that is much broader than biological collecitons. It may be better to import this term from another, more general ontology and create a specific subclass for natural history museum."@en ; rdfs:label "museum"@en . ### http://purl.obolibrary.org/obo/BCO_0000061 obo:BCO_0000061 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "a fossil housed in a natural history museum"@en ; obo:IAO_0000115 "A specimen that is derived from a fossil."@en ; obo:IAO_0000231 obo:IAO_0000103 ; rdfs:label "obsolete fossil specimen"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/BCO_0000062 obo:BCO_0000062 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "a bacterial culture in a culture collection"@en , "a tree in an arboretum"@en , "an animal in a zoo"@en , "germplasm"@en ; obo:IAO_0000115 "A specimen that is alive."@en ; obo:IAO_0000231 obo:IAO_0000103 ; rdfs:label "obsolete living specimen"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/BCO_0000063 obo:BCO_0000063 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000115 "A specimen that has been preserved."@en ; obo:IAO_0000231 obo:IAO_0000103 ; rdfs:label "obsolete preserved specimen"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/BCO_0000064 obo:BCO_0000064 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000231 obo:IAO_0000103 ; rdfs:label "obsolete darwin core class"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/BCO_0000065 obo:BCO_0000065 rdf:type owl:Class ; rdfs:subClassOf obo:BCO_0000003 ; obo:IAO_0000112 "a biologist recording an observation of an animal in a field notebook"@en , "an entomologist recording the presense of butterflies while walking a transect"@en ; obo:IAO_0000114 obo:IAO_0000123 ; obo:IAO_0000115 "An observing process in which the observing entity consists of one or more humans."@en ; rdfs:comment "May be able to use the has agent = has active participant relationship for defining this. May want to work with OBI to define this term in a more general sense for investigations."@en ; rdfs:label "human observation process"@en . ### http://purl.obolibrary.org/obo/BCO_0000066 obo:BCO_0000066 rdf:type owl:Class ; rdfs:subClassOf obo:BCO_0000003 ; obo:IAO_0000112 "a camera trap recording the presence of a jaguar"@en , "a sensor periodically recording the surface temperature of a leaf over several hours"@en ; obo:IAO_0000114 obo:IAO_0000123 ; obo:IAO_0000115 "An observing process in which the observing entity consists of one or more machines."@en ; rdfs:comment "May want to work with OBI to define this term in a more general sense for investigations."@en ; rdfs:label "machine observation process"@en . ### http://purl.obolibrary.org/obo/BCO_0000084 obo:BCO_0000084 rdf:type owl:Class ; rdfs:subClassOf obo:IAO_0000027 , [ rdf:type owl:Restriction ; owl:onProperty obo:BCO_0000085 ; owl:someValuesFrom ] , [ rdf:type owl:Restriction ; owl:onProperty obo:BCO_0000086 ; owl:someValuesFrom obo:PCO_0000031 ] ; obo:IAO_0000115 "A data item that is the output of a taxonomic identification process and associates some organismal entity with a taxon or taxa." ; obo:IAO_0000119 "PPO hackathon Sep. 2016." ; rdfs:label "identification assertion"@en . ### http://purl.obolibrary.org/obo/BFO_0000006 obo:BFO_0000006 owl:equivalentClass . ### http://purl.obolibrary.org/obo/BFO_0000015 obo:BFO_0000015 rdf:type owl:Class ; owl:equivalentClass . ### http://purl.obolibrary.org/obo/BFO_0000027 obo:BFO_0000027 rdf:type owl:Class ; rdfs:subClassOf obo:BFO_0000040 ; rdfs:label "object aggregate"@en . ### http://purl.obolibrary.org/obo/BFO_0000030 obo:BFO_0000030 rdf:type owl:Class ; rdfs:subClassOf obo:BFO_0000040 ; rdfs:label "object"@en . ### http://purl.obolibrary.org/obo/CARO_0001010 obo:CARO_0001010 rdf:type owl:Class ; rdfs:subClassOf obo:BFO_0000040 ; obo:IAO_0000115 "Material anatomical entity that is a member of an individual species or is a viral or viroid particle."^^xsd:string ; obo:IAO_0000117 "Melissa Haendel"^^xsd:string ; obo:IAO_0000412 "Common Anatomy Reference Onotology - CARO2"@en ; obo:IAO_0000589 "organism or virus"@en ; obo:IAO_creation_date "9/18/11"^^xsd:string ; rdfs:label "organism or virus or viroid"^^xsd:string . ### http://purl.obolibrary.org/obo/IAO_0000015 obo:IAO_0000015 rdf:type owl:Class . ### http://purl.obolibrary.org/obo/IAO_0000104 obo:IAO_0000104 rdf:type owl:Class . ### http://purl.obolibrary.org/obo/IAO_0000178 obo:IAO_0000178 rdf:type owl:Class . ### http://purl.obolibrary.org/obo/OBI_0000011 obo:OBI_0000011 rdf:type owl:Class ; owl:equivalentClass [ rdf:type owl:Restriction ; owl:onProperty obo:BFO_0000055 ; owl:someValuesFrom [ rdf:type owl:Restriction ; owl:onProperty obo:RO_0000059 ; owl:someValuesFrom obo:IAO_0000104 ] ] ; rdfs:subClassOf obo:BFO_0000015 . ### http://purl.obolibrary.org/obo/OBI_0000245 obo:OBI_0000245 rdf:type owl:Class . ### http://purl.obolibrary.org/obo/OBI_0000659 obo:OBI_0000659 rdf:type owl:Class ; obo:BCO_0000060 "specimen collection process" . ### http://purl.obolibrary.org/obo/OBI_0100051 obo:OBI_0100051 rdf:type owl:Class ; owl:equivalentClass ; obo:IAO_0000112 "A herbarium or museum specimen."^^xsd:string , "A jar of water, the microbes that were filtered from that water, the DNA extracted from those microbes, a subsample of that DNA."^^xsd:string . ### http://purl.obolibrary.org/obo/PCO_0000000 obo:PCO_0000000 rdf:type owl:Class . ### http://purl.obolibrary.org/obo/PCO_0000031 obo:PCO_0000031 rdf:type owl:Class . ### http://purl.obolibrary.org/obo/bco_0000000 obo:bco_0000000 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "A museum specimen that serves as evidence for a taxonomic identification process bears an evidence role." ; obo:IAO_0000115 "A role that is borne by some entity as a result of the entity providing evidence to support an assertion." ; obo:IAO_0000231 obo:IAO_0000423 ; rdfs:comment "Will be replaced by an external ontology class." ; rdfs:label "obsolete evidence role"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000001 obo:bco_0000001 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000115 "An evidence role that persists through time." ; rdfs:comment """Could add relation that persistant evidence role is specifically dependent on a museum material samples. Deprecated because we do not need this term. Can use OBI:evidence role. Not clear what it means for an evidence role to persist through time."""@en ; rdfs:label "obsolete persistent evidence role"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000002 obo:bco_0000002 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000231 obo:IAO_0000227 ; rdfs:comment "This term is now redundant and is merged with material sampling process http://purl.obolibrary.org/obo/bco_0000022." ; rdfs:label "obsolete collecting process"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000003 obo:bco_0000003 rdf:type owl:Class ; rdfs:subClassOf ; obo:BCO_0000057 "sighting"@en ; obo:IAO_0000112 "A trip camera capture of an image of a jaguar is an observation, because it is \"selected\" by the camera as worthy of obsevation simply by virtue of moving in front of the camera." , "Observing and recording the presence or absence of butterflies during a transect walk." , "Seeing three pelicans flying overhead on Christmas day and report them as part of the Christmas Bird Count." ; obo:IAO_0000115 "A process in which a person or machine sees or detects a material entity and selects it as worthy of observation, and which has as output an information content entity about the selected material entity." ; obo:IAO_0000116 "This class was made obsolete because of the incorrect identifier format. It has been replaced by BCO_0000003." ; obo:IAO_0000231 obo:BCO_0000075 ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:comment "The information artifact may written or recorded or just be stored in someone's head (specifically depenedent upon that person). In the context of a taxonomic inventory, an observing process may be called a sighting, and is an ad hoc reporting of, typically, a single taxon occurrence, usually motivated by rarity, individual interest in the taxon, or atypicality of circumstances."@en ; rdfs:label "obsolete observing process"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000004 obo:bco_0000004 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000115 "A process of existing in a particular spatio-temporal region."@en ; obo:IAO_0000231 obo:IAO_0000103 ; rdfs:comment "This term was originally developed at the Semantics of Biodiversity workshop in 5/2012. It is no longer needed for the BCO." ; rdfs:label "obsolete being there process"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000005 obo:bco_0000005 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "a book"@en , "a field notebook"@en ; obo:IAO_0000114 obo:IAO_0000124 ; obo:IAO_0000231 obo:IAO_0000423 ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:comment "IAO has the term document, which is defined as \"A collection of information content entities intended to be understood together as a whole\" and has as examples journal article, patent application, laboratory notebook, and book. IAO also has a term for report, but it is not defined. With this term, we want to describe the physical object that corresponds to some information content entity, together with the information content contained in the document or report. This class may be less important for modeling collection data, but could be important for efforts to get hand written (specifically dependent) reports into an electronic (generically dependent) report, and monitoring that process." ; rdfs:label "obsolete printed report"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000006 obo:bco_0000006 rdf:type owl:Class ; rdfs:subClassOf obo:bco_0000005 ; obo:IAO_0000112 "A field notebook." ; obo:IAO_0000114 obo:IAO_0000124 ; obo:IAO_0000115 "A printed report that records the outcome of some observing process."@en ; obo:IAO_0000231 obo:BCO_0000075 ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:label "obolete printed observational report"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000007 obo:bco_0000007 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "Filtering sea water to extract only organisms smaller than a certain size."@en , "deciding which branch to collect for a herbarium specimen"@en ; obo:IAO_0000115 "A process by which a person or machine decides that a particular material entity as worthy of collection or observation." ; obo:IAO_0000231 obo:IAO_0000423 ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:comment "The criteria for selection may be specified in a protocol or may be ad hoc. Should be replaced by OBI:selection, but first OBI needs to fix the definition."@en ; rdfs:label "obsolete selecting process"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000016 obo:bco_0000016 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "a curator submitting a herbarium speciman to a museum"@en , "a researcher submitting a water sample to a laboratory storage collection"@en ; obo:IAO_0000115 "A planned process whereby a person submits a material sample to an organization." ; obo:IAO_0000116 "This term was made obsolete because it had the incorrect identifier format. It has been replaced by BCO_0000016." ; obo:IAO_0000231 obo:BCO_0000075 ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:label "obsolete submitting process"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000021 obo:bco_0000021 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "picking leaves from a plant" , "removing a fish from the ocean with a net" , "removing dna from cells" ; obo:IAO_0000115 "A process that involves removing a material entity from its original site to another site." ; obo:IAO_0000231 obo:IAO_0000423 ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:comment "Considered acquisition in OBI, but that is about taking possession. Physical extraction may involve taking pocession, but it may also just involve extraction of something that is already posessed (e.g. of dna from cells). " ; rdfs:label "obsolete physical extraction process"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000022 obo:bco_0000022 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "collecting plant parts for herbarium specimens"@en , "collecting sea water samples as part of Ocean Sampling Day"@en ; obo:IAO_0000115 "A planned process that includes selecting a material entity for study, physically extracting the material entity, and submitting the material entity to some institution for preservation or study."@en ; obo:IAO_0000118 "collecting event"@en ; obo:IAO_0000231 obo:IAO_0000103 ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:comment "This term has been replaced by OBI:specimen collection."^^xsd:string ; rdfs:label "obsolete material sampling process"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000023 obo:bco_0000023 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000231 obo:IAO_0000103 ; rdfs:comment "This term has been deprecated until it is determined whether or not it is needed in the BCO. Should probably be replaced by a term from OBI or IAO." ; rdfs:label "obsolete data sampling process"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000024 obo:bco_0000024 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000231 obo:IAO_0000103 ; rdfs:comment "This term has been deprecated until it is determined whether or not it is needed in the BCO. Should probably be replaced by a term from OBI or IAO." ; rdfs:label "obsolete statistical sampling process"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000025 obo:bco_0000025 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000115 "An information artifact that is about a spatio-temporal region at which a process (such as collecting process, observing process, or material sampling process) occured."@en ; obo:IAO_0000116 "This term was deprecated because it has the wrong ID format. It is replaced by BCO_0000025." ; obo:IAO_0000231 obo:BCO_0000075 ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:comment "Darwin Core needs to describe both the site and time where some activity occurred as an information content entity (e.g., in recording data from a lab notebook),therefore, we made locality description about a spatial temporal region, rather than a site."@en ; rdfs:label "obsolete locality description"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000026 obo:bco_0000026 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "the role borne by a branch when it becomes a herbarium specimen" ; obo:IAO_0000115 "A role that is borne by some material entity and is realized by the material entity being the output of a material sampling process."@en ; obo:IAO_0000231 obo:IAO_0000103 ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:comment "This term has been replaced by OBI:specimen role."^^xsd:string ; rdfs:label "obsolete material sample role"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000027 obo:bco_0000027 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000115 "A sampling process that has as output some material sample."@en ; obo:IAO_0000231 obo:IAO_0000103 ; rdfs:comment "Do not need this class. By virtue of the existance of the material sample, we know that the sampling process was successful."@en ; rdfs:label "obsolete successful material sampling process"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000028 obo:bco_0000028 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000115 "A material sampling process that has as output exactly zero material samples."@en ; obo:IAO_0000231 obo:IAO_0000103 ; rdfs:comment "Do not need this class. By virtue of the absence of the material sample, we know that the sampling process was unsuccessful." ; rdfs:label "obsolete unsuccessful material sampling process"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000029 obo:bco_0000029 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000231 obo:IAO_0000103 ; rdfs:comment "At the GSC14 hackathon in 09/2012, we decided to deprecate this term." ; rdfs:label "obsolete museum collection entity"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000030 obo:bco_0000030 rdf:type owl:Class ; rdfs:subClassOf obo:bco_0000029 ; obo:IAO_0000115 "A museum collections entity that derives from an organismal entity, has a persistent evidence role and 'depends on' a process of collecting."@en ; obo:IAO_0000231 obo:IAO_0000103 ; rdfs:comment """The label for this on the original diagram was 'collection object'. However, not all entities in collections will fit the defition of 'object', so 'collection entity is probably a better name. The relation 'depends on' cannot really be used here. Old BFO has 'inverse depends on', but this is not in the current BFO. See dwc_bfo2_new.owl for the original logical definition. At the GSC14 hackathon in 09/2012, we decided to deprecate this term."""@en ; rdfs:label "obsolete organismal museum collection entity"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000031 obo:bco_0000031 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "The herbarium collection at the New York Botanical Garden." , "the painting collection at the Louvre Museum"@en ; obo:IAO_0000114 obo:IAO_0000428 ; obo:IAO_0000115 "An object aggregate that has as member part a material sample that is located in museum as a result of a process of curation."@en ; obo:IAO_0000116 "This term was made obsolete because of incorrect identifier format. It has been replaced by BCO_0000031." ; obo:IAO_0000231 obo:BCO_0000075 ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:comment "Intent is to document biodiversity for research and education. The class museum collection has meaning that is much broader than biological collections. It would probably be better to import this term from another, more general ontology and create a specific subclass for natural history museum collection."@en ; rdfs:label "obsolete museum collection"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000032 obo:bco_0000032 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "the insect collection at the Smithsonian Institution"@en ; obo:IAO_0000114 obo:IAO_0000428 ; obo:IAO_0000115 "A museum collection that has as member part a material sample that was derived from an organism."@en ; obo:IAO_0000116 "This term was made obsolete because of incorrect identifier format. It is replaced by BCO_0000031." ; obo:IAO_0000231 obo:BCO_0000075 ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:label "obsolete organismal museum collection"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000033 obo:bco_0000033 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000231 obo:IAO_0000423 ; rdfs:comment "Replaced by OBI organization. Request institution as synonym in OBI." ; rdfs:label "obsolete institution"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000034 obo:bco_0000034 rdf:type owl:Class ; rdfs:subClassOf obo:bco_0000042 ; obo:IAO_0000115 "A material entity that derives from an organism or virus or viroid."@en ; rdfs:comment """This class is understood to mean: A material entity that is either an organism, a part of an organism, a collection of organisms, or a fossil. The relation 'organismal entity derives from organism' was in the original diagram. Subclasses of organismal entity include organism, and It is not clear if it is valid to that an organism derives from an organism (is the derives from relation reflexive?). At the GSC14 hackathon in 09/2012, we decided to deprecate this term."""@en ; rdfs:label "obsolete organismal entity"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000035 obo:bco_0000035 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000231 obo:IAO_0000423 ; rdfs:comment """This terms was replaced by a term imported from CARO. The original diagram only had organsim, but DWC and GOs both need to include viruses and viroids."""@en ; rdfs:label "obsolete organism or virus or viroid"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000036 obo:bco_0000036 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "A herbarium or museum specimen." , """A jar of water, the microbes that were filtered from that water, the DNA extracted from those microbes, a subsample of that DNA. """ ; obo:IAO_0000115 "A material entity that has a material sample role. A material entity takes on the material sample role by being the output of a material samping process. That is, is selected for study, collected, and submitted to an institution for preservation or study."@en ; obo:IAO_0000231 obo:IAO_0000103 ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:comment "This term has been replaced by OBI:specimen."^^xsd:string ; rdfs:label "obsolete material sample"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000037 obo:bco_0000037 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000115 "An information content entity (?) that is the result of some data sampling process."@en ; obo:IAO_0000231 obo:IAO_0000103 ; rdfs:comment "This term has been deprecated until it is determined whether or not it is needed in the BCO. Should probably be replaced by a term from OBI or IAO." ; rdfs:label "obsolete data sample"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000038 obo:bco_0000038 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000231 obo:IAO_0000103 ; rdfs:comment "This term has been deprecated until it is determined whether or not it is needed in the BCO. Should probably be replaced by a term from OBI or IAO." ; rdfs:label "obsolete statistical sample"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000039 obo:bco_0000039 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000231 obo:IAO_0000103 ; rdfs:comment "If sampling is a OBI planned process, that captures that it is protocal governed." ; rdfs:label "obsolete protocol governed sampling activity"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000042 obo:bco_0000042 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "Associating a museum specimen with a specific taxonomic concept based on its characters." , "Using BLAST to identify the taxa present in an environmental (metagenomic) sample." , "Using DNA barcoding to identify a plant species." , "Using a key to identify a plant in the field." ; obo:IAO_0000115 "A process by which a material sample is associated with a taxon or taxa." ; obo:IAO_0000116 "This term was made obsolete because of incorrect identifier format. It is replaced by BCO_0000042." ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:label "obsolete taxonomic identification process"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000043 obo:bco_0000043 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000116 "This term was made obsolete because of incorrect identifier format. It should be replaced by an external ontology term." ; obo:IAO_0000231 obo:IAO_0000423 ; obo:IAO_0000232 "Consider term from OBI or IAO."@en ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:comment """Includes as output rubbings, casts, photographic prints, audio or video tapes. Needs a better name. Current name is the definition."""@en ; rdfs:label "obsolete process that yields a material representation of a material entity"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000044 obo:bco_0000044 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "A bird observed during a Christmas Bird Count"@en , "A bird observed during a transect walk." , "A tree is forest plot that is measured for diameter at breast height (DBH)." , "An lizard observed in the field that is not collected but whose location is recorded in a field notebook. " ; obo:IAO_0000115 "A material entity that has a target of observation role, that is, a material entity that is the input of some observing process."@en ; obo:IAO_0000116 "This term was made obsolete because of incorrected identifier format. It is replaced by BCO_0000044." ; obo:IAO_0000231 obo:BCO_0000075 ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:label "obsolete material target of observation"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000045 obo:bco_0000045 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000116 "This term was made obsolete because of incorrect identifier format. It should be replaced by an external ontology term." ; obo:IAO_0000231 obo:IAO_0000423 ; obo:IAO_0000232 "Some instances of term could possibly be replaced by OBI:image acquisition. Maybe request another OBI term for audio recording acquisition."@en ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:comment """Includes audio recordings and photographs (which are information artifacts). Needs a better name. Current name is the definition.""" ; rdfs:label "obsolete process that yields an information artifact that is a representation of a material entity"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000046 obo:bco_0000046 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "the role borne by a bird during a Christmas Bird Count"@en ; obo:IAO_0000115 "A role that is borne by some material entity and is realized by the material entity being the input of an observing process." ; obo:IAO_0000116 "This term was made obsolete because of incorrect identifier format. It is replaced by BCO_0000046." ; obo:IAO_0000231 obo:BCO_0000075 ; dc:creator "Biocode Commons Ontology Hackathon" ; rdfs:label "obsolete material target of observation role"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco_0000080 obo:bco_0000080 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "A set of gastropod and bivalve shells found in shell midden from an archaeological site in Alaska." ; obo:IAO_0000115 "A preserved specimen that is the output of an archaeological sampling process and is the remains of a part of some animal." ; obo:IAO_0000119 "Rob Guralnick" ; rdfs:comment "Zooarchaeological specimens are typically collections of biological material generated as part of an archaeological collecting process that is separate from the type of processes that would yield other kinds of samples or collections of samples. This process almost always entails collecting in-situ from archaeological sites where there is evidence of past human material culture." ; rdfs:label "zooarcheological specimen"@en . ### http://purl.obolibrary.org/obo/bco_0000081 obo:bco_0000081 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "Preserved seeds found in a storage jar at an archeological site." ; obo:IAO_0000115 "A preserved specimen that is the output of an archaeological sampling process and is the remains of a part of some plant." ; obo:IAO_0000119 "Rob Guralnick" ; rdfs:comment "Archaeologicalbotanical specimens are typically collections of biological material generated as part of an archaeological collecting process that is separate from the type of processes that would yield other kinds of samples or collections of samples. This process almost always entails collecting in-situ from archaeological sites where there is evidence of past human material culture." ; rdfs:label "archeobotanical specimen"@en . ### http://purl.obolibrary.org/obo/bco.owl/BCO_0000080 :BCO_0000080 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "A set of gastropod and bivalve shells found in shell midden from an archaeological site in Alaska." ; obo:IAO_0000115 "A preserved specimen that is the output of an archaeological sampling process and is the remains of a part of some animal." ; obo:IAO_0000119 "Rob Guralnick" ; obo:IAO_0000231 obo:BCO_0000075 ; rdfs:comment "This class was deprecated because the ID format is wrong. It is replaced by http://purl.obolibrary.org/obo/BCO_0000080" ; rdfs:label "obsolete zooarcheological specimen"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.obolibrary.org/obo/bco.owl/BCO_0000081 :BCO_0000081 rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000112 "Preserved seeds found in a storage jar at an archeological site." ; obo:IAO_0000115 "A preserved specimen that is the output of an archaeological sampling process and is the remains of a part of some plant." ; obo:IAO_0000119 "Rob Guralnick" ; obo:IAO_0000231 obo:BCO_0000075 ; rdfs:comment "This class was deprecated because the ID format is wrong. It is replaced by http://purl.obolibrary.org/obo/BCO_0000081." ; rdfs:label "obsolete archeobotanical specimen"@en ; owl:deprecated "true"^^xsd:boolean . ### http://purl.org/dc/dcam/VocabularyEncodingScheme rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000231 obo:IAO_0000103 ; owl:deprecated "true"^^xsd:boolean . ### http://rs.tdwg.org/dwc/dwctype/Location rdf:type owl:Class ; obo:BCO_0000060 "location of an event"@en ; obo:IAO_0000114 obo:IAO_0000123 ; obo:IAO_0000424 "The site where a process occurs. In the context of Dawrin Core, this is generally where a specimen is collected, an organism is observed or a measurement is taken."@en . ### http://rs.tdwg.org/dwc/terms/Event rdf:type owl:Class ; obo:BCO_0000060 "event"@en . ### http://rs.tdwg.org/dwc/terms/FossilSpecimen rdf:type owl:Class ; rdfs:subClassOf ; obo:BCO_0000060 "fossil specimen"@en . ### http://rs.tdwg.org/dwc/terms/HumanObservation rdf:type owl:Class ; rdfs:subClassOf obo:IAO_0000027 ; obo:BCO_0000060 "human observation"@en . ### http://rs.tdwg.org/dwc/terms/Identification rdf:type owl:Class ; obo:BCO_0000060 "identification"@en ; obo:IAO_0000114 obo:IAO_0000125 . ### http://rs.tdwg.org/dwc/terms/LivingSpecimen rdf:type owl:Class ; rdfs:subClassOf obo:OBI_0100051 ; obo:BCO_0000060 "living specimen"@en . ### http://rs.tdwg.org/dwc/terms/MachineObservation rdf:type owl:Class ; rdfs:subClassOf obo:IAO_0000027 ; obo:BCO_0000060 "machine observation"@en . ### http://rs.tdwg.org/dwc/terms/MaterialSample rdf:type owl:Class ; obo:BCO_0000060 "specimen"@en . ### http://rs.tdwg.org/dwc/terms/MeasurementOrFact rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000231 "This term was not deprecated from the dwc terms vocabulary, merely from the dwcterms ontology, because it is not needed here."@en ; owl:deprecated "true"^^xsd:boolean . ### http://rs.tdwg.org/dwc/terms/Organism rdf:type owl:Class ; rdfs:subClassOf obo:PCO_0000031 ; obo:BCO_0000060 "organism"@en . ### http://rs.tdwg.org/dwc/terms/PreservedSpecimen rdf:type owl:Class ; rdfs:subClassOf obo:OBI_0100051 ; obo:BCO_0000060 "preserved specimen"@en . ### http://rs.tdwg.org/dwc/terms/ResourceRelationship rdf:type owl:Class ; rdfs:subClassOf ; obo:IAO_0000231 "This term was not deprecated from the dwc terms vocabulary, merely from the dwcterms ontology, because it is not needed here."@en ; owl:deprecated "true"^^xsd:boolean . ### http://rs.tdwg.org/dwc/terms/Taxon rdf:type owl:Class ; rdfs:subClassOf obo:PCO_0000000 ; obo:BCO_0000060 "taxon"@en . ### http://www.geneontology.org/formats/oboInOwl#ObsoleteClass rdf:type owl:Class ; rdfs:subClassOf owl:Thing ; rdfs:label "Obsolete Class"^^xsd:string . ################################################################# # Individuals ################################################################# ### http://purl.obolibrary.org/obo/BCO_0000069 obo:BCO_0000069 rdf:type owl:NamedIndividual ; rdfs:label "specimen collection process X"@en . ### http://purl.obolibrary.org/obo/BCO_0000070 obo:BCO_0000070 rdf:type owl:NamedIndividual ; obo:OBI_0000295 obo:BCO_0000069 ; rdfs:label "material entity A"@en . ### http://purl.obolibrary.org/obo/BCO_0000071 obo:BCO_0000071 rdf:type owl:NamedIndividual ; obo:OBI_0000295 obo:BCO_0000073 ; obo:OBI_0000312 obo:BCO_0000069 ; rdfs:label "material entity B"@en . ### http://purl.obolibrary.org/obo/BCO_0000072 obo:BCO_0000072 rdf:type owl:NamedIndividual ; obo:OBI_0000312 obo:BCO_0000073 ; rdfs:label "material entity C"@en . ### http://purl.obolibrary.org/obo/BCO_0000073 obo:BCO_0000073 rdf:type owl:NamedIndividual ; rdfs:label "specimen collection process Y"@en . ### http://purl.obolibrary.org/obo/BCO_0000075 obo:BCO_0000075 rdf:type owl:NamedIndividual , obo:IAO_0000078 ; rdfs:comment "false"^^xsd:boolean ; rdfs:label "incorrect identifier format, replaced"@en . ### http://purl.obolibrary.org/obo/bco.owl/BCO_0000075 :BCO_0000075 rdf:type owl:NamedIndividual ; obo:IAO_0000231 obo:BCO_0000075 ; rdfs:label "obsolete incorrect identifier format, do not use"@en ; owl:deprecated "true"^^xsd:boolean . [ obo:IAO_0000231 "" ] . ################################################################# # Annotations ################################################################# obo:IAO_0000120 rdfs:label "FossilSpecimen" . obo:OBI_0000112 obo:IAO_0000118 "material sample"@en . owl:deprecated "false"^^xsd:boolean ; obo:IAO_0000114 obo:IAO_0000428 . obo:IAO_0000114 obo:IAO_0000124 . obo:IAO_0000114 obo:IAO_0000123 . obo:IAO_0000114 obo:IAO_0000123 . obo:BCO_0000060 "geological context"@en ; obo:IAO_0000114 obo:IAO_0000124 . obo:IAO_0000116 "This Darwin Core class should not be used when annotating data with BCO. It is not mapped to BCO classes because its meaning is too ambiguous." ; obo:BCO_0000060 "occurrence" . rdfs:label "dwc_terms status"@en . ### Generated by the OWL API (version 4.5.9.2019-02-01T07:24:44Z) https://github.com/owlcs/owlapi