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ODKRepo-full.json
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ODKRepo-full.json
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{
"graphs" : [ {
"id" : "http://purl.obolibrary.org/obo/ODKRepo/ODKRepo-full.json",
"meta" : {
"basicPropertyValues" : [ {
"pred" : "http://purl.org/dc/terms/description",
"val" : "None"
}, {
"pred" : "http://purl.org/dc/terms/license",
"val" : "https://creativecommons.org/licenses/unspecified"
}, {
"pred" : "http://purl.org/dc/terms/title",
"val" : "ODK test repository"
}, {
"pred" : "http://www.w3.org/2002/07/owl#versionInfo",
"val" : "2023-04-18"
} ],
"version" : "http://purl.obolibrary.org/obo/ODKRepo/releases/2023-04-18/ODKRepo-full.json"
},
"nodes" : [ {
"id" : "http://purl.obolibrary.org/obo/IAO_0000002",
"lbl" : "example to be eventually removed",
"type" : "INDIVIDUAL",
"meta" : {
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "example to be eventually removed"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000078",
"lbl" : "curation status specification",
"type" : "CLASS",
"meta" : {
"definition" : {
"val" : "The curation status of the term. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value."
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "curation status specification"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000114",
"val" : "http://purl.obolibrary.org/obo/IAO_0000125"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000116",
"val" : "Better to represent curation as a process with parts and then relate labels to that process (in IAO meeting)"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000117",
"val" : "PERSON:Bill Bug"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000119",
"val" : "GROUP:OBI:<http://purl.obolibrary.org/obo/obi>"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000119",
"val" : "OBI_0000266"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000103",
"lbl" : "failed exploratory term",
"type" : "INDIVIDUAL",
"meta" : {
"definition" : {
"val" : "The term was used in an attempt to structure part of the ontology but in retrospect failed to do a good job"
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "failed exploratory term"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000117",
"val" : "Person:Alan Ruttenberg"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000225",
"lbl" : "obsolescence reason specification",
"type" : "CLASS",
"meta" : {
"definition" : {
"val" : "The reason for which a term has been deprecated. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value."
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "obsolescence reason specification"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000114",
"val" : "http://purl.obolibrary.org/obo/IAO_0000125"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000116",
"val" : "The creation of this class has been inspired in part by Werner Ceusters' paper, Applying evolutionary terminology auditing to the Gene Ontology."
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000117",
"val" : "PERSON: Alan Ruttenberg"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000117",
"val" : "PERSON: Melanie Courtot"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000120",
"lbl" : "metadata complete",
"type" : "INDIVIDUAL",
"meta" : {
"definition" : {
"val" : "Class has all its metadata, but is either not guaranteed to be in its final location in the asserted IS_A hierarchy or refers to another class that is not complete."
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "metadata complete"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000121",
"lbl" : "organizational term",
"type" : "INDIVIDUAL",
"meta" : {
"definition" : {
"val" : "Term created to ease viewing/sort terms for development purpose, and will not be included in a release"
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "organizational term"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000117",
"val" : "PERSON:Alan Ruttenberg"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000122",
"lbl" : "ready for release",
"type" : "INDIVIDUAL",
"meta" : {
"definition" : {
"val" : "Class has undergone final review, is ready for use, and will be included in the next release. Any class lacking \"ready_for_release\" should be considered likely to change place in hierarchy, have its definition refined, or be obsoleted in the next release. Those classes deemed \"ready_for_release\" will also derived from a chain of ancestor classes that are also \"ready_for_release.\""
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "ready for release"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000123",
"lbl" : "metadata incomplete",
"type" : "INDIVIDUAL",
"meta" : {
"definition" : {
"val" : "Class is being worked on; however, the metadata (including definition) are not complete or sufficiently clear to the branch editors."
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "metadata incomplete"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000124",
"lbl" : "uncurated",
"type" : "INDIVIDUAL",
"meta" : {
"definition" : {
"val" : "Nothing done yet beyond assigning a unique class ID and proposing a preferred term."
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "uncurated"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000125",
"lbl" : "pending final vetting",
"type" : "INDIVIDUAL",
"meta" : {
"definition" : {
"val" : "All definitions, placement in the asserted IS_A hierarchy and required minimal metadata are complete. The class is awaiting a final review by someone other than the term editor."
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "pending final vetting"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000226",
"lbl" : "placeholder removed",
"type" : "INDIVIDUAL",
"meta" : {
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "placeholder removed"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000227",
"lbl" : "terms merged",
"type" : "INDIVIDUAL",
"meta" : {
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "terms merged"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000116",
"val" : "An editor note should explain what were the merged terms and the reason for the merge."
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000228",
"lbl" : "term imported",
"type" : "INDIVIDUAL",
"meta" : {
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "term imported"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000116",
"val" : "This is to be used when the original term has been replaced by a term imported from an other ontology. An editor note should indicate what is the URI of the new term to use."
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000229",
"lbl" : "term split",
"type" : "INDIVIDUAL",
"meta" : {
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "term split"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000116",
"val" : "This is to be used when a term has been split in two or more new terms. An editor note should indicate the reason for the split and indicate the URIs of the new terms created."
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000410",
"lbl" : "universal",
"type" : "INDIVIDUAL",
"meta" : {
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "universal"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000116",
"val" : "Hard to give a definition for. Intuitively a \"natural kind\" rather than a collection of any old things, which a class is able to be, formally. At the meta level, universals are defined as positives, are disjoint with their siblings, have single asserted parents."
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000117",
"val" : "Alan Ruttenberg"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000119",
"val" : "A Formal Theory of Substances, Qualities, and Universals, http://ontology.buffalo.edu/bfo/SQU.pdf"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000409",
"lbl" : "denotator type",
"type" : "CLASS",
"meta" : {
"definition" : {
"val" : "A denotator type indicates how a term should be interpreted from an ontological perspective."
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "denotator type"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000112",
"val" : "The Basic Formal Ontology ontology makes a distinction between Universals and defined classes, where the formal are \"natural kinds\" and the latter arbitrary collections of entities."
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000117",
"val" : "Alan Ruttenberg"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000119",
"val" : "Barry Smith, Werner Ceusters"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000420",
"lbl" : "defined class",
"type" : "INDIVIDUAL",
"meta" : {
"definition" : {
"val" : "A defined class is a class that is defined by a set of logically necessary and sufficient conditions but is not a universal"
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "defined class"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000116",
"val" : "\"definitions\", in some readings, always are given by necessary and sufficient conditions. So one must be careful (and this is difficult sometimes) to distinguish between defined classes and universal."
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000117",
"val" : "Alan Ruttenberg"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000421",
"lbl" : "named class expression",
"type" : "INDIVIDUAL",
"meta" : {
"definition" : {
"val" : "A named class expression is a logical expression that is given a name. The name can be used in place of the expression."
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "named class expression"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000116",
"val" : "named class expressions are used in order to have more concise logical definition but their extensions may not be interesting classes on their own. In languages such as OWL, with no provisions for macros, these show up as actuall classes. Tools may with to not show them as such, and to replace uses of the macros with their expansions"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000117",
"val" : "Alan Ruttenberg"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000423",
"lbl" : "to be replaced with external ontology term",
"type" : "INDIVIDUAL",
"meta" : {
"definition" : {
"val" : "Terms with this status should eventually replaced with a term from another ontology."
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "to be replaced with external ontology term"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000117",
"val" : "Alan Ruttenberg"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000119",
"val" : "group:OBI"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000428",
"lbl" : "requires discussion",
"type" : "INDIVIDUAL",
"meta" : {
"definition" : {
"val" : "A term that is metadata complete, has been reviewed, and problems have been identified that require discussion before release. Such a term requires editor note(s) to identify the outstanding issues."
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "requires discussion"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000117",
"val" : "Alan Ruttenberg"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000119",
"val" : "group:OBI"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/OBI_0000317",
"lbl" : "Transformation-ML",
"type" : "INDIVIDUAL",
"meta" : {
"definition" : {
"val" : "Transformation-ML is a format standard of a digital entity that is conformant with the Transformation-ML standard.(http://wiki.ficcs.org/ficcs/Transformation-ML?action=AttachFile&do=get&target=Transformation-ML_v1.0.26.pdf)"
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "Transformation-ML"
}, {
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