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Commit b1fe74b9 authored by Vasundra Touré's avatar Vasundra Touré
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restructured repo + added dataset

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README.md
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# SPHN ontology
The SPHN ontology project contains the SPHN RDF schema.
The SPHN ontology project contains the SPHN RDF schema and other related content such as the SPHN Dataset and SPARQL queries.
## SPHN RDF schema
The schema is derived from the SPHN Dataset accessible at: [https://sphn.ch/document/sphn-dataset/](https://sphn.ch/document/sphn-dataset/).
The schema is provided in turtle (.ttl) and in OWL/XML (.owl) formats. This RDF schema does include links to other external ontologies such as SNOMED CT. These external terminologies in RDF are accessible upon request to the DCC [dcc@sib.swiss](mailto:dcc@sib.swiss).
The schema is derived from the [SPHN Dataset](https://sphn.ch/document/sphn-dataset/) accessible on the [excel](https://git.dcc.sib.swiss/sphn-semantic-framework/sphn-ontology/-/blob/master/excel) folder.
The schema is provided in Turtle (.ttl) and in OWL/XML (.owl) formats in the [ontology](https://git.dcc.sib.swiss/sphn-semantic-framework/sphn-ontology/-/blob/master/ontology) folder. This RDF schema does include links to other external ontologies such as SNOMED CT. These external terminologies in RDF are accessible upon request to the DCC [dcc@sib.swiss](mailto:dcc@sib.swiss).
The SPHN RDF schema is also available directly in WebProtégé at:
https://webprotege.dcc.sib.swiss/#projects/ad51bfb9-33f3-4eba-bfc7-b459955b51c7/edit/Classes.
> Note: the DCC instance of WebProtégé is accessible through a login. Please contact dcc@sibs.swiss for obtaining one.
## Change notes
## Official releases
New update from the 02.06.2021:
* fixing typo in __https://biomedit.ch/rdf/sphn-ontology/sphn/SustanceAmount__ changed to __https://biomedit.ch/rdf/sphn-ontology/sphn/SubstanceAmount__
* fixing meaning binding of __Body temperature (https://loinc.org/rdf/8310-5)__ from __Body temperature (observable entity) (http://snomed.info/id/386725007)__ to __Body Temperature https://biomedit.ch/rdf/sphn-ontology/BodyTemperature__
* added Range to hasMeasuredValue: __xsd:double__
* updated description of hasMeasuredValue
* added Range to hasDiagnosticExaminationUnit: __Unit__
* [2021.1 release](https://git.dcc.sib.swiss/sphn-semantic-framework/sphn-ontology/-/tags/2021-1)
## Documentation
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excel/README.md 0 → 100644
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# SPHN Dataset (excel)
Contains the SPHN semantics in an Excel format, from which the SPHN RDF ontology is based on.
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ontology/README.md 0 → 100644
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# SPHN RDF schema
The SPHN RDF schema is available both as Turtle (.ttl) and OWL/XML(.owl) files.
## Change notes
New update from the 02.06.2021:
* fixing typo in __https://biomedit.ch/rdf/sphn-ontology/sphn/SustanceAmount__ changed to __https://biomedit.ch/rdf/sphn-ontology/sphn/SubstanceAmount__
* fixing meaning binding of __Body temperature (https://loinc.org/rdf/8310-5)__ from __Body temperature (observable entity) (http://snomed.info/id/386725007)__ to __Body Temperature https://biomedit.ch/rdf/sphn-ontology/BodyTemperature__
* added Range to hasMeasuredValue: __xsd:double__
* updated description of hasMeasuredValue
* added Range to hasDiagnosticExaminationUnit: __Unit__
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sphn_ontology.owl → ontology/sphn_ontology.owl
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......@@ -7,7 +7,7 @@
xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
ontologyIRI="https://biomedit.ch/rdf/sphn-ontology/sphn"
versionIRI="https://biomedit.ch/rdf/sphn-ontology/sphn/2021/1">
<Prefix name="" IRI="https://biomedit.ch/rdf/sphn-ontology/sphn#"/>
<Prefix name="" IRI="https://biomedit.ch/rdf/sphn-ontology/sphn"/>
<Prefix name="dc" IRI="http://purl.org/dc/elements/1.1/"/>
<Prefix name="atc" IRI="https://biomedit.ch/rdf/sphn-resource/atc/"/>
<Prefix name="dct" IRI="http://purl.org/dc/terms/"/>
......@@ -595,7 +595,7 @@
<ObjectProperty IRI="#hasRadiotherapyProcedureUnit"/>
</Declaration>
<Declaration>
<ObjectProperty IRI="#hasSimpleScorescoringSystemCode"/>
<ObjectProperty IRI="#hasSimpleScoreScoringSystemCode"/>
</Declaration>
<Declaration>
<ObjectProperty IRI="#hasSubjectPseudoIdentifier"/>
......@@ -3874,7 +3874,7 @@
<ObjectProperty IRI="#hasUnit"/>
</SubObjectPropertyOf>
<SubObjectPropertyOf>
<ObjectProperty IRI="#hasSimpleScorescoringSystemCode"/>
<ObjectProperty IRI="#hasSimpleScoreScoringSystemCode"/>
<ObjectProperty IRI="#hasCode"/>
</SubObjectPropertyOf>
<SubObjectPropertyOf>
......@@ -4503,7 +4503,7 @@
<Class IRI="#RadiotherapyProcedure"/>
</ObjectPropertyDomain>
<ObjectPropertyDomain>
<ObjectProperty IRI="#hasSimpleScorescoringSystemCode"/>
<ObjectProperty IRI="#hasSimpleScoreScoringSystemCode"/>
<Class IRI="#SimpleScore"/>
</ObjectPropertyDomain>
<ObjectPropertyDomain>
......@@ -5404,7 +5404,7 @@
<Class IRI="#Unit"/>
</ObjectPropertyRange>
<ObjectPropertyRange>
<ObjectProperty IRI="#hasSimpleScorescoringSystemCode"/>
<ObjectProperty IRI="#hasSimpleScoreScoringSystemCode"/>
<ObjectUnionOf>
<Class IRI="http://snomed.info/id/169895004"/>
<Class IRI="http://snomed.info/id/169909004"/>
......@@ -10029,23 +10029,23 @@
</AnnotationAssertion>
<AnnotationAssertion>
<AnnotationProperty abbreviatedIRI="rdfs:comment"/>
<IRI>#hasSimpleScoreValue</IRI>
<Literal>value of an element</Literal>
<IRI>#hasSimpleScoreScoringSystemCode</IRI>
<Literal>code, name, coding system and version of the scoring system</Literal>
</AnnotationAssertion>
<AnnotationAssertion>
<AnnotationProperty abbreviatedIRI="rdfs:label"/>
<IRI>#hasSimpleScoreValue</IRI>
<Literal>has simple score value</Literal>
<IRI>#hasSimpleScoreScoringSystemCode</IRI>
<Literal>has simple score scoring system code</Literal>
</AnnotationAssertion>
<AnnotationAssertion>
<AnnotationProperty abbreviatedIRI="rdfs:comment"/>
<IRI>#hasSimpleScorescoringSystemCode</IRI>
<Literal>code, name, coding system and version of the scoring system</Literal>
<IRI>#hasSimpleScoreValue</IRI>
<Literal>value of an element</Literal>
</AnnotationAssertion>
<AnnotationAssertion>
<AnnotationProperty abbreviatedIRI="rdfs:label"/>
<IRI>#hasSimpleScorescoringSystemCode</IRI>
<Literal>has simple score scoring system code</Literal>
<IRI>#hasSimpleScoreValue</IRI>
<Literal>has simple score value</Literal>
</AnnotationAssertion>
<AnnotationAssertion>
<AnnotationProperty abbreviatedIRI="rdfs:comment"/>
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sphn_ontology.ttl → ontology/sphn_ontology.ttl
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......@@ -1573,8 +1573,8 @@ sphn:hasRadiotherapyProcedureUnit rdf:type owl:ObjectProperty ;
skos:note "unit must be 'Gy', 'cGy', 'mCi' or 'MBq'" .
### https://biomedit.ch/rdf/sphn-ontology/sphn#hasSimpleScorescoringSystemCode
sphn:hasSimpleScorescoringSystemCode rdf:type owl:ObjectProperty ;
### https://biomedit.ch/rdf/sphn-ontology/sphn#hasSimpleScoreScoringSystemCode
sphn:hasSimpleScoreScoringSystemCode rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf sphn:hasCode ;
rdfs:domain sphn:SimpleScore ;
rdfs:range [ rdf:type owl:Class ;
......
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