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IDMP-592 - added properties for five prime and three prime to the nuc…
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…leic acid subunit, completing the properties needed to represent the subunit

Signed-off-by: Elisa Kendall <[email protected]>
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@ElisaKendall
ElisaKendall committed Sep 26, 2023
1 parent c7d5513 commit 972b641
Showing 1 changed file with 100 additions and 2 deletions.
102 changes: 100 additions & 2 deletions ISO/ISO11238-Substances.rdf
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Original file line number Diff line number Diff line change
Expand Up @@ -2146,13 +2146,59 @@ For the description of nucleic acids, the following information can be used to a

<owl:Class rdf:about="&idmp-sub;NucleicAcidSubunit">
<rdfs:subClassOf rdf:resource="&cmns-col;Constituent"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="&idmp-sub;hasFivePrimeSubstanceName"/>
<owl:onClass rdf:resource="&idmp-sub;SubstanceName"/>
<owl:maxQualifiedCardinality rdf:datatype="&xsd;nonNegativeInteger">1</owl:maxQualifiedCardinality>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="&idmp-sub;hasThreePrimeSubstanceName"/>
<owl:onClass rdf:resource="&idmp-sub;SubstanceName"/>
<owl:maxQualifiedCardinality rdf:datatype="&xsd;nonNegativeInteger">1</owl:maxQualifiedCardinality>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="&idmp-sub;hasSequenceAttachment"/>
<owl:onClass rdf:resource="&cmns-doc;Reference"/>
<owl:maxQualifiedCardinality rdf:datatype="&xsd;nonNegativeInteger">1</owl:maxQualifiedCardinality>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="&idmp-sub;hasFivePrimeSubstanceIdentifier"/>
<owl:onClass>
<owl:Class>
<owl:unionOf rdf:parseType="Collection">
<rdf:Description rdf:about="&idmp-sub;SubstanceCode">
</rdf:Description>
<rdf:Description rdf:about="&idmp-sub;SubstanceIdentifier">
</rdf:Description>
</owl:unionOf>
</owl:Class>
</owl:onClass>
<owl:maxQualifiedCardinality rdf:datatype="&xsd;nonNegativeInteger">1</owl:maxQualifiedCardinality>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="&idmp-sub;hasThreePrimeSubstanceIdentifier"/>
<owl:onClass>
<owl:Class>
<owl:unionOf rdf:parseType="Collection">
<rdf:Description rdf:about="&idmp-sub;SubstanceCode">
</rdf:Description>
<rdf:Description rdf:about="&idmp-sub;SubstanceIdentifier">
</rdf:Description>
</owl:unionOf>
</owl:Class>
</owl:onClass>
<owl:maxQualifiedCardinality rdf:datatype="&xsd;nonNegativeInteger">1</owl:maxQualifiedCardinality>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="&idmp-sub;hasSequenceLength"/>
Expand Down Expand Up @@ -5768,6 +5814,32 @@ In all these cases, a new ID shall be issued, that is, &apos;Human Albumin, Plas
<skos:definition>indicates any arrangement and/or organization of interrelated elements in a specification for a substance</skos:definition>
</owl:ObjectProperty>

<owl:ObjectProperty rdf:about="&idmp-sub;hasFivePrimeSubstanceIdentifier">
<rdfs:subPropertyOf rdf:resource="&idmp-sub;hasRelatedSubstanceIdentifier"/>
<rdfs:label>has five prime substance identifier</rdfs:label>
<skos:definition>relates a nucleic acid subunit to the unique identifier of the five prime</skos:definition>
<skos:example>JKUHT76541 (Artificial ID)</skos:example>
<idmp-sub:hasConformanceLevel rdf:resource="&idmp-sub;ConformanceLevel-Conditional"/>
<idmp-sub:hasValuesAllowed>ISO 11238 Substance ID</idmp-sub:hasValuesAllowed>
<idmp-dtp:isEncodedAs rdf:resource="&idmp-dtp;DatatypeCode-II"/>
<cmns-av:adaptedFrom>ISO/TS 19844:2018(E) Health informatics - Identification of medicinal products (IDMP) - Implementation guidelines for ISO 11238 for data elements and structures for the unique identification and exchange of regulated information on substances, clause and 7.3 and Figure 27</cmns-av:adaptedFrom>
<cmns-av:directSource>ISO 11238:2018 Health informatics - Identification of medicinal products (IDMP) - Data elements and structures for the unique identification and exchange of regulated information on substances, clause 7.5</cmns-av:directSource>
</owl:ObjectProperty>

<owl:ObjectProperty rdf:about="&idmp-sub;hasFivePrimeSubstanceName">
<rdfs:subPropertyOf rdf:resource="&idmp-sub;hasRelatedSubstanceName"/>
<rdfs:label>has five prime substance name</rdfs:label>
<skos:definition>relates a nucleic acid subunit to the nucleotide present at the 5&apos; terminal</skos:definition>
<skos:example>Tymidine (T)</skos:example>
<skos:note>The nucleotide present at the 5&apos; terminal should be specified based on a controlled vocabulary. Since the sequence is represented from the 5&apos; to the 3&apos;end, the 5&apos; prime nucleotide is the letter at the first position in the sequence. A separate representation would be redundant.</skos:note>
<idmp-sub:hasBusinessRules>Implicit. If not specified in the available reference source this value shall be derived from the nucleic acid sequence.</idmp-sub:hasBusinessRules>
<idmp-sub:hasConformanceLevel rdf:resource="&idmp-sub;ConformanceLevel-Conditional"/>
<idmp-sub:hasValuesAllowed>ISO 11238 Substance Name</idmp-sub:hasValuesAllowed>
<idmp-dtp:isEncodedAs rdf:resource="&idmp-dtp;DatatypeCode-ST"/>
<cmns-av:adaptedFrom>ISO/TS 19844:2018(E) Health informatics - Identification of medicinal products (IDMP) - Implementation guidelines for ISO 11238 for data elements and structures for the unique identification and exchange of regulated information on substances, clause and 7.3 and Figure 27</cmns-av:adaptedFrom>
<cmns-av:directSource>ISO 11238:2018 Health informatics - Identification of medicinal products (IDMP) - Data elements and structures for the unique identification and exchange of regulated information on substances, clause 7.5</cmns-av:directSource>
</owl:ObjectProperty>

<owl:ObjectProperty rdf:about="&idmp-sub;hasGranularMolecularPart">
<rdfs:subPropertyOf rdf:resource="&idmp-sub;hasGranularPart"/>
<rdfs:label>has granular molecular part</rdfs:label>
Expand Down Expand Up @@ -6397,7 +6469,7 @@ In all these cases, a new ID shall be issued, that is, &apos;Human Albumin, Plas
</owl:unionOf>
</owl:Class>
</rdfs:range>
<skos:definition>relates a substance relationship to the substance, moiety, or physical substance that is the target of the relationship</skos:definition>
<skos:definition>relates something, such as a substance relationship, to the substance, moiety, or physical substance that is the target of the relationship</skos:definition>
<idmp-sub:hasConformanceLevel rdf:resource="&idmp-sub;ConformanceLevel-Conditional"/>
<cmns-av:adaptedFrom>ISO 11238:2018 Health informatics - Identification of medicinal products (IDMP) - Data elements and structures for the unique identification and exchange of regulated information on substances, clause 7.2.4 and Figure 16</cmns-av:adaptedFrom>
<cmns-av:adaptedFrom>ISO/TS 19844:2018(E) Health informatics - Identification of medicinal products (IDMP) - Implementation guidelines for ISO 11238 for data elements and structures for the unique identification and exchange of regulated information on substances, clause 6.6 and Figure 8</cmns-av:adaptedFrom>
Expand All @@ -6411,7 +6483,7 @@ In all these cases, a new ID shall be issued, that is, &apos;Human Albumin, Plas
<rdf:Description rdf:about="&cmns-id;isIdentifiedBy">
</rdf:Description>
</owl:propertyChainAxiom>
<skos:definition>relates a substance that is the target in a substance relationship relationship to an identifier for that substance, moiety, or physical substance</skos:definition>
<skos:definition>relates a substance that is the target in a substance relationship to an identifier for that substance, moiety, or physical substance</skos:definition>
<idmp-sub:hasConformanceLevel rdf:resource="&idmp-sub;ConformanceLevel-Conditional"/>
<idmp-sub:hasValuesAllowed>ISO 11238 Substance ID</idmp-sub:hasValuesAllowed>
<idmp-dtp:isEncodedAs rdf:resource="&idmp-dtp;DatatypeCode-II"/>
Expand Down Expand Up @@ -6777,6 +6849,32 @@ In all these cases, a new ID shall be issued, that is, &apos;Human Albumin, Plas
<cmns-av:adaptedFrom>ISO/TS 19844:2018(E) Health informatics - Identification of medicinal products (IDMP) - Implementation guidelines for ISO 11238 for data elements and structures for the unique identification and exchange of regulated information on substances, clause 6.6.4.6 and Figure 8</cmns-av:adaptedFrom>
</owl:ObjectProperty>

<owl:ObjectProperty rdf:about="&idmp-sub;hasThreePrimeSubstanceIdentifier">
<rdfs:subPropertyOf rdf:resource="&idmp-sub;hasRelatedSubstanceIdentifier"/>
<rdfs:label>has three prime substance identifier</rdfs:label>
<skos:definition>relates a nucleic acid subunit to the unique identifier of the three prime</skos:definition>
<skos:example>JKUHT76541 (Artificial ID)</skos:example>
<idmp-sub:hasConformanceLevel rdf:resource="&idmp-sub;ConformanceLevel-Conditional"/>
<idmp-sub:hasValuesAllowed>ISO 11238 Substance ID</idmp-sub:hasValuesAllowed>
<idmp-dtp:isEncodedAs rdf:resource="&idmp-dtp;DatatypeCode-II"/>
<cmns-av:adaptedFrom>ISO/TS 19844:2018(E) Health informatics - Identification of medicinal products (IDMP) - Implementation guidelines for ISO 11238 for data elements and structures for the unique identification and exchange of regulated information on substances, clause and 7.3 and Figure 27</cmns-av:adaptedFrom>
<cmns-av:directSource>ISO 11238:2018 Health informatics - Identification of medicinal products (IDMP) - Data elements and structures for the unique identification and exchange of regulated information on substances, clause 7.5</cmns-av:directSource>
</owl:ObjectProperty>

<owl:ObjectProperty rdf:about="&idmp-sub;hasThreePrimeSubstanceName">
<rdfs:subPropertyOf rdf:resource="&idmp-sub;hasRelatedSubstanceName"/>
<rdfs:label>has three prime substance name</rdfs:label>
<skos:definition>relates a nucleic acid subunit to the nucleotide present at the 3&apos; terminal</skos:definition>
<skos:example>Thymine (T)</skos:example>
<skos:note>The nucleotide present at the 3’ terminal should be specified based on a controlled vocabulary. Since the sequence is represented from the 5&apos; to the 3&apos; end, the 5’ prime nucleotide is the letter at the last position in the sequence. A separate representation would be redundant.</skos:note>
<idmp-sub:hasBusinessRules>NOTE If not specified in the available reference source this value is derived from the nucleic acid sequence.</idmp-sub:hasBusinessRules>
<idmp-sub:hasConformanceLevel rdf:resource="&idmp-sub;ConformanceLevel-Conditional"/>
<idmp-sub:hasValuesAllowed>ISO 11238 Substance Name</idmp-sub:hasValuesAllowed>
<idmp-dtp:isEncodedAs rdf:resource="&idmp-dtp;DatatypeCode-ST"/>
<cmns-av:adaptedFrom>ISO/TS 19844:2018(E) Health informatics - Identification of medicinal products (IDMP) - Implementation guidelines for ISO 11238 for data elements and structures for the unique identification and exchange of regulated information on substances, clause and 7.3 and Figure 27</cmns-av:adaptedFrom>
<cmns-av:directSource>ISO 11238:2018 Health informatics - Identification of medicinal products (IDMP) - Data elements and structures for the unique identification and exchange of regulated information on substances, clause 7.5</cmns-av:directSource>
</owl:ObjectProperty>

<owl:AnnotationProperty rdf:about="&idmp-sub;hasValuesAllowed">
<rdfs:label>has values allowed</rdfs:label>
<skos:definition>describes the nature of valid values for a given class or element in cases where that information is encoded as a string rather than as a value domain per the ISO 19844 guideline</skos:definition>
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