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Sequence-example.ttl

Clinical Genomics Work GroupMaturity Level: N/ABallot Status: InformativeCompartments: Not linked to any defined compartments

Raw Turtle (+ also see Turtle/RDF Format Specification)

Simple sequence example

@prefix fhir: <http://hl7.org/fhir/> .
@prefix owl: <http://www.w3.org/2002/07/owl#> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .

# - resource -------------------------------------------------------------------

<http://hl7.org/fhir/Sequence/example> a fhir:Sequence;
  fhir:nodeRole fhir:treeRoot;
  fhir:Resource.id [ fhir:value "example"];
  fhir:DomainResource.text [
     fhir:Narrative.status [ fhir:value "generated" ];
     fhir:Narrative.div "<div xmlns=\"http://www.w3.org/1999/xhtml\"><p><b>Generated Narrative with Details</b></p><p><b>id</b>: example</p><p><b>type</b>: dna</p><p><b>coordinateSystem</b>: 0</p><p><b>patient</b>: <a>Patient/example</a></p><h3>ReferenceSeqs</h3><table><tr><td>-</td><td><b>ReferenceSeqId</b></td><td><b>Strand</b></td><td><b>WindowStart</b></td><td><b>WindowEnd</b></td></tr><tr><td>*</td><td>NC_000009.11 <span>(Details : {http://www.ncbi.nlm.nih.gov/nuccore code 'NC_000009.11' = 'NC_000009.11)</span></td><td>watson</td><td>22125500</td><td>22125510</td></tr></table><h3>Variants</h3><table><tr><td>-</td><td><b>Start</b></td><td><b>End</b></td><td><b>ObservedAllele</b></td><td><b>ReferenceAllele</b></td></tr><tr><td>*</td><td>22125503</td><td>22125504</td><td>C</td><td>G</td></tr></table><h3>Repositories</h3><table><tr><td>-</td><td><b>Type</b></td><td><b>Url</b></td><td><b>Name</b></td><td><b>VariantsetId</b></td></tr><tr><td>*</td><td>openapi</td><td><a>http://grch37.rest.ensembl.org/ga4gh/variants/3:rs1333049?content-type=application/json</a></td><td>GA4GH API</td><td>3:rs1333049</td></tr></table></div>"
  ];
  fhir:Sequence.type [ fhir:value "dna"];
  fhir:Sequence.coordinateSystem [ fhir:value "0"^^xsd:integer];
  fhir:Sequence.patient [
     fhir:link <http://hl7.org/fhir/Patient/example>;
     fhir:Reference.reference [ fhir:value "Patient/example" ]
  ];
  fhir:Sequence.referenceSeq [
     fhir:Sequence.referenceSeq.referenceSeqId [
       fhir:CodeableConcept.coding [
         fhir:index 0;
         fhir:Coding.system [ fhir:value "http://www.ncbi.nlm.nih.gov/nuccore" ];
         fhir:Coding.code [ fhir:value "NC_000009.11" ]
       ]
     ];
     fhir:Sequence.referenceSeq.strand [ fhir:value "watson" ];
     fhir:Sequence.referenceSeq.windowStart [ fhir:value "22125500"^^xsd:integer ];
     fhir:Sequence.referenceSeq.windowEnd [ fhir:value "22125510"^^xsd:integer ]
  ];
  fhir:Sequence.variant [
     fhir:index 0;
     fhir:Sequence.variant.start [ fhir:value "22125503"^^xsd:integer ];
     fhir:Sequence.variant.end [ fhir:value "22125504"^^xsd:integer ];
     fhir:Sequence.variant.observedAllele [ fhir:value "C" ];
     fhir:Sequence.variant.referenceAllele [ fhir:value "G" ]
  ];
  fhir:Sequence.repository [
     fhir:index 0;
     fhir:Sequence.repository.type [ fhir:value "openapi" ];
     fhir:Sequence.repository.url [ fhir:value "http://grch37.rest.ensembl.org/ga4gh/variants/3:rs1333049?content-type=application/json" ];
     fhir:Sequence.repository.name [ fhir:value "GA4GH API" ];
     fhir:Sequence.repository.variantsetId [ fhir:value "3:rs1333049" ]
  ] .

<http://hl7.org/fhir/Patient/example> a fhir:Patient .

# - ontology header ------------------------------------------------------------

<http://hl7.org/fhir/Sequence/example.ttl> a owl:Ontology;
  owl:imports fhir:fhir.ttl;
  owl:versionIRI <http://build.fhir.org/Sequence/example.ttl> .

# -------------------------------------------------------------------------------------


Usage note: every effort has been made to ensure that the examples are correct and useful, but they are not a normative part of the specification.