This page is part of the HL7 FHIR Implementation Guide: minimal Common Oncology Data Elements (mCODE) Release 1 - US Realm | STU1 (v1.0.0: STU 1) based on FHIR R4. The current version which supercedes this version is 2.0.0. For a full list of available versions, see the Directory of published versions

mCODECancerGeneticVariantExample01 - XML Representation

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<Observation xmlns="http://hl7.org/fhir">
  <id value="mCODECancerGeneticVariantExample01"/>
  <meta>
    <profile
             value="http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-cancer-genetic-variant"/>
  </meta>
  <text>
    <status value="generated"/>
    <div xmlns="http://www.w3.org/1999/xhtml"><p><b>Generated Narrative with Details</b></p><p><b>id</b>: mCODECancerGeneticVariantExample01</p><p><b>meta</b>: </p><p><b>status</b>: final</p><p><b>category</b>: Laboratory <span style="background: LightGoldenRodYellow">(Details : {http://terminology.hl7.org/CodeSystem/observation-category code 'laboratory' = 'Laboratory)</span></p><p><b>code</b>: Genetic variant assessment <span style="background: LightGoldenRodYellow">(Details : {LOINC code '69548-6' = 'Genetic variant assessment)</span></p><p><b>subject</b>: <a href="Observation-mCODECancerGeneticVariantExample01.html">Generated Summary: id: mCODEPatientExample01; Medical record number = m123 (USUAL); John B. Anyperson ; gender: male; birthDate: 1951-01-20</a></p><p><b>effective</b>: Apr 1, 2019 12:00:00 AM</p><p><b>value</b>: Present <span style="background: LightGoldenRodYellow">(Details : {LOINC code 'LA9633-4' = 'Present)</span></p><p><b>method</b>: Sequencing <span style="background: LightGoldenRodYellow">(Details : {LOINC code 'LA26398-0' = 'Sequencing)</span></p><blockquote><p><b>component</b></p><p><b>code</b>: Gene studied [ID] <span style="background: LightGoldenRodYellow">(Details : {LOINC code '48018-6' = 'Gene studied [ID])</span></p><p><b>value</b>: HGNC:11389 <span style="background: LightGoldenRodYellow">(Details : {http://www.genenames.org/geneId code 'HGNC:11389' = 'HGNC:11389)</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: Discrete genetic variant <span style="background: LightGoldenRodYellow">(Details : {LOINC code '81252-9' = 'Discrete genetic variant)</span></p><p><b>value</b>: 619728 <span style="background: LightGoldenRodYellow">(Details : {http://www.ncbi.nlm.nih.gov/clinvar code '619728' = '619728)</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: Genomic DNA change (gHGVS) <span style="background: LightGoldenRodYellow">(Details : {LOINC code '81290-9' = 'Genomic DNA change (gHGVS))</span></p><p><b>value</b>: NC_000019.8:g.1171707G&gt;A <span style="background: LightGoldenRodYellow">(Details : {http://varnomen.hgvs.org code 'NC_000019.8:g.1171707G&gt;A' = 'NC_000019.8:g.1171707G&gt;A)</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: Genomic source class [Type] <span style="background: LightGoldenRodYellow">(Details : {LOINC code '48002-0' = 'Genomic source class [Type])</span></p><p><b>value</b>: Somatic <span style="background: LightGoldenRodYellow">(Details : {LOINC code 'LA6684-0' = 'Somatic)</span></p></blockquote></div>
  </text>
  <status value="final"/>
  <category>
    <coding>
      <system value="http://terminology.hl7.org/CodeSystem/observation-category"/>
      <code value="laboratory"/>
    </coding>
  </category>
  <code>
    <coding>
      <system value="http://loinc.org"/>
      <code value="69548-6"/>
    </coding>
  </code>
  <subject>
    <reference value="Patient/mCODEPatientExample01"/>
  </subject>
  <effectiveDateTime value="2019-04-01"/>
  <valueCodeableConcept>
    <coding>
      <system value="http://loinc.org"/>
      <code value="LA9633-4"/>
    </coding>
  </valueCodeableConcept>
  <method>
    <coding>
      <system value="http://loinc.org"/>
      <code value="LA26398-0"/>
    </coding>
  </method>
  <component>
    <code>
      <coding>
        <system value="http://loinc.org"/>
        <code value="48018-6"/>
      </coding>
    </code>
    <valueCodeableConcept>
      <coding>
        <system value="http://www.genenames.org/geneId"/>
        <code value="HGNC:11389"/>
      </coding>
    </valueCodeableConcept>
  </component>
  <component>
    <code>
      <coding>
        <system value="http://loinc.org"/>
        <code value="81252-9"/>
      </coding>
    </code>
    <valueCodeableConcept>
      <coding>
        <system value="http://www.ncbi.nlm.nih.gov/clinvar"/>
        <code value="619728"/>
      </coding>
    </valueCodeableConcept>
  </component>
  <component>
    <code>
      <coding>
        <system value="http://loinc.org"/>
        <code value="81290-9"/>
      </coding>
    </code>
    <valueCodeableConcept>
      <coding>
        <system value="http://varnomen.hgvs.org"/>
        <code value="NC_000019.8:g.1171707G&gt;A"/>
      </coding>
    </valueCodeableConcept>
  </component>
  <component>
    <code>
      <coding>
        <system value="http://loinc.org"/>
        <code value="48002-0"/>
      </coding>
    </code>
    <valueCodeableConcept>
      <coding>
        <system value="http://loinc.org"/>
        <code value="LA6684-0"/>
      </coding>
    </valueCodeableConcept>
  </component>
</Observation>