Clinical Genomics Resource Incubator
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Clinical Genomics Resource Incubator, published by HL7 International / Clinical Genomics. This guide is not an authorized publication; it is the continuous build for version 0.1.0-ci-build built by the FHIR (HL7® FHIR® Standard) CI Build. This version is based on the current content of https://github.com/HL7/cg-incubator/ and changes regularly. See the Directory of published versions

: NCBI Taxonomy (fragment)

Page standards status: Trial-use Maturity Level: 1

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<CodeSystem xmlns="http://hl7.org/fhir">
  <id value="ncbi-taxonomy-fragment"/>
  <language value="en"/>
  <text>
    <status value="generated"/>
    <div xmlns="http://www.w3.org/1999/xhtml"><p class="res-header-id"><b>Generated Narrative: CodeSystem ncbi-taxonomy-fragment</b></p><a name="ncbi-taxonomy-fragment"> </a><a name="hcncbi-taxonomy-fragment"> </a><p>This case-insensitive code system <code>http://www.ncbi.nlm.nih.gov/taxonomy</code> provides <b>a fragment</b> that includes following codes:</p><table class="codes"><tr><td style="white-space:nowrap"><b>Code</b></td><td><b>Display</b></td></tr><tr><td style="white-space:nowrap">9606<a name="ncbi-taxonomy-fragment-9606"> </a></td><td>Homo sapiens</td></tr><tr><td style="white-space:nowrap">10090<a name="ncbi-taxonomy-fragment-10090"> </a></td><td>Mus musculus</td></tr><tr><td style="white-space:nowrap">10116<a name="ncbi-taxonomy-fragment-10116"> </a></td><td>Rattus norvegicus</td></tr><tr><td style="white-space:nowrap">7955<a name="ncbi-taxonomy-fragment-7955"> </a></td><td>Danio rerio</td></tr><tr><td style="white-space:nowrap">2697049<a name="ncbi-taxonomy-fragment-2697049"> </a></td><td>Severe acute respiratory syndrome coronavirus 2</td></tr><tr><td style="white-space:nowrap">11520<a name="ncbi-taxonomy-fragment-11520"> </a></td><td>Influenza B virus</td></tr><tr><td style="white-space:nowrap">11320<a name="ncbi-taxonomy-fragment-11320"> </a></td><td>Influenza A virus</td></tr><tr><td style="white-space:nowrap">11234<a name="ncbi-taxonomy-fragment-11234"> </a></td><td>Measles morbillivirus</td></tr><tr><td style="white-space:nowrap">11250<a name="ncbi-taxonomy-fragment-11250"> </a></td><td>Human orthopneumovirus</td></tr><tr><td style="white-space:nowrap">12227<a name="ncbi-taxonomy-fragment-12227"> </a></td><td>Human rhinovirus A</td></tr><tr><td style="white-space:nowrap">11103<a name="ncbi-taxonomy-fragment-11103"> </a></td><td>Hepacivirus C</td></tr><tr><td style="white-space:nowrap">10359<a name="ncbi-taxonomy-fragment-10359"> </a></td><td>Human cytomegalovirus</td></tr><tr><td style="white-space:nowrap">10376<a name="ncbi-taxonomy-fragment-10376"> </a></td><td>Human herpesvirus 4</td></tr></table></div>
  </text>
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             url="http://hl7.org/fhir/StructureDefinition/structuredefinition-wg">
    <valueCode value="cg"/>
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    </valueCode>
  </extension>
  <url value="http://www.ncbi.nlm.nih.gov/taxonomy"/>
  <version value="0.1.0-ci-build"/>
  <name value="NCBITaxonomyFragment"/>
  <title value="NCBI Taxonomy (fragment)"/>
  <status value="active"/>
  <experimental value="false"/>
  <date value="2026-03-16"/>
  <publisher value="HL7 International / Clinical Genomics"/>
  <contact>
    <name value="HL7 International / Clinical Genomics"/>
    <telecom>
      <system value="url"/>
      <value value="http://www.hl7.org/Special/committees/clingenomics"/>
    </telecom>
    <telecom>
      <system value="email"/>
      <value value="clingenomics@lists.hl7.org"/>
    </telecom>
  </contact>
  <description
               value="A fragment of the NCBI Taxonomy database (https://www.ncbi.nlm.nih.gov/taxonomy) containing taxon IDs referenced by examples and profiles in this IG. Numeric taxon IDs are used as codes; scientific names are used as display text. This fragment covers commonly used research organisms and representative clinical viral pathogens. Add entries here as new examples reference additional taxon IDs."/>
  <jurisdiction>
    <coding>
      <system value="http://unstats.un.org/unsd/methods/m49/m49.htm"/>
      <code value="001"/>
      <display value="World"/>
    </coding>
  </jurisdiction>
  <copyright
             value="NCBI Taxonomy data is a product of the National Center for Biotechnology Information (NCBI), part of the National Library of Medicine at the National Institutes of Health. The database is freely available in the public domain."/>
  <caseSensitive value="false"/>
  <content value="fragment"/>
  <concept>
    <code value="9606"/>
    <display value="Homo sapiens"/>
  </concept>
  <concept>
    <code value="10090"/>
    <display value="Mus musculus"/>
  </concept>
  <concept>
    <code value="10116"/>
    <display value="Rattus norvegicus"/>
  </concept>
  <concept>
    <code value="7955"/>
    <display value="Danio rerio"/>
  </concept>
  <concept>
    <code value="2697049"/>
    <display value="Severe acute respiratory syndrome coronavirus 2"/>
  </concept>
  <concept>
    <code value="11520"/>
    <display value="Influenza B virus"/>
  </concept>
  <concept>
    <code value="11320"/>
    <display value="Influenza A virus"/>
  </concept>
  <concept>
    <code value="11234"/>
    <display value="Measles morbillivirus"/>
  </concept>
  <concept>
    <code value="11250"/>
    <display value="Human orthopneumovirus"/>
  </concept>
  <concept>
    <code value="12227"/>
    <display value="Human rhinovirus A"/>
  </concept>
  <concept>
    <code value="11103"/>
    <display value="Hepacivirus C"/>
  </concept>
  <concept>
    <code value="10359"/>
    <display value="Human cytomegalovirus"/>
  </concept>
  <concept>
    <code value="10376"/>
    <display value="Human herpesvirus 4"/>
  </concept>
</CodeSystem>