PROTECT-CHILD DM microbiology variables - XML Representation - PROTECT-CHILD Pediatric Transplant Data Implementation Guide v0.1.0-ci-build

PROTECT-CHILD Pediatric Transplant Data Implementation Guide, published by Protect Child. 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-eu/protect-child/ and changes regularly. See the Directory of published versions
: PROTECT-CHILD DM microbiology variables - XML Representation

Draft as of 2026-09-28
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<ValueSet xmlns="http://hl7.org/fhir">
  <id value="dm-microbiology-variable-vs"/>
  <text>
    <status value="extensions"/>
    <div xmlns="http://www.w3.org/1999/xhtml"><p class="res-header-id"><b>Generated Narrative: ValueSet dm-microbiology-variable-vs</b></p><a name="dm-microbiology-variable-vs"> </a><a name="hcdm-microbiology-variable-vs"> </a><ul><li>Include these codes as defined in <a href="CodeSystem-dm-variable-cs.html"><code>https://hl7.eu/fhir/ig/hl7.eu.fhir.protect-child/CodeSystem/dm-variable-cs</code></a><span title="Version is not explicitly stated, which means it is fixed to the version provided in this specification"> version &#x1F4E6;0.1.0-ci-build</span><table class="none"><tr><td style="white-space:nowrap"><b>Code</b></td><td><b>Display</b></td><td><b>Definition</b></td><td><b><a href="ConceptMap-dm-microbiology-to-fhir.html">DM microbiology columns → FHIR test codes</a></b></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46ebv_dna">microbiology.ebv_dna</a></td><td style="color: #cccccc">microbiology.ebv_dna</td><td>DMv1.2 column microbiology.ebv_dna: EBV nucleic acid test result.</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/5002-1/">5002-1</a><i>(MicrobiologyNucleicAcid.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46ebv_dna_copies">microbiology.ebv_dna_copies</a></td><td style="color: #cccccc">microbiology.ebv_dna_copies</td><td>DMv1.2 column microbiology.ebv_dna_copies: EBV-DNA (copies/ml).</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/36923-1/">36923-1</a><i>(MicrobiologyViralLoad.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46ebv_igm_anti_ea">microbiology.ebv_igm_anti_ea</a></td><td style="color: #cccccc">microbiology.ebv_igm_anti_ea</td><td>DMv1.2 column microbiology.ebv_igm_anti_ea: Presence of IgM antibodies against Epstein–Barr virus Early Antigen (EA).</td><td><span title="EQUIVALENT">~</span><a href="CodeSystem-microbiology-cs.html#microbiology-cs-ebv-ea-igm">ebv-ea-igm</a><i>(MicrobiologySerology.code. LOINC has no IgM-specific EBV early-antigen code; 7882-4 (early Ab, any isotype) is broader.)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46ebv_igm_anti_vca">microbiology.ebv_igm_anti_vca</a></td><td style="color: #cccccc">microbiology.ebv_igm_anti_vca</td><td>DMv1.2 column microbiology.ebv_igm_anti_vca: Presence of IgM antibodies against EBV Viral Capsid Antigen (VCA).</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/30340-4/">30340-4</a><i>(MicrobiologySerology.code. The OMOP sheet maps this to 3012732 (EBNA IgM, LOINC 7884-0), which is a different antigen.)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46ebv_igg_anti_vca">microbiology.ebv_igg_anti_vca</a></td><td style="color: #cccccc">microbiology.ebv_igg_anti_vca</td><td>DMv1.2 column microbiology.ebv_igg_anti_vca: Presence of IgG antibodies against EBV Viral Capsid Antigen (VCA).</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/30339-6/">30339-6</a><i>(MicrobiologySerology.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46ebv_igg_ebna">microbiology.ebv_igg_ebna</a></td><td style="color: #cccccc">microbiology.ebv_igg_ebna</td><td>DMv1.2 column microbiology.ebv_igg_ebna: Presence of IgG antibodies against EBV Nuclear Antigen (EBNA).</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/7883-2/">7883-2</a><i>(MicrobiologySerology.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46cmv_dna">microbiology.cmv_dna</a></td><td style="color: #cccccc">microbiology.cmv_dna</td><td>DMv1.2 column microbiology.cmv_dna: CMV nucleic acid test result.</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/4996-5/">4996-5</a><i>(MicrobiologyNucleicAcid.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46cmv_dna_copies">microbiology.cmv_dna_copies</a></td><td style="color: #cccccc">microbiology.cmv_dna_copies</td><td>DMv1.2 column microbiology.cmv_dna_copies: CMV-DNA (copies/ml).</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/29604-6/">29604-6</a><i>(MicrobiologyViralLoad.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46cmv_igm">microbiology.cmv_igm</a></td><td style="color: #cccccc">microbiology.cmv_igm</td><td>DMv1.2 column microbiology.cmv_igm: Presence of IgM antibodies against cytomegalovirus (CMV).</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/30325-5/">30325-5</a><i>(MicrobiologySerology.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46cmv_igg">microbiology.cmv_igg</a></td><td style="color: #cccccc">microbiology.cmv_igg</td><td>DMv1.2 column microbiology.cmv_igg: Presence of IgG antibodies against cytomegalovirus (CMV).</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/13949-3/">13949-3</a><i>(MicrobiologySerology.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46parvovirus_b19_dna">microbiology.parvovirus_b19_dna</a></td><td style="color: #cccccc">microbiology.parvovirus_b19_dna</td><td>DMv1.2 column microbiology.parvovirus_b19_dna: Detection of parvovirus B19 DNA in the patient’s blood.</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/50348-2/">50348-2</a><i>(MicrobiologyNucleicAcid.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46parvovirus_b19_dna_copies">microbiology.parvovirus_b19_dna_copies</a></td><td style="color: #cccccc">microbiology.parvovirus_b19_dna_copies</td><td>DMv1.2 column microbiology.parvovirus_b19_dna_copies: Blood Parvovirus B19 DNA (copies/ml).</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/49431-0/">49431-0</a><i>(MicrobiologyViralLoad.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46parvovirus_b19_igg">microbiology.parvovirus_b19_igg</a></td><td style="color: #cccccc">microbiology.parvovirus_b19_igg</td><td>DMv1.2 column microbiology.parvovirus_b19_igg: Presence of IgG antibodies to parvovirus B19.</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/29675-6/">29675-6</a><i>(MicrobiologySerology.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46parvovirus_b19_igm">microbiology.parvovirus_b19_igm</a></td><td style="color: #cccccc">microbiology.parvovirus_b19_igm</td><td>DMv1.2 column microbiology.parvovirus_b19_igm: Presence of IgM antibodies to parvovirus B19.</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/7981-4/">7981-4</a><i>(MicrobiologySerology.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46hsv_igg">microbiology.hsv_igg</a></td><td style="color: #cccccc">microbiology.hsv_igg</td><td>DMv1.2 column microbiology.hsv_igg: Presence of IgG antibodies to herpes simplex virus (HSV).</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/19106-4/">19106-4</a><i>(MicrobiologySerology.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46hsv_igm">microbiology.hsv_igm</a></td><td style="color: #cccccc">microbiology.hsv_igm</td><td>DMv1.2 column microbiology.hsv_igm: Presence of IgM antibodies to HSV.</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/25435-9/">25435-9</a><i>(MicrobiologySerology.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46adenovirus_igg">microbiology.adenovirus_igg</a></td><td style="color: #cccccc">microbiology.adenovirus_igg</td><td>DMv1.2 column microbiology.adenovirus_igg: Presence of IgG antibodies to adenovirus.</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/41162-9/">41162-9</a><i>(MicrobiologySerology.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46adenovirus_igm">microbiology.adenovirus_igm</a></td><td style="color: #cccccc">microbiology.adenovirus_igm</td><td>DMv1.2 column microbiology.adenovirus_igm: Presence of IgM antibodies to adenovirus.</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/21054-2/">21054-2</a><i>(MicrobiologySerology.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46blood_adenovirus_dna">microbiology.blood_adenovirus_dna</a></td><td style="color: #cccccc">microbiology.blood_adenovirus_dna</td><td>DMv1.2 column microbiology.blood_adenovirus_dna: Blood Adenovirus DNA Result.</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/86511-3/">86511-3</a><i>(MicrobiologyNucleicAcid.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46blood_adenovirus_dna_copies">microbiology.blood_adenovirus_dna_copies</a></td><td style="color: #cccccc">microbiology.blood_adenovirus_dna_copies</td><td>DMv1.2 column microbiology.blood_adenovirus_dna_copies: Blood Adenovirus DNA (copies/ml).</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/49341-1/">49341-1</a><i>(MicrobiologyViralLoad.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46vzv_igg">microbiology.vzv_igg</a></td><td style="color: #cccccc">microbiology.vzv_igg</td><td>DMv1.2 column microbiology.vzv_igg: Presence of IgG antibodies to varicella–zoster virus.</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/19162-7/">19162-7</a><i>(MicrobiologySerology.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46vzv_igm">microbiology.vzv_igm</a></td><td style="color: #cccccc">microbiology.vzv_igm</td><td>DMv1.2 column microbiology.vzv_igm: Presence of IgM antibodies to varicella–zoster virus.</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/21597-0/">21597-0</a><i>(MicrobiologySerology.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46blood_bkv_dna">microbiology.blood_bkv_dna</a></td><td style="color: #cccccc">microbiology.blood_bkv_dna</td><td>DMv1.2 column microbiology.blood_bkv_dna: Blood BKV-DNA.</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/63475-8/">63475-8</a><i>(MicrobiologyNucleicAcid.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46blood_bkv_dna_copies">microbiology.blood_bkv_dna_copies</a></td><td style="color: #cccccc">microbiology.blood_bkv_dna_copies</td><td>DMv1.2 column microbiology.blood_bkv_dna_copies: Blood BKV-DNA (copies/ml).</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/49345-2/">49345-2</a><i>(MicrobiologyViralLoad.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46urine_bkv_dna">microbiology.urine_bkv_dna</a></td><td style="color: #cccccc">microbiology.urine_bkv_dna</td><td>DMv1.2 column microbiology.urine_bkv_dna: Urine BKV-DNA.</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/33978-8/">33978-8</a><i>(MicrobiologyNucleicAcid.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46bkv_dna_kidney_biopsy">microbiology.bkv_dna_kidney_biopsy</a></td><td style="color: #cccccc">microbiology.bkv_dna_kidney_biopsy</td><td>DMv1.2 column microbiology.bkv_dna_kidney_biopsy: BKV-DNA on kidney biopsy.</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/47251-4/">47251-4</a><i>(MicrobiologyNucleicAcid.code. Generic-specimen code; Observation.specimen identifies the kidney biopsy tissue.)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46bkv_fish_kidney_biopsy">microbiology.bkv_fish_kidney_biopsy</a></td><td style="color: #cccccc">microbiology.bkv_fish_kidney_biopsy</td><td>DMv1.2 column microbiology.bkv_fish_kidney_biopsy: BKV FISH on kidney biopsy.</td><td><span title="EQUIVALENT">~</span><a href="CodeSystem-microbiology-cs.html#microbiology-cs-bkv-dna-ish-tissue">bkv-dna-ish-tissue</a><i>(MicrobiologyNucleicAcid.code. LOINC has no in-situ hybridisation code for BK virus in tissue.)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46blood_colture">microbiology.blood_colture</a></td><td style="color: #cccccc">microbiology.blood_colture</td><td>DMv1.2 column microbiology.blood_colture: Blood colture.</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/600-7/">600-7</a><i>(MicrobiologyCulture.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46urine_colture">microbiology.urine_colture</a></td><td style="color: #cccccc">microbiology.urine_colture</td><td>DMv1.2 column microbiology.urine_colture: Urine colture.</td><td><span title="EQUIVALENT">~</span><a href="https://loinc.org/630-4/">630-4</a><i>(MicrobiologyCulture.code)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46other_positivity">microbiology.other_positivity</a></td><td style="color: #cccccc">microbiology.other_positivity</td><td>DMv1.2 column microbiology.other_positivity: Other positivity.</td><td/></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46ebv_hepatitis_liver">microbiology.ebv_hepatitis_liver</a></td><td style="color: #cccccc">microbiology.ebv_hepatitis_liver</td><td>DMv1.2 column microbiology.ebv_hepatitis_liver: EBV-Hepatitis on liver.</td><td><span title="EQUIVALENT">~</span><a href="CodeSystem-microbiology-cs.html#microbiology-cs-ebv-hepatitis-liver">ebv-hepatitis-liver</a><i>(MicrobiologyDiagnosis.code. MicrobiologyDiagnosis (Condition); false → the same Condition with verificationStatus #refuted; blank → no Condition.)</i></td></tr><tr><td><a href="CodeSystem-dm-variable-cs.html#dm-variable-cs-microbiology.46evidence_bkvan">microbiology.evidence_bkvan</a></td><td style="color: #cccccc">microbiology.evidence_bkvan</td><td>DMv1.2 column microbiology.evidence_bkvan: Histological evidence of BKVAN.</td><td><span title="EQUIVALENT">~</span><a href="CodeSystem-microbiology-cs.html#microbiology-cs-evidence-bkvan">evidence-bkvan</a><i>(MicrobiologyDiagnosis.code. MicrobiologyDiagnosis (Condition); No → the same Condition with verificationStatus #refuted; Unknown or blank → no Condition.)</i></td></tr></table></li></ul></div>
  </text>
  <url
       value="https://hl7.eu/fhir/ig/hl7.eu.fhir.protect-child/ValueSet/dm-microbiology-variable-vs"/>
  <version value="0.1.0-ci-build"/>
  <name value="DmMicrobiologyVariableVS"/>
  <title value="PROTECT-CHILD DM microbiology variables"/>
  <status value="draft"/>
  <experimental value="true"/>
  <date value="2026-09-28T06:51:47+00:00"/>
  <publisher value="Protect Child"/>
  <contact>
    <name value="Protect Child"/>
    <telecom>
      <system value="url"/>
      <value value="https://protect-child.eu/"/>
    </telecom>
  </contact>
  <description
               value="The columns of the DMv1.2 microbiology table, as DmVariableCS codes. Source value set of ConceptMap DmMicrobiologyToFhir."/>
  <compose>
    <include>
      <system
              value="https://hl7.eu/fhir/ig/hl7.eu.fhir.protect-child/CodeSystem/dm-variable-cs"/>
      <concept>
        <code value="microbiology.ebv_dna"/>
      </concept>
      <concept>
        <code value="microbiology.ebv_dna_copies"/>
      </concept>
      <concept>
        <code value="microbiology.ebv_igm_anti_ea"/>
      </concept>
      <concept>
        <code value="microbiology.ebv_igm_anti_vca"/>
      </concept>
      <concept>
        <code value="microbiology.ebv_igg_anti_vca"/>
      </concept>
      <concept>
        <code value="microbiology.ebv_igg_ebna"/>
      </concept>
      <concept>
        <code value="microbiology.cmv_dna"/>
      </concept>
      <concept>
        <code value="microbiology.cmv_dna_copies"/>
      </concept>
      <concept>
        <code value="microbiology.cmv_igm"/>
      </concept>
      <concept>
        <code value="microbiology.cmv_igg"/>
      </concept>
      <concept>
        <code value="microbiology.parvovirus_b19_dna"/>
      </concept>
      <concept>
        <code value="microbiology.parvovirus_b19_dna_copies"/>
      </concept>
      <concept>
        <code value="microbiology.parvovirus_b19_igg"/>
      </concept>
      <concept>
        <code value="microbiology.parvovirus_b19_igm"/>
      </concept>
      <concept>
        <code value="microbiology.hsv_igg"/>
      </concept>
      <concept>
        <code value="microbiology.hsv_igm"/>
      </concept>
      <concept>
        <code value="microbiology.adenovirus_igg"/>
      </concept>
      <concept>
        <code value="microbiology.adenovirus_igm"/>
      </concept>
      <concept>
        <code value="microbiology.blood_adenovirus_dna"/>
      </concept>
      <concept>
        <code value="microbiology.blood_adenovirus_dna_copies"/>
      </concept>
      <concept>
        <code value="microbiology.vzv_igg"/>
      </concept>
      <concept>
        <code value="microbiology.vzv_igm"/>
      </concept>
      <concept>
        <code value="microbiology.blood_bkv_dna"/>
      </concept>
      <concept>
        <code value="microbiology.blood_bkv_dna_copies"/>
      </concept>
      <concept>
        <code value="microbiology.urine_bkv_dna"/>
      </concept>
      <concept>
        <code value="microbiology.bkv_dna_kidney_biopsy"/>
      </concept>
      <concept>
        <code value="microbiology.bkv_fish_kidney_biopsy"/>
      </concept>
      <concept>
        <code value="microbiology.blood_colture"/>
      </concept>
      <concept>
        <code value="microbiology.urine_colture"/>
      </concept>
      <concept>
        <code value="microbiology.other_positivity"/>
      </concept>
      <concept>
        <code value="microbiology.ebv_hepatitis_liver"/>
      </concept>
      <concept>
        <code value="microbiology.evidence_bkvan"/>
      </concept>
    </include>
  </compose>
</ValueSet>