@prefix fhir: . @prefix owl: . @prefix rdfs: . @prefix xsd: . # - resource ------------------------------------------------------------------- a fhir:ValueSet ; fhir:nodeRole fhir:treeRoot ; fhir:Resource.id [ fhir:value "dm-microbiology-variable-vs"] ; fhir:DomainResource.text [ fhir:Narrative.status [ fhir:value "extensions" ] ; fhir:Narrative.div "

Generated Narrative: ValueSet dm-microbiology-variable-vs

  • Include these codes as defined in https://hl7.eu/fhir/ig/hl7.eu.fhir.protect-child/CodeSystem/dm-variable-cs version ?0.1.0-ci-build
    CodeDisplayDefinitionDM microbiology columns → FHIR test codes
    microbiology.ebv_dnamicrobiology.ebv_dnaDMv1.2 column microbiology.ebv_dna: EBV nucleic acid test result.~5002-1(MicrobiologyNucleicAcid.code)
    microbiology.ebv_dna_copiesmicrobiology.ebv_dna_copiesDMv1.2 column microbiology.ebv_dna_copies: EBV-DNA (copies/ml).~36923-1(MicrobiologyViralLoad.code)
    microbiology.ebv_igm_anti_eamicrobiology.ebv_igm_anti_eaDMv1.2 column microbiology.ebv_igm_anti_ea: Presence of IgM antibodies against Epstein–Barr virus Early Antigen (EA).~ebv-ea-igm(MicrobiologySerology.code. LOINC has no IgM-specific EBV early-antigen code; 7882-4 (early Ab, any isotype) is broader.)
    microbiology.ebv_igm_anti_vcamicrobiology.ebv_igm_anti_vcaDMv1.2 column microbiology.ebv_igm_anti_vca: Presence of IgM antibodies against EBV Viral Capsid Antigen (VCA).~30340-4(MicrobiologySerology.code. The OMOP sheet maps this to 3012732 (EBNA IgM, LOINC 7884-0), which is a different antigen.)
    microbiology.ebv_igg_anti_vcamicrobiology.ebv_igg_anti_vcaDMv1.2 column microbiology.ebv_igg_anti_vca: Presence of IgG antibodies against EBV Viral Capsid Antigen (VCA).~30339-6(MicrobiologySerology.code)
    microbiology.ebv_igg_ebnamicrobiology.ebv_igg_ebnaDMv1.2 column microbiology.ebv_igg_ebna: Presence of IgG antibodies against EBV Nuclear Antigen (EBNA).~7883-2(MicrobiologySerology.code)
    microbiology.cmv_dnamicrobiology.cmv_dnaDMv1.2 column microbiology.cmv_dna: CMV nucleic acid test result.~4996-5(MicrobiologyNucleicAcid.code)
    microbiology.cmv_dna_copiesmicrobiology.cmv_dna_copiesDMv1.2 column microbiology.cmv_dna_copies: CMV-DNA (copies/ml).~29604-6(MicrobiologyViralLoad.code)
    microbiology.cmv_igmmicrobiology.cmv_igmDMv1.2 column microbiology.cmv_igm: Presence of IgM antibodies against cytomegalovirus (CMV).~30325-5(MicrobiologySerology.code)
    microbiology.cmv_iggmicrobiology.cmv_iggDMv1.2 column microbiology.cmv_igg: Presence of IgG antibodies against cytomegalovirus (CMV).~13949-3(MicrobiologySerology.code)
    microbiology.parvovirus_b19_dnamicrobiology.parvovirus_b19_dnaDMv1.2 column microbiology.parvovirus_b19_dna: Detection of parvovirus B19 DNA in the patient’s blood.~50348-2(MicrobiologyNucleicAcid.code)
    microbiology.parvovirus_b19_dna_copiesmicrobiology.parvovirus_b19_dna_copiesDMv1.2 column microbiology.parvovirus_b19_dna_copies: Blood Parvovirus B19 DNA (copies/ml).~49431-0(MicrobiologyViralLoad.code)
    microbiology.parvovirus_b19_iggmicrobiology.parvovirus_b19_iggDMv1.2 column microbiology.parvovirus_b19_igg: Presence of IgG antibodies to parvovirus B19.~29675-6(MicrobiologySerology.code)
    microbiology.parvovirus_b19_igmmicrobiology.parvovirus_b19_igmDMv1.2 column microbiology.parvovirus_b19_igm: Presence of IgM antibodies to parvovirus B19.~7981-4(MicrobiologySerology.code)
    microbiology.hsv_iggmicrobiology.hsv_iggDMv1.2 column microbiology.hsv_igg: Presence of IgG antibodies to herpes simplex virus (HSV).~19106-4(MicrobiologySerology.code)
    microbiology.hsv_igmmicrobiology.hsv_igmDMv1.2 column microbiology.hsv_igm: Presence of IgM antibodies to HSV.~25435-9(MicrobiologySerology.code)
    microbiology.adenovirus_iggmicrobiology.adenovirus_iggDMv1.2 column microbiology.adenovirus_igg: Presence of IgG antibodies to adenovirus.~41162-9(MicrobiologySerology.code)
    microbiology.adenovirus_igmmicrobiology.adenovirus_igmDMv1.2 column microbiology.adenovirus_igm: Presence of IgM antibodies to adenovirus.~21054-2(MicrobiologySerology.code)
    microbiology.blood_adenovirus_dnamicrobiology.blood_adenovirus_dnaDMv1.2 column microbiology.blood_adenovirus_dna: Blood Adenovirus DNA Result.~86511-3(MicrobiologyNucleicAcid.code)
    microbiology.blood_adenovirus_dna_copiesmicrobiology.blood_adenovirus_dna_copiesDMv1.2 column microbiology.blood_adenovirus_dna_copies: Blood Adenovirus DNA (copies/ml).~49341-1(MicrobiologyViralLoad.code)
    microbiology.vzv_iggmicrobiology.vzv_iggDMv1.2 column microbiology.vzv_igg: Presence of IgG antibodies to varicella–zoster virus.~19162-7(MicrobiologySerology.code)
    microbiology.vzv_igmmicrobiology.vzv_igmDMv1.2 column microbiology.vzv_igm: Presence of IgM antibodies to varicella–zoster virus.~21597-0(MicrobiologySerology.code)
    microbiology.blood_bkv_dnamicrobiology.blood_bkv_dnaDMv1.2 column microbiology.blood_bkv_dna: Blood BKV-DNA.~63475-8(MicrobiologyNucleicAcid.code)
    microbiology.blood_bkv_dna_copiesmicrobiology.blood_bkv_dna_copiesDMv1.2 column microbiology.blood_bkv_dna_copies: Blood BKV-DNA (copies/ml).~49345-2(MicrobiologyViralLoad.code)
    microbiology.urine_bkv_dnamicrobiology.urine_bkv_dnaDMv1.2 column microbiology.urine_bkv_dna: Urine BKV-DNA.~33978-8(MicrobiologyNucleicAcid.code)
    microbiology.bkv_dna_kidney_biopsymicrobiology.bkv_dna_kidney_biopsyDMv1.2 column microbiology.bkv_dna_kidney_biopsy: BKV-DNA on kidney biopsy.~47251-4(MicrobiologyNucleicAcid.code. Generic-specimen code; Observation.specimen identifies the kidney biopsy tissue.)
    microbiology.bkv_fish_kidney_biopsymicrobiology.bkv_fish_kidney_biopsyDMv1.2 column microbiology.bkv_fish_kidney_biopsy: BKV FISH on kidney biopsy.~bkv-dna-ish-tissue(MicrobiologyNucleicAcid.code. LOINC has no in-situ hybridisation code for BK virus in tissue.)
    microbiology.blood_colturemicrobiology.blood_coltureDMv1.2 column microbiology.blood_colture: Blood colture.~600-7(MicrobiologyCulture.code)
    microbiology.urine_colturemicrobiology.urine_coltureDMv1.2 column microbiology.urine_colture: Urine colture.~630-4(MicrobiologyCulture.code)
    microbiology.other_positivitymicrobiology.other_positivityDMv1.2 column microbiology.other_positivity: Other positivity.
    microbiology.ebv_hepatitis_livermicrobiology.ebv_hepatitis_liverDMv1.2 column microbiology.ebv_hepatitis_liver: EBV-Hepatitis on liver.~ebv-hepatitis-liver(MicrobiologyDiagnosis.code. MicrobiologyDiagnosis (Condition); false → the same Condition with verificationStatus #refuted; blank → no Condition.)
    microbiology.evidence_bkvanmicrobiology.evidence_bkvanDMv1.2 column microbiology.evidence_bkvan: Histological evidence of BKVAN.~evidence-bkvan(MicrobiologyDiagnosis.code. MicrobiologyDiagnosis (Condition); No → the same Condition with verificationStatus #refuted; Unknown or blank → no Condition.)
" ] ; fhir:ValueSet.url [ fhir:value "https://hl7.eu/fhir/ig/hl7.eu.fhir.protect-child/ValueSet/dm-microbiology-variable-vs"] ; fhir:ValueSet.version [ fhir:value "0.1.0-ci-build"] ; fhir:ValueSet.name [ fhir:value "DmMicrobiologyVariableVS"] ; fhir:ValueSet.title [ fhir:value "PROTECT-CHILD DM microbiology variables"] ; fhir:ValueSet.status [ fhir:value "draft"] ; fhir:ValueSet.experimental [ fhir:value "true"^^xsd:boolean] ; fhir:ValueSet.date [ fhir:value "2026-09-28T06:51:47+00:00"^^xsd:dateTime] ; fhir:ValueSet.publisher [ fhir:value "Protect Child"] ; fhir:ValueSet.contact [ fhir:index 0 ; fhir:ContactDetail.name [ fhir:value "Protect Child" ] ; fhir:ContactDetail.telecom [ fhir:index 0 ; fhir:ContactPoint.system [ fhir:value "url" ] ; fhir:ContactPoint.value [ fhir:value "https://protect-child.eu/" ] ] ] ; fhir:ValueSet.description [ fhir:value "The columns of the DMv1.2 microbiology table, as DmVariableCS codes. Source value set of ConceptMap DmMicrobiologyToFhir."] ; fhir:ValueSet.compose [ fhir:ValueSet.compose.include [ fhir:index 0 ; fhir:ValueSet.compose.include.system [ fhir:value "https://hl7.eu/fhir/ig/hl7.eu.fhir.protect-child/CodeSystem/dm-variable-cs" ] ; fhir:ValueSet.compose.include.concept [ fhir:index 0 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.ebv_dna" ] ], [ fhir:index 1 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.ebv_dna_copies" ] ], [ fhir:index 2 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.ebv_igm_anti_ea" ] ], [ fhir:index 3 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.ebv_igm_anti_vca" ] ], [ fhir:index 4 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.ebv_igg_anti_vca" ] ], [ fhir:index 5 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.ebv_igg_ebna" ] ], [ fhir:index 6 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.cmv_dna" ] ], [ fhir:index 7 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.cmv_dna_copies" ] ], [ fhir:index 8 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.cmv_igm" ] ], [ fhir:index 9 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.cmv_igg" ] ], [ fhir:index 10 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.parvovirus_b19_dna" ] ], [ fhir:index 11 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.parvovirus_b19_dna_copies" ] ], [ fhir:index 12 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.parvovirus_b19_igg" ] ], [ fhir:index 13 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.parvovirus_b19_igm" ] ], [ fhir:index 14 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.hsv_igg" ] ], [ fhir:index 15 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.hsv_igm" ] ], [ fhir:index 16 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.adenovirus_igg" ] ], [ fhir:index 17 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.adenovirus_igm" ] ], [ fhir:index 18 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.blood_adenovirus_dna" ] ], [ fhir:index 19 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.blood_adenovirus_dna_copies" ] ], [ fhir:index 20 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.vzv_igg" ] ], [ fhir:index 21 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.vzv_igm" ] ], [ fhir:index 22 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.blood_bkv_dna" ] ], [ fhir:index 23 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.blood_bkv_dna_copies" ] ], [ fhir:index 24 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.urine_bkv_dna" ] ], [ fhir:index 25 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.bkv_dna_kidney_biopsy" ] ], [ fhir:index 26 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.bkv_fish_kidney_biopsy" ] ], [ fhir:index 27 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.blood_colture" ] ], [ fhir:index 28 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.urine_colture" ] ], [ fhir:index 29 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.other_positivity" ] ], [ fhir:index 30 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.ebv_hepatitis_liver" ] ], [ fhir:index 31 ; fhir:ValueSet.compose.include.concept.code [ fhir:value "microbiology.evidence_bkvan" ] ] ] ] . # - ontology header ------------------------------------------------------------ a owl:Ontology ; owl:imports fhir:fhir.ttl . # -------------------------------------------------------------------------------------