PROTECT-CHILD Pediatric Transplant Data Implementation Guide
0.1.0-ci-build -
PROTECT-CHILD Pediatric Transplant Data Implementation Guide
0.1.0-ci-build - ci-build
PROTECT-CHILD Pediatric Transplant Data Implementation Guide
0.1.0-ci-build - 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
| Official URL: https://hl7.eu/fhir/ig/hl7.eu.fhir.protect-child/ConceptMap/microbiology-lm-to-fhir | Version: 0.1.0-ci-build | |||
| Draft as of 2026-09-28 | Computable Name: MicrobiologyLmToFhir | |||
Where each field of the Microbiology logical model lands in this guide's profiles. Generated from the model-map page; one group per target profile. Equivalence relatedto marks a field that is derived, split or recoded on the way.
| DM field | Target profile | FHIR element | Relationship | Comment |
| microbiology_id | microbiology-report | DiagnosticReport.identifier | equivalent | identifier |
| visit_id | microbiology-report | DiagnosticReport.encounter | equivalent | encounter. The recipient's Visit, also for donor results |
| donor_id | microbiology-report | DiagnosticReport.subject | equivalent | subject. Reference(Donor) for donor results; otherwise Reference(PatientTransplant) |
| other_positivity | microbiology-report | DiagnosticReport.conclusion | equivalent | conclusion (free text) Kidney only |
| ebv_dna | microbiology-nucleic-acid | Observation.value[x] | equivalent | LOINC 5002-1 — Epstein Barr virus DNA [Presence] in Blood by NAA with probe detection. Detected / Not detected |
| cmv_dna | microbiology-nucleic-acid | Observation.value[x] | equivalent | LOINC 4996-5 — Cytomegalovirus DNA [Presence] in Blood by NAA with probe detection. Detected / Not detected |
| parvovirus_b19_dna | microbiology-nucleic-acid | Observation.value[x] | equivalent | LOINC 50348-2 — Parvovirus B19 DNA [Presence] in Blood by NAA with probe detection. Detected / Not detected. Alternatives: 75543-9 |
| blood_adenovirus_dna | microbiology-nucleic-acid | Observation.value[x] | equivalent | LOINC 86511-3 — Adenovirus DNA [Presence] in Blood by NAA with probe detection. Detected / Not detected |
| blood_bkv_dna | microbiology-nucleic-acid | Observation.value[x] | equivalent | LOINC 63475-8 — BK virus DNA [Presence] in Blood. Detected / Not detected |
| urine_bkv_dna | microbiology-nucleic-acid | Observation.value[x] | equivalent | LOINC 33978-8 — BK virus DNA [Presence] in Urine by NAA with probe detection. Detected / Not detected |
| bkv_dna_kidney_biopsy | microbiology-nucleic-acid | Observation.value[x] | equivalent | LOINC 47251-4 — BK virus DNA [Presence] in Specimen by NAA with probe detection. Detected / Not detected. Generic-specimen code; Observation.specimen identifies the kidney biopsy tissue. Kidney only |
| bkv_fish_kidney_biopsy | microbiology-nucleic-acid | Observation.value[x] | equivalent | MicrobiologyCS#bkv-dna-ish-tissue — BK virus DNA [Presence] in Tissue by in situ hybridization. Detected / Not detected. LOINC has no in-situ hybridisation code for BK virus in tissue. Kidney only |
| ebv_dna_copies | microbiology-viral-load | Observation.value[x] | equivalent | LOINC 36923-1 — Epstein Barr virus DNA [#/volume] (viral load) in Blood by NAA with probe detection. Quantity. Alternatives: 93840-7, 47982-4, 43730-1 |
| cmv_dna_copies | microbiology-viral-load | Observation.value[x] | equivalent | LOINC 29604-6 — Cytomegalovirus DNA [#/volume] (viral load) in Blood by NAA with probe detection. Quantity. Alternatives: 100675-8, 30247-1, 72493-0 |
| parvovirus_b19_dna_copies | microbiology-viral-load | Observation.value[x] | equivalent | LOINC 49431-0 — Parvovirus B19 DNA [#/volume] (viral load) in Blood by NAA with probe detection. Quantity. Alternatives: 49434-4, 74420-1 |
| blood_adenovirus_dna_copies | microbiology-viral-load | Observation.value[x] | equivalent | LOINC 49341-1 — Adenovirus DNA [#/volume] (viral load) in Blood by NAA with probe detection. Quantity. Alternatives: 49334-6, 106727-1 |
| blood_bkv_dna_copies | microbiology-viral-load | Observation.value[x] | equivalent | LOINC 49345-2 — BK virus DNA [#/volume] (viral load) in Blood by NAA with probe detection. Quantity. Alternatives: 101341-6, 41479-7, 32284-2 |
| ebv_igm_anti_ea | microbiology-serology | Observation.value[x] | equivalent | MicrobiologyCS#ebv-ea-igm — EBV early antigen IgM Ab [Presence] in Serum. Positive / Negative. LOINC has no IgM-specific EBV early-antigen code; 7882-4 (early Ab, any isotype) is broader. |
| ebv_igm_anti_vca | microbiology-serology | Observation.value[x] | equivalent | LOINC 30340-4 — Epstein Barr virus capsid IgM Ab [Presence] in Serum. Positive / Negative. Alternatives: 24115-8, 40751-0, 93714-4; the OMOP sheet maps this to 3012732 (EBNA IgM, LOINC 7884-0), which is a different antigen. |
| ebv_igg_anti_vca | microbiology-serology | Observation.value[x] | equivalent | LOINC 30339-6 — Epstein Barr virus capsid IgG Ab [Presence] in Serum. Positive / Negative. Alternatives: 93713-6 |
| ebv_igg_ebna | microbiology-serology | Observation.value[x] | equivalent | LOINC 7883-2 — Epstein Barr virus nuclear IgG Ab [Presence] in Serum. Positive / Negative |
| cmv_igm | microbiology-serology | Observation.value[x] | equivalent | LOINC 30325-5 — Cytomegalovirus IgM Ab [Presence] in Serum or Plasma. Positive / Negative. Alternatives: 87725-8 |
| cmv_igg | microbiology-serology | Observation.value[x] | equivalent | LOINC 13949-3 — Cytomegalovirus IgG Ab [Presence] in Serum or Plasma by Immunoassay. Positive / Negative. Alternatives: 22244-8, 87726-6 |
| parvovirus_b19_igg | microbiology-serology | Observation.value[x] | equivalent | LOINC 29675-6 — Parvovirus B19 IgG Ab [Presence] in Serum. Positive / Negative |
| parvovirus_b19_igm | microbiology-serology | Observation.value[x] | equivalent | LOINC 7981-4 — Parvovirus B19 IgM Ab [Presence] in Serum. Positive / Negative |
| hsv_igg | microbiology-serology | Observation.value[x] | equivalent | LOINC 19106-4 — Herpes simplex virus IgG Ab [Presence] in Serum. Positive / Negative |
| hsv_igm | microbiology-serology | Observation.value[x] | equivalent | LOINC 25435-9 — Herpes simplex virus IgM Ab [Presence] in Serum. Positive / Negative |
| adenovirus_igg | microbiology-serology | Observation.value[x] | equivalent | LOINC 41162-9 — Adenovirus IgG Ab [Presence] in Serum. Positive / Negative |
| adenovirus_igm | microbiology-serology | Observation.value[x] | equivalent | LOINC 21054-2 — Adenovirus IgM Ab [Presence] in Serum. Positive / Negative |
| vzv_igg | microbiology-serology | Observation.value[x] | equivalent | LOINC 19162-7 — Varicella zoster virus IgG Ab [Presence] in Serum. Positive / Negative |
| vzv_igm | microbiology-serology | Observation.value[x] | equivalent | LOINC 21597-0 — Varicella zoster virus IgM Ab [Presence] in Serum. Positive / Negative |
| blood_colture | microbiology-culture | Observation.value[x] | equivalent | LOINC 600-7 — Bacteria identified in Blood by Culture. Organism, or Positive / Negative. Kidney only |
| urine_colture | microbiology-culture | Observation.value[x] | equivalent | LOINC 630-4 — Bacteria identified in Urine by Culture. Organism, or Positive / Negative. Kidney only |
| ebv_hepatitis_liver | microbiology-diagnosis | Condition.code | related to | SNOMED 302919001 Epstein-Barr virus hepatitis. presence = positive. Liver only. MicrobiologyDiagnosis (Condition). false → the same Condition with verificationStatus = #refuted; blank → no Condition. |
| evidence_bkvan | microbiology-diagnosis | Condition.code | related to | SNOMED 713886006 BK virus nephropathy. presence = positive. MicrobiologyDiagnosis (Condition). No → the same Condition with verificationStatus = #refuted; Unknown or blank → no Condition. |