FHIR IG analytics| Package | hl7.eu.fhir.protect-child |
| Resource Type | ConceptMap |
| Id | ConceptMap-dm-microbiology-to-omop.json |
| FHIR Version | R4 |
| Source | https://build.fhir.org/ig/hl7-eu/protect-child/ConceptMap-dm-microbiology-to-omop.html |
| URL | https://hl7.eu/fhir/ig/hl7.eu.fhir.protect-child/ConceptMap/dm-microbiology-to-omop |
| Version | 0.1.0-ci-build |
| Status | draft |
| Date | 2026-09-28T06:51:47+00:00 |
| Name | DmMicrobiologyToOmop |
| Title | DM microbiology → OMOP |
| Realm | eu |
| Authority | hl7 |
| Description | The OMOP concepts for each column of the DMv1.2 microbiology table, from the DM → FHIR → OMOP crosswalk. Each target's comment names the OMOP CDM field it fills. `equivalent`: the column's own concept; `narrower`: one of several concepts the column's values map to; `relatedto`: a value, unit or qualifier concept. Concept IDs of 2000000000 and above are PROTECT-CHILD custom concepts (CodeSystem ProtectChildOmopVocabulary). |
No resources found
| CodeSystem | ||
| hl7.terminology.r4b#6.0.2 | fhir-terminology.ohdsi.org | OHDSI Standardized Vocabularies |
| hl7.eu.fhir.protect-child#current | dm-variable-cs | PROTECT-CHILD Data Model Variables |
Note: links and images are rebased to the (stated) source
Generated Narrative: ConceptMap dm-microbiology-to-omop
This mapping does not specify any particular context of use.
Mapping from PROTECT-CHILD Data Model Variables to OHDSI Standardized Vocabularies
| Source Concept Details | Relationship | Target Concept Details | Comment | ||
| Codes from PROTECT-CHILD Data Model Variables | Codes from OHDSI Standardized Vocabularies | ||||
| microbiology.ebv_dna | microbiology.ebv_dna | is equivalent to | 3012570 | Epstein Barr virus DNA [Presence] in Blood by NAA with probe detection | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45878583 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45884084 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.ebv_dna_copies | microbiology.ebv_dna_copies | is equivalent to | 3037329 | Epstein Barr virus DNA [#/volume] (viral load) in Blood by NAA with probe detection | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 8799 | copies per milliliter | OMOP MEASUREMENT.unit_concept_id; vocabulary UCUM. | ||
| microbiology.ebv_igm_anti_ea | microbiology.ebv_igm_anti_ea | is equivalent to | 3033477 | Epstein Barr virus early Ab [Presence] in Serum | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45878583 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45884084 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.ebv_igm_anti_vca | microbiology.ebv_igm_anti_vca | is equivalent to | 3012732 | Epstein Barr virus nuclear IgM Ab [Presence] in Serum **(correction needed: this is EBNA IgM, LOINC 7884-0; the variable is VCA IgM, LOINC 30340-4)** | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45878583 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45884084 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.ebv_igg_anti_vca | microbiology.ebv_igg_anti_vca | is equivalent to | 3006585 | Epstein Barr virus capsid IgG Ab [Presence] in Serum | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45878583 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45884084 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.ebv_igg_ebna | microbiology.ebv_igg_ebna | is equivalent to | 3021849 | Epstein Barr virus nuclear IgG Ab [Presence] in Serum | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45878583 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45884084 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.cmv_dna | microbiology.cmv_dna | is equivalent to | 3021884 | Cytomegalovirus DNA [Presence] in Blood by NAA with probe detection | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45878583 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45884084 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.cmv_dna_copies | microbiology.cmv_dna_copies | is equivalent to | 3024974 | Cytomegalovirus DNA [#/volume] (viral load) in Blood by NAA with probe detection | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 8799 | copies per milliliter | OMOP MEASUREMENT.unit_concept_id; vocabulary UCUM. | ||
| microbiology.cmv_igm | microbiology.cmv_igm | is equivalent to | 3013332 | Cytomegalovirus IgM Ab [Presence] in Serum or Plasma | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45878583 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45884084 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.cmv_igg | microbiology.cmv_igg | is equivalent to | 3012887 | Cytomegalovirus IgG Ab [Presence] in Serum or Plasma by Immunoassay | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45878583 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45884084 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.parvovirus_b19_dna | microbiology.parvovirus_b19_dna | is equivalent to | 3032435 | Parvovirus B19 DNA [Presence] in Blood by NAA with probe detection | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45878583 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45884084 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.parvovirus_b19_dna_copies | microbiology.parvovirus_b19_dna_copies | is equivalent to | 3032993 | Parvovirus B19 DNA [#/volume] (viral load) in Blood by NAA with probe detection | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 8799 | copies per milliliter | OMOP MEASUREMENT.unit_concept_id; vocabulary UCUM. | ||
| microbiology.parvovirus_b19_igg | microbiology.parvovirus_b19_igg | is equivalent to | 3006410 | Parvovirus B19 IgG Ab [Presence] in Serum | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45878583 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45884084 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.parvovirus_b19_igm | microbiology.parvovirus_b19_igm | is equivalent to | 3008321 | Parvovirus B19 IgM Ab [Presence] in Serum | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45878583 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45884084 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.hsv_igg | microbiology.hsv_igg | is equivalent to | 3020134 | Herpes simplex virus IgG Ab [Presence] in Serum | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45880296 | Not detected | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45877985 | Detected | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.hsv_igm | microbiology.hsv_igm | is equivalent to | 3010761 | Herpes simplex virus IgM Ab [Presence] in Serum | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45878583 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45884084 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.adenovirus_igg | microbiology.adenovirus_igg | is equivalent to | 3040947 | Adenovirus IgG Ab [Presence] in Serum | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45878583 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45884084 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.adenovirus_igm | microbiology.adenovirus_igm | is equivalent to | 3036242 | Adenovirus IgM Ab [Presence] in Serum | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45878583 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45884084 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.blood_adenovirus_dna | microbiology.blood_adenovirus_dna | is equivalent to | 36203755 | Adenovirus DNA [Presence] in Blood by NAA with probe detection | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45878583 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45884084 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.blood_adenovirus_dna_copies | microbiology.blood_adenovirus_dna_copies | is equivalent to | 3028979 | Adenovirus DNA [#/volume] (viral load) in Blood by NAA with probe detection | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 8799 | copies per milliliter | OMOP MEASUREMENT.unit_concept_id; vocabulary UCUM. | ||
| microbiology.vzv_igg | microbiology.vzv_igg | is equivalent to | 3022386 | Varicella zoster virus IgG Ab [Presence] in Serum | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45878583 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45884084 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.vzv_igm | microbiology.vzv_igm | is equivalent to | 3016065 | Varicella zoster virus IgM Ab [Presence] in Serum | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45878583 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45884084 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.blood_bkv_dna | microbiology.blood_bkv_dna | is equivalent to | 40766205 | BK virus DNA [Presence] in Blood | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45878583 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45884084 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.blood_bkv_dna_copies | microbiology.blood_bkv_dna_copies | is equivalent to | 3029226 | BK virus DNA [#/volume] (viral load) in Blood by NAA with probe detection | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 8799 | copies per milliliter | OMOP MEASUREMENT.unit_concept_id; vocabulary UCUM. | ||
| microbiology.urine_bkv_dna | microbiology.urine_bkv_dna | is equivalent to | 3029173 | BK virus DNA [Presence] in Urine by NAA with probe detection | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45880296 | Not detected | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45877985 | Detected | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.bkv_dna_kidney_biopsy | microbiology.bkv_dna_kidney_biopsy | is equivalent to | 1091792 | BK virus DNA [Presence] in Specimen | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45880296 | Not detected | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45877985 | Detected | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| microbiology.bkv_fish_kidney_biopsy | microbiology.bkv_fish_kidney_biopsy | is equivalent to | 1091792 | BK virus DNA [Presence] in Specimen | OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC. |
| is related to | 45880296 | Not detected | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is related to | 45877985 | Detected | OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC. | ||
| is equivalent to | 1073315 | Fluorescence in situ hybridization technique | OMOP OBSERVATION.observation_concept_id; vocabulary SNOMED. | ||
| microbiology.blood_colture | microbiology.blood_colture | is equivalent to | 4107893 | Blood culture | OMOP MEASUREMENT.measurement_concept_id; vocabulary SNOMED. |
| is related to | 9189 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary SNOMED. | ||
| is related to | 9191 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary SNOMED. | ||
| microbiology.urine_colture | microbiology.urine_colture | is equivalent to | 4024509 | Urine culture | OMOP MEASUREMENT.measurement_concept_id; vocabulary SNOMED. |
| is related to | 9189 | Negative | OMOP MEASUREMENT.value_as_concept_id; vocabulary SNOMED. | ||
| is related to | 9191 | Positive | OMOP MEASUREMENT.value_as_concept_id; vocabulary SNOMED. | ||
| microbiology.ebv_hepatitis_liver | microbiology.ebv_hepatitis_liver | is equivalent to | 4119142 | Epstein-Barr virus hepatitis | OMOP CONDITION_OCCURRENCE.condition_concept_id; vocabulary SNOMED. |
| microbiology.evidence_bkvan | microbiology.evidence_bkvan | is equivalent to | 37017585 | BK virus nephropathy | OMOP CONDITION_OCCURRENCE.condition_concept_id; vocabulary SNOMED. |
FHIR
FHIRsmith{
"resourceType": "ConceptMap",
"id": "dm-microbiology-to-omop",
"text": {
"status": "generated",
"div": "<!-- snip (see above) -->"
},
"url": "https://hl7.eu/fhir/ig/hl7.eu.fhir.protect-child/ConceptMap/dm-microbiology-to-omop",
"version": "0.1.0-ci-build",
"name": "DmMicrobiologyToOmop",
"title": "DM microbiology → OMOP",
"status": "draft",
"experimental": false,
"date": "2026-09-28T06:51:47+00:00",
"publisher": "Protect Child",
"contact": [
{
"name": "Protect Child",
"telecom": [
{
"system": "url",
"value": "https://protect-child.eu/"
}
]
}
],
"description": "The OMOP concepts for each column of the DMv1.2 microbiology table, from the DM → FHIR → OMOP crosswalk. Each target's comment names the OMOP CDM field it fills. `equivalent`: the column's own concept; `narrower`: one of several concepts the column's values map to; `relatedto`: a value, unit or qualifier concept. Concept IDs of 2000000000 and above are PROTECT-CHILD custom concepts (CodeSystem ProtectChildOmopVocabulary).",
"group": [
{
"source": "https://hl7.eu/fhir/ig/hl7.eu.fhir.protect-child/CodeSystem/dm-variable-cs",
"target": "https://fhir-terminology.ohdsi.org",
"element": [
{
"code": "microbiology.ebv_dna",
"target": [
{
"code": "3012570",
"display": "Epstein Barr virus DNA [Presence] in Blood by NAA with probe detection",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45878583",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45884084",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.ebv_dna_copies",
"target": [
{
"code": "3037329",
"display": "Epstein Barr virus DNA [#/volume] (viral load) in Blood by NAA with probe detection",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "8799",
"display": "copies per milliliter",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.unit_concept_id; vocabulary UCUM."
}
]
},
{
"code": "microbiology.ebv_igm_anti_ea",
"target": [
{
"code": "3033477",
"display": "Epstein Barr virus early Ab [Presence] in Serum",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45878583",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45884084",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.ebv_igm_anti_vca",
"target": [
{
"code": "3012732",
"display": "Epstein Barr virus nuclear IgM Ab [Presence] in Serum **(correction needed: this is EBNA IgM, LOINC 7884-0; the variable is VCA IgM, LOINC 30340-4)**",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45878583",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45884084",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.ebv_igg_anti_vca",
"target": [
{
"code": "3006585",
"display": "Epstein Barr virus capsid IgG Ab [Presence] in Serum",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45878583",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45884084",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.ebv_igg_ebna",
"target": [
{
"code": "3021849",
"display": "Epstein Barr virus nuclear IgG Ab [Presence] in Serum",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45878583",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45884084",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.cmv_dna",
"target": [
{
"code": "3021884",
"display": "Cytomegalovirus DNA [Presence] in Blood by NAA with probe detection",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45878583",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45884084",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.cmv_dna_copies",
"target": [
{
"code": "3024974",
"display": "Cytomegalovirus DNA [#/volume] (viral load) in Blood by NAA with probe detection",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "8799",
"display": "copies per milliliter",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.unit_concept_id; vocabulary UCUM."
}
]
},
{
"code": "microbiology.cmv_igm",
"target": [
{
"code": "3013332",
"display": "Cytomegalovirus IgM Ab [Presence] in Serum or Plasma",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45878583",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45884084",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.cmv_igg",
"target": [
{
"code": "3012887",
"display": "Cytomegalovirus IgG Ab [Presence] in Serum or Plasma by Immunoassay",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45878583",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45884084",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.parvovirus_b19_dna",
"target": [
{
"code": "3032435",
"display": "Parvovirus B19 DNA [Presence] in Blood by NAA with probe detection",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45878583",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45884084",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.parvovirus_b19_dna_copies",
"target": [
{
"code": "3032993",
"display": "Parvovirus B19 DNA [#/volume] (viral load) in Blood by NAA with probe detection",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "8799",
"display": "copies per milliliter",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.unit_concept_id; vocabulary UCUM."
}
]
},
{
"code": "microbiology.parvovirus_b19_igg",
"target": [
{
"code": "3006410",
"display": "Parvovirus B19 IgG Ab [Presence] in Serum",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45878583",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45884084",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.parvovirus_b19_igm",
"target": [
{
"code": "3008321",
"display": "Parvovirus B19 IgM Ab [Presence] in Serum",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45878583",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45884084",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.hsv_igg",
"target": [
{
"code": "3020134",
"display": "Herpes simplex virus IgG Ab [Presence] in Serum",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45880296",
"display": "Not detected",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45877985",
"display": "Detected",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.hsv_igm",
"target": [
{
"code": "3010761",
"display": "Herpes simplex virus IgM Ab [Presence] in Serum",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45878583",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45884084",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.adenovirus_igg",
"target": [
{
"code": "3040947",
"display": "Adenovirus IgG Ab [Presence] in Serum",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45878583",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45884084",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.adenovirus_igm",
"target": [
{
"code": "3036242",
"display": "Adenovirus IgM Ab [Presence] in Serum",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45878583",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45884084",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.blood_adenovirus_dna",
"target": [
{
"code": "36203755",
"display": "Adenovirus DNA [Presence] in Blood by NAA with probe detection",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45878583",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45884084",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.blood_adenovirus_dna_copies",
"target": [
{
"code": "3028979",
"display": "Adenovirus DNA [#/volume] (viral load) in Blood by NAA with probe detection",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "8799",
"display": "copies per milliliter",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.unit_concept_id; vocabulary UCUM."
}
]
},
{
"code": "microbiology.vzv_igg",
"target": [
{
"code": "3022386",
"display": "Varicella zoster virus IgG Ab [Presence] in Serum",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45878583",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45884084",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.vzv_igm",
"target": [
{
"code": "3016065",
"display": "Varicella zoster virus IgM Ab [Presence] in Serum",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45878583",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45884084",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.blood_bkv_dna",
"target": [
{
"code": "40766205",
"display": "BK virus DNA [Presence] in Blood",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45878583",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45884084",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.blood_bkv_dna_copies",
"target": [
{
"code": "3029226",
"display": "BK virus DNA [#/volume] (viral load) in Blood by NAA with probe detection",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "8799",
"display": "copies per milliliter",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.unit_concept_id; vocabulary UCUM."
}
]
},
{
"code": "microbiology.urine_bkv_dna",
"target": [
{
"code": "3029173",
"display": "BK virus DNA [Presence] in Urine by NAA with probe detection",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45880296",
"display": "Not detected",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45877985",
"display": "Detected",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.bkv_dna_kidney_biopsy",
"target": [
{
"code": "1091792",
"display": "BK virus DNA [Presence] in Specimen",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45880296",
"display": "Not detected",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45877985",
"display": "Detected",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
}
]
},
{
"code": "microbiology.bkv_fish_kidney_biopsy",
"target": [
{
"code": "1091792",
"display": "BK virus DNA [Presence] in Specimen",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary LOINC."
},
{
"code": "45880296",
"display": "Not detected",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "45877985",
"display": "Detected",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary LOINC."
},
{
"code": "1073315",
"display": "Fluorescence in situ hybridization technique",
"equivalence": "equivalent",
"comment": "OMOP OBSERVATION.observation_concept_id; vocabulary SNOMED."
}
]
},
{
"code": "microbiology.blood_colture",
"target": [
{
"code": "4107893",
"display": "Blood culture",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary SNOMED."
},
{
"code": "9189",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary SNOMED."
},
{
"code": "9191",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary SNOMED."
}
]
},
{
"code": "microbiology.urine_colture",
"target": [
{
"code": "4024509",
"display": "Urine culture",
"equivalence": "equivalent",
"comment": "OMOP MEASUREMENT.measurement_concept_id; vocabulary SNOMED."
},
{
"code": "9189",
"display": "Negative",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary SNOMED."
},
{
"code": "9191",
"display": "Positive",
"equivalence": "relatedto",
"comment": "OMOP MEASUREMENT.value_as_concept_id; vocabulary SNOMED."
}
]
},
{
"code": "microbiology.ebv_hepatitis_liver",
"target": [
{
"code": "4119142",
"display": "Epstein-Barr virus hepatitis",
"equivalence": "equivalent",
"comment": "OMOP CONDITION_OCCURRENCE.condition_concept_id; vocabulary SNOMED."
}
]
},
{
"code": "microbiology.evidence_bkvan",
"target": [
{
"code": "37017585",
"display": "BK virus nephropathy",
"equivalence": "equivalent",
"comment": "OMOP CONDITION_OCCURRENCE.condition_concept_id; vocabulary SNOMED."
}
]
}
]
}
]
}