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Resource Profile: LabObservationMicrobiologyBacteriologyDiagnosticReport - Mappings

Draft as of 2025-06-13

Mappings for the LabObservationMicrobiologyBacteriologyDiagnosticReport resource profile.

Mappings for Veterans Health Information Systems Technology and Architecture (VistA) ()

LabObservationMicrobiologyBacteriologyDiagnosticReport
DiagnosticReport
extension
extension (extension-DiagnosticReport-note)
value[x]	1442: source value based on MICROBIOLOGY - BACT RPT REMARK > BACT RPT REMARK - BACT RPT REMARK (63.05-13 > 63.33-.01)	This is the correct mapping, however, .note was not added to DR until FHIR R5. Use pre-adopt extension.
identifier
system	1605-1: fixed value = http://va.gov/identifiers/$Sta3n/63.5	generated from mapParameter line 1
value	1605: source value based on MICROBIOLOGY - ORDERED TEST > ORDERED TEST - IEN (63.05-.35 > 63.5-.001)
basedOn	1690: reference based on MICROBIOLOGY - ORDERED TEST > ORDERED TEST - CPRS ORDER # (63.05-.35 > 63.5-3)
status	1416: terminologyMaps using VF_DiagnosticReportLabStatus on MICROBIOLOGY - ORDERED TEST > ORDERED TEST - DISPOSITION (63.05-.35 > 63.5-10)	disposition based on HL7 Table 0123 status codes US Core 5 has new constraints: if status is partial, preliminary, final, ammended, corrected or appended effective[x] and issued are required
category
text	1662: source value based on LABORATORY TEST - NATIONAL VA LAB CODE > WKLD CODE - WKLD CODE LAB SECTION > WKLD CODE LAB SECT - NAME (60-64 > 64-13 > 64.21-.01)	Lab Section
category (LaboratorySlice)	1419: fixed value = http://terminology.hl7.org/CodeSystem/v2-0074#LAB
code
coding	1420: source value based on LABORATORY TEST - NATIONAL VA LAB CODE > WKLD CODE - DEFAULT LOINC CODE > LAB LOINC (60-64 > 64-25 > 95.3)	Typically LOINC. Changed VistA mapping to support some coded values and add the lab test name (non-standardized)
system	1420-2: fixed value = http://loinc.org	generated from mapParameter line 2
code	1420-1: source value based on LABORATORY TEST - NATIONAL VA LAB CODE > WKLD CODE - DEFAULT LOINC CODE > LAB LOINC - CODE (60-64 > 64-25 > 95.3-.01)	generated from mapParameter line 1
display	1420-3: source value based on LABORATORY TEST - NATIONAL VA LAB CODE > WKLD CODE - DEFAULT LOINC CODE > LAB LOINC - COMPONENT (60-64 > 64-25 > 95.3-1)	generated from mapParameter line 3
text	1661: source value based on LABORATORY TEST - NAME (60-.01)	Added the lab test name (non-standardized)
subject	1421: reference based on PATIENT - (2-) if {63>63}	Pointer from PATIENT (2)
effective[x] (effectiveDateTime)	1424: source value based on MICROBIOLOGY - DATE/TIME SPECIMEN TAKEN (63.05-.01)
issued	1429: source value based on MICROBIOLOGY - DATE REPORT COMPLETED (63.05-.03)
performer (va-by)	1434: reference based on MICROBIOLOGY - VERIFY PERSON (63.05-.04)	US Core Practitioner is must support resource
performer (va-at)	1682: reference based on MICROBIOLOGY - ACCESSIONING INSTITUTION (63.05-.112)
result	1437: reference based on See mapping for Lab Observation

Mappings for Clinical Data Warehouse (CDW) ()

LabObservationMicrobiologyBacteriologyDiagnosticReport
DiagnosticReport
extension
extension (extension-DiagnosticReport-note)
value[x]	Micro.BacteriologyReports.BacteriologyReportRemark
basedOn	Micro.MicroOrderedTest.CPRSOrderIEN SStaff.SMicroOrderedTest.CPRSOrderIEN
status	Micro.MicroOrderedTest.DispositionLabCodeIEN SStaff.SMicroOrderedTest.DispositionLabCodeIEN
category
text	Dim.LabChemTest.NationalVALabCodeIEN
code
coding	Dim.LabChemTest.NationalVALabCodeIEN
code	Dim.LabChemTest.NationalVALabCodeIEN
display	Dim.LabChemTest.NationalVALabCodeIEN
text	Dim.LabChemTest.LabChemTestName
effective[x] (effectiveDateTime)	Micro.AntibioticSensitivity.SpecimenTakenDateTime Micro.AntibioticSensitivityComment.SpecimenTakenDateTime Micro.BacteriologyReports.SpecimenTakenDateTime Micro.MicroAntibioticLevel.SpecimenTakenDateTime Micro.MicroAudit.SpecimenTakenDateTime Micro.Microbiology.SpecimenTakenDateTime Micro.MicroOrderedTest.SpecimenTakenDateTime Micro.MicroSterilityResults.SpecimenTakenDateTime Micro.MycobacteriologyReports.SpecimenTakenDateTime Micro.Mycology.SpecimenTakenDateTime Micro.MycologyReports.SpecimenTakenDateTime Micro.Parasitology.SpecimenTakenDateTime Micro.ParasitologyReports.SpecimenTakenDateTime Micro.ParasitologyStage.SpecimenTakenDateTime Micro.Virology.SpecimenTakenDateTime Micro.VirologyReports.SpecimenTakenDateTime SStaff.SMicroOrderedTest.SpecimenTakenDateTime
issued	Micro.Microbiology.ReportCompletedDateTime
performer (va-by)	Micro.Microbiology.VerifyingStaffIEN
performer (va-at)	Micro.Microbiology.AccessioningInstitutionIEN

Mappings for Summary Document Architecure (SDA) ()

LabObservationMicrobiologyBacteriologyDiagnosticReport
DiagnosticReport
issued	Documents.ToTime LabOrder.Result.ResultTime
performer (va-by)	Documents.Clinician Documents.Extension[DocumentExtension].CareProviders LabOrder.Result.VerifiedBy
performer (va-at)	Documents.EnteredAt LabOrder.Result.EnteredAt

Mappings for Virtual Patient Record XML (VPR) ()

LabObservationMicrobiologyBacteriologyDiagnosticReport
DiagnosticReport
extension
extension (extension-DiagnosticReport-note)
value[x]	accession.value [m]
code
text	panel.test med.prescription lab.test pharmacy (med).prescription

Mappings for Workflow Pattern (http://hl7.org/fhir/workflow)

LabObservationMicrobiologyBacteriologyDiagnosticReport
DiagnosticReport	Event
identifier	Event.identifier
basedOn	Event.basedOn
status	Event.status
code	Event.code
subject	Event.subject
encounter	Event.encounter
effective[x]	Event.occurrence[x]
effective[x] (effectiveDateTime)	Event.occurrence[x]
performer	Event.performer.actor
performer (va-by)	Event.performer.actor
performer (va-at)	Event.performer.actor
resultsInterpreter	Event.performer.actor

Mappings for HL7 v2 Mapping (http://hl7.org/v2)

LabObservationMicrobiologyBacteriologyDiagnosticReport
DiagnosticReport	ORU -> OBR
identifier	OBR-51/ for globally unique filler ID - OBR-3 , For non-globally unique filler-id the flller/placer number must be combined with the universal service Id - OBR-2(if present)+OBR-3+OBR-4
use	N/A
type	CX.5
system	CX.4 / EI-2-4
value	CX.1 / EI.1
period	CX.7 + CX.8
assigner	CX.4 / (CX.4,CX.9,CX.10)
basedOn	ORC? OBR-2/3?
status	OBR-25 (not 1:1 mapping)
category	OBR-24
coding	C*E.1-8, C*E.10-22
text	C*E.9. But note many systems use C*E.2 for this
category (LaboratorySlice)	OBR-24
code	OBR-4 (HL7 v2 doesn't provide an easy way to indicate both the ordered test and the performed panel)
coding	C*E.1-8, C*E.10-22
system	C*E.3
version	C*E.7
code	C*E.1
display	C*E.2 - but note this is not well followed
userSelected	Sometimes implied by being first
text	C*E.9. But note many systems use C*E.2 for this
subject	PID-3 (no HL7 v2 mapping for Group or Device)
encounter	PV1-19
effective[x]	OBR-7
effective[x] (effectiveDateTime)	OBR-7
issued	OBR-22
performer	PRT-8 (where this PRT-4-Participation = "PO")
performer (va-by)	PRT-8 (where this PRT-4-Participation = "PO")
performer (va-at)	PRT-8 (where this PRT-4-Participation = "PO")
resultsInterpreter	OBR-32, PRT-8 (where this PRT-4-Participation = "PI")
specimen	SPM
result	OBXs
media	OBX?
conclusion	OBX
conclusionCode	OBX
presentedForm	OBX

Mappings for RIM Mapping (http://hl7.org/v3)

LabObservationMicrobiologyBacteriologyDiagnosticReport
DiagnosticReport	Entity. Role, or Act, Observation[classCode=OBS, moodCode=EVN]
text	Act.text?
contained	N/A
extension
extension (extension-DiagnosticReport-note)	n/a, N/A
id	n/a
url	N/A
value[x]	N/A
modifierExtension	N/A
identifier	id
id	n/a
extension	n/a
use	Role.code or implied by context
type	Role.code or implied by context
system	II.root or Role.id.root
value	II.extension or II.root if system indicates OID or GUID (Or Role.id.extension or root)
period	Role.effectiveTime or implied by context
assigner	II.assigningAuthorityName but note that this is an improper use by the definition of the field. Also Role.scoper
basedOn	outboundRelationship[typeCode=FLFS].target
status	statusCode Note: final and amended are distinguished by whether observation is the subject of a ControlAct event of type "revise"
category	inboundRelationship[typeCode=COMP].source[classCode=LIST, moodCode=EVN, code < LabService].code
id	n/a
extension	n/a
coding	union(., ./translation)
text	./originalText[mediaType/code="text/plain"]/data
category (LaboratorySlice)	inboundRelationship[typeCode=COMP].source[classCode=LIST, moodCode=EVN, code < LabService].code
code	code
id	n/a
extension	n/a
coding	union(., ./translation)
id	n/a
extension	n/a
system	./codeSystem
version	./codeSystemVersion
code	./code
display	CV.displayName
userSelected	CD.codingRationale
text	./originalText[mediaType/code="text/plain"]/data
subject	participation[typeCode=SBJ]
encounter	inboundRelationship[typeCode=COMP].source[classCode=ENC, moodCode=EVN]
effective[x]	effectiveTime
effective[x] (effectiveDateTime)	effectiveTime
issued	participation[typeCode=VRF or AUT].time
performer	.participation[typeCode=PRF]
performer (va-by)	.participation[typeCode=PRF]
performer (va-at)	.participation[typeCode=PRF]
resultsInterpreter	.participation[typeCode=PRF]
specimen	participation[typeCode=SBJ]
result	outboundRelationship[typeCode=COMP].target
imagingStudy	outboundRelationship[typeCode=COMP].target[classsCode=DGIMG, moodCode=EVN]
media	outboundRelationship[typeCode=COMP].target
id	n/a
extension	n/a
modifierExtension	N/A
comment	.inboundRelationship[typeCode=COMP].source[classCode=OBS, moodCode=EVN, code="annotation"].value
link	.value.reference
conclusion	inboundRelationship[typeCode="SPRT"].source[classCode=OBS, moodCode=EVN, code=LOINC:48767-8].value (type=ST)
conclusionCode	inboundRelationship[typeCode=SPRT].source[classCode=OBS, moodCode=EVN, code=LOINC:54531-9].value (type=CD)
presentedForm	text (type=ED)

Mappings for FiveWs Pattern Mapping (http://hl7.org/fhir/fivews)

LabObservationMicrobiologyBacteriologyDiagnosticReport
DiagnosticReport
identifier	FiveWs.identifier
status	FiveWs.status
category	FiveWs.class
category (LaboratorySlice)	FiveWs.class
code	FiveWs.what[x]
subject	FiveWs.subject[x], FiveWs.subject
encounter	FiveWs.context
effective[x]	FiveWs.done[x]
effective[x] (effectiveDateTime)	FiveWs.done[x]
issued	FiveWs.recorded
performer	FiveWs.actor
performer (va-by)	FiveWs.actor
performer (va-at)	FiveWs.actor
resultsInterpreter	FiveWs.actor