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Resource Profile: LabObservationMicrobiologyObservation - Mappings

Active as of 2025-03-31

Mappings for the LabObservationMicrobiologyObservation resource profile.

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

LabObservationMicrobiologyObservation
Observation
identifier
system	1476-1: fixed value = http://va.gov/identifiers/$Sta3n/63.05	generated from mapParameter line 1
value	1476: source value based on MICROBIOLOGY - IEN (63.05-.001)
category (Laboratory)	843: fixed value = http://terminology.hl7.org/CodeSystem/observation-category#laboratory
code
coding	1480: source value based on MICROBIOLOGY - ORDERED TEST > ORDERED TEST - LAB TEST ORDERED > LABORATORY TEST - SITE/SPECIMEN > SITE/SPECIMEN - LOINC CODE > LAB LOINC (63.05-.35 > 63.5-13 > 60-100 > 60.01-95.3 > 95.3-) if Not NULL
system	1480-1: fixed value = http://loinc.org if Not NULL	generated from mapParameter line 1
code	1480-2: source value based on MICROBIOLOGY - ORDERED TEST > ORDERED TEST - LAB TEST ORDERED > LABORATORY TEST - SITE/SPECIMEN > SITE/SPECIMEN - LOINC CODE > LAB LOINC - CODE (63.05-.35 > 63.5-13 > 60-100 > 60.01-95.3 > 95.3-.01) if Not NULL	generated from mapParameter line 2
display	1480-3: source value based on MICROBIOLOGY - ORDERED TEST > ORDERED TEST - LAB TEST ORDERED > LABORATORY TEST - SITE/SPECIMEN > SITE/SPECIMEN - LOINC CODE > LAB LOINC - COMPONENT (63.05-.35 > 63.5-13 > 60-100 > 60.01-95.3 > 95.3-1) if Not NULL	generated from mapParameter line 3
subject	844: reference based on PATIENT - LABORATORY REFERENCE > LAB DATA - LRDFN (2-63 > 63-.01)	Pointer from PATIENT (2)
effective[x] (effectiveDateTime)	1450: source value based on MICROBIOLOGY - DATE/TIME SPECIMEN TAKEN (63.05-.01)
issued	1484: source value based on MICROBIOLOGY - DATE REPORT COMPLETED (63.05-.03)
note	1454: source value based on MICROBIOLOGY - COMMENT ON SPECIMEN (63.05-.99)
specimen	1659: reference based on MICROBIOLOGY - MICROBIOLOGY ACCESSION (63.05-.06)

Mappings for Clinical Data Warehouse (CDW) ()

LabObservationMicrobiologyObservation
Observation
subject	Micro.AntibioticSensitivity.LRDFN,Micro.AntibioticSensitivityComment.LRDFN,Micro.BacteriologyReports.LRDFN,Micro.MicroAntibioticLevel.LRDFN,Micro.MicroAudit.LRDFN,Micro.Microbiology.LRDFN,Micro.MicroOrderedTest.LRDFN,Micro.MicroSterilityResults.LRDFN,Micro.MycobacteriologyReports.LRDFN,Micro.Mycology.LRDFN,Micro.MycologyReports.LRDFN,Micro.Parasitology.LRDFN,Micro.ParasitologyReports.LRDFN,Micro.ParasitologyStage.LRDFN,Micro.Virology.LRDFN,Micro.VirologyReports.LRDFN,Pathology.Autopsy.LRDFN,Pathology.CytoOrganTissueFunction.StaffIEN,SStaff.SMicroOrderedTest.LRDFN
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
note	Micro.Microbiology.SpecimenComment
specimen	Micro.Microbiology.MicrobiologyAccession

Mappings for Summary Document Architecure (SDA) ()

LabObservationMicrobiologyObservation
Observation
subject	Patient.Extension[PatientExtension].VeteranLrdfn
issued	Documents.ToTime,LabOrder.Result.ResultTime
specimen	LabOrder.Extension[ResultExtension].GroupName

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

LabObservationMicrobiologyObservation
Observation	Event
identifier	Event.identifier
basedOn	Event.basedOn
partOf	Event.partOf
status	Event.status
code	Event.code
subject	Event.subject
encounter	Event.context
effective[x]	Event.occurrence[x]
effective[x] (effectiveDateTime)	Event.occurrence[x]
performer	Event.performer.actor

Mappings for SNOMED CT Concept Domain Binding (http://snomed.info/conceptdomain)

LabObservationMicrobiologyObservation
Observation	< 363787002 |Observable entity|
status	< 445584004 |Report by finality status|
code	< 363787002 |Observable entity| OR < 386053000 |Evaluation procedure|
value[x]	< 441742003 |Evaluation finding|
interpretation	< 260245000 |Findings values|
bodySite	< 123037004 |Body structure|
specimen	< 123038009 |Specimen|
device	< 49062001 |Device|
referenceRange
type	< 260245000 |Findings values| OR < 365860008 |General clinical state finding| OR < 250171008 |Clinical history or observation findings| OR < 415229000 |Racial group| OR < 365400002 |Finding of puberty stage| OR < 443938003 |Procedure carried out on subject|
appliesTo	< 260245000 |Findings values| OR < 365860008 |General clinical state finding| OR < 250171008 |Clinical history or observation findings| OR < 415229000 |Racial group| OR < 365400002 |Finding of puberty stage| OR < 443938003 |Procedure carried out on subject|
component
code	< 363787002 |Observable entity| OR < 386053000 |Evaluation procedure|
value[x]	363714003 |Interprets| < 441742003 |Evaluation finding|
interpretation	< 260245000 |Findings values|

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

LabObservationMicrobiologyObservation
Observation	OBX
identifier	OBX.21 For OBX segments from systems without OBX-21 support a combination of ORC/OBR and OBX must be negotiated between trading partners to uniquely identify the OBX segment. Depending on how V2 has been implemented each of these may be an option: 1) OBR-3 + OBX-3 + OBX-4 or 2) OBR-3 + OBR-4 + OBX-3 + OBX-4 or 2) some other way to uniquely ID the OBR/ORC + OBX-3 + OBX-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
partOf	Varies by domain
status	OBX-11
code	OBX-3
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
focus	OBX-3
encounter	PV1
effective[x]	OBX-14, and/or OBX-19 after v2.4 (depends on who observation made)
effective[x] (effectiveDateTime)	OBX-14, and/or OBX-19 after v2.4 (depends on who observation made)
issued	OBR.22 (or MSH.7), or perhaps OBX-19 (depends on who observation made)
performer	OBX.15 / (Practitioner) OBX-16, PRT-5:PRT-4='RO' / (Device) OBX-18 , PRT-10:PRT-4='EQUIP' / (Organization) OBX-23, PRT-8:PRT-4='PO'
value[x]	OBX.2, OBX.5, OBX.6
dataAbsentReason	N/A
interpretation	OBX-8
note	NTE.3 (partner NTE to OBX, or sometimes another (child?) OBX)
bodySite	OBX-20
method	OBX-17
specimen	SPM segment
device	OBX-17 / PRT -10
referenceRange	OBX.7
low	OBX-7
high	OBX-7
type	OBX-10
appliesTo	OBX-10
text	OBX-7
hasMember	Relationships established by OBX-4 usage
derivedFrom	Relationships established by OBX-4 usage
component	containment by OBX-4?
code	OBX-3
value[x]	OBX.2, OBX.5, OBX.6
dataAbsentReason	N/A
interpretation	OBX-8
referenceRange	OBX.7

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

LabObservationMicrobiologyObservation
Observation	Entity. Role, or Act, Observation[classCode=OBS, moodCode=EVN]
text	Act.text?
contained	N/A
extension	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	.inboundRelationship[typeCode=COMP].source[moodCode=EVN]
partOf	.outboundRelationship[typeCode=FLFS].target
status	status Amended & Final are differentiated by whether it is the subject of a ControlAct event with a type of "revise"
category	.outboundRelationship[typeCode="COMP].target[classCode="LIST", moodCode="EVN"].code
category (Laboratory)	.outboundRelationship[typeCode="COMP].target[classCode="LIST", moodCode="EVN"].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=RTGT]
focus	participation[typeCode=SBJ]
encounter	inboundRelationship[typeCode=COMP].source[classCode=ENC, moodCode=EVN]
effective[x]	effectiveTime
effective[x] (effectiveDateTime)	effectiveTime
issued	participation[typeCode=AUT].time
performer	participation[typeCode=PRF]
value[x]	value
dataAbsentReason	value.nullFlavor
interpretation	interpretationCode
note	subjectOf.observationEvent[code="annotation"].value
bodySite	targetSiteCode
method	methodCode
specimen	participation[typeCode=SPC].specimen
device	participation[typeCode=DEV]
referenceRange	outboundRelationship[typeCode=REFV]/target[classCode=OBS, moodCode=EVN]
id	n/a
extension	n/a
modifierExtension	N/A
low	value:IVL_PQ.low
high	value:IVL_PQ.high
type	interpretationCode
appliesTo	interpretationCode
age	outboundRelationship[typeCode=PRCN].targetObservationCriterion[code="age"].value
text	value:ST
hasMember	outBoundRelationship
derivedFrom	.targetObservation
component	outBoundRelationship[typeCode=COMP]
id	n/a
extension	n/a
modifierExtension	N/A
code	code
value[x]	value
dataAbsentReason	value.nullFlavor
interpretation	interpretationCode
referenceRange	outboundRelationship[typeCode=REFV]/target[classCode=OBS, moodCode=EVN]

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

LabObservationMicrobiologyObservation
Observation
identifier	FiveWs.identifier
status	FiveWs.status
category	FiveWs.class
category (Laboratory)	FiveWs.class
code	FiveWs.what[x]
subject	FiveWs.subject[x], FiveWs.subject
focus	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
component
code	FiveWs.what[x]

Mappings for SNOMED CT Attribute Binding (http://snomed.org/attributebinding)

LabObservationMicrobiologyObservation
Observation
code	116680003 |Is a|
value[x]	363714003 |Interprets|
interpretation	363713009 |Has interpretation|
bodySite	718497002 |Inherent location|
specimen	704319004 |Inherent in|
device	424226004 |Using device|
component
value[x]	363714003 |Interprets|
interpretation	363713009 |Has interpretation|