Genomics Reporting Implementation Guide
1.1.0 - Ballot

This page is part of the Genetic Reporting Implementation Guide (v1.1.0: STU 2 Ballot 1) based on FHIR R4. The current version which supercedes this version is 2.0.0. For a full list of available versions, see the Directory of published versions

Resource Profile: GenomicSpecimen - Mappings

Mappings for the specimen resource profile.

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

GenomicSpecimen
SpecimenEntity. Role, or Act, Role[classCode=SPEC]
   textAct.text?
   containedN/A
   extensionN/A
   modifierExtensionN/A
   identifier.id
   accessionIdentifier.participation[typeCode=SBJ].act[classCode=ACSN, moodCode=EVN].id
   statusstatus
   type.code
   subject.scoper or .scoper.playsRole
   receivedTime.participation[typeCode=SBJ].act[code=SPCREC, moodCode=EVN].effectiveTime
   parent.scoper (if parent) .player.scopesRole[classCode=SPEC].player (if child)
   requestoutboundRelationship[typeCode=FLFS].target
   collection.participation[typeCode=SBJ].act[classCode=SPECCOLLECT, moodCode=EVN]
      idn/a
      extensionn/a
      modifierExtensionN/A
      collector.participation[typeCode=PFM].role
      collected[x].effectiveTime
      quantity.participation[typeCode=SBJ].role[classCode=SPEC].player.quantity
      method.methodCode
      bodySite.targetSiteCode
   processing.participation[typeCode=SBJ].act[code=SPCTRT, moodCode=EVN]
      idn/a
      extensionn/a
      modifierExtensionN/A
      description.text
      procedure.code
      additive.participation[typeCode=CSM].role[classCode=ADTV].code
      time[x].effectiveTime
   container.player.scopingRole[classCode=CONT].scoper
      idn/a
      extensionn/a
      modifierExtensionN/A
      identifier.id
      description.desc
      type.code
      capacity.quantity
      specimenQuantity.playedRole[classCode=CONT].quantity
      additive[x].scopesRole[classCode=ADTV].player
   note.inboundRelationship[typeCode=SUBJ].source[classCode=OBS, moodCode=EVN, code="annotation"].value

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

GenomicSpecimen
Specimen
   identifierFiveWs.identifier
   accessionIdentifierFiveWs.identifier
   statusFiveWs.status
   typeFiveWs.what[x]
   subjectFiveWs.subject[x], FiveWs.subject
   receivedTimeFiveWs.done[x]
   requestFiveWs.why[x]
   collection
      collectorFiveWs.actor
      collected[x]FiveWs.init
      durationFiveWs.init

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

GenomicSpecimen
Specimen
   identifierSPM-2
   accessionIdentifierSPM-30 (v2.7+)
   statusSPM-20
   typeSPM-4 and possibly SPM-5
   receivedTimeSPM-18
   requestORC? OBR-2/3?
   collectionSPM-14
      collectorPRT
      collected[x]SPM-17
      quantitySPM-12
      methodSPM-7
      bodySiteSPM-8 and SPM-9
      fastingStatus[x]OBR-
   processing
      additiveSPM-6
   container
      identifierSAC-3
      typeSPM-27
      capacityone of: SAC 16, SAC17 and SAC 20, or SAC 21 and SAC 20
      specimenQuantitySAC-23 (value) SAC-24 (units
      additive[x]SAC-27
   conditionSPM-24
   noteOBX