minimal Common Oncology Data Elements (mCODE) Implementation Guide
3.0.0 - STU3 Release United States of America flag

This page is part of the HL7 FHIR Implementation Guide: minimal Common Oncology Data Elements (mCODE) Release 1 - US Realm | STU1 (v3.0.0: STU 3) based on FHIR R4. This is the current published version in its permanent home (it will always be available at this URL). For a full list of available versions, see the Directory of published versions

Example Observation: gx-genomic-variant-somatic-bap1-indel

Generated Narrative: Observation

Resource Observation "gx-genomic-variant-somatic-bap1-indel"

Profile: Genomic Variant Profile

status: final

category: Laboratory (Observation Category Codes#laboratory)

code: 69548-6 (LOINC#69548-6)

subject: Patient/gx-cancer-patient-adam-anyperson " ANYPERSON"

effective: 2019-04-01

performer: Practitioner/us-core-practitioner-owen-oncologist " ONCOLOGIST"

value: Present (LOINC#LA9633-4)

method: Sequencing (LOINC#LA26398-0)

component

code: 48018-6 (LOINC#48018-6)

value: BAP1 (HUGO Gene Nomenclature Committee Genes#HGNC:950; gene#3815)

component

code: 51958-7 (LOINC#51958-7)

value: NM_004656.4 (Gene Reference Sequence Collection#NM_004656)

component

code: 48004-6 (LOINC#48004-6)

value: NC_000003.11(NM_004656.4):c.1768C>T (Human Genome Variation Society nomenclature#NM_004656.4:c.1768C>T)

component

code: 48005-3 (LOINC#48005-3)

value: NP_004647.1:p.(Gln590Ter) (Human Genome Variation Society nomenclature#NP_004647.1:p.(Gln590Ter))

component

code: 48002-0 (LOINC#48002-0)

value: Somatic (LOINC#LA6684-0)

component

code: 81258-6 (LOINC#81258-6)

value: 57.4 % (Details: UCUM code % = '%')

component

code: Molecular Consequence (To Be Determined Codes#molecular-consequence)

value: stop_gained (#SO:0001587)

component

code: 62374-4 (LOINC#62374-4)

value: GRCh37 (LOINC#LA14029-5)