minimal Common Oncology Data Elements (mCODE) Implementation Guide
4.0.0 - STU4
minimal Common Oncology Data Elements (mCODE) Implementation Guide
4.0.0 - STU4
minimal Common Oncology Data Elements (mCODE) Implementation Guide, published by HL7 International / Clinical Interoperability Council. This guide is not an authorized publication; it is the continuous build for version 4.0.0 built by the FHIR (HL7® FHIR® Standard) CI Build. This version is based on the current content of https://github.com/HL7/fhir-mCODE-ig/ and changes regularly. See the Directory of published versions
{
"resourceType" : "Bundle",
"id" : "gx-genomic-bundle-adam-anyperson",
"type" : "collection",
"entry" : [
{
"fullUrl" : "http://example.org/fhir/Patient/gx-cancer-patient-adam-anyperson",
"resource" : {
"resourceType" : "Patient",
"id" : "gx-cancer-patient-adam-anyperson",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-cancer-patient"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Patient_gx-cancer-patient-adam-anyperson\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Patient gx-cancer-patient-adam-anyperson</b></p><a name=\"gx-cancer-patient-adam-anyperson\"> </a><a name=\"hcgx-cancer-patient-adam-anyperson\"> </a><a name=\"gx-cancer-patient-adam-anyperson-en-US\"> </a><p style=\"border: 1px #661aff solid; background-color: #e6e6ff; padding: 10px;\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</p><hr/><table class=\"grid\"><tr><td style=\"background-color: #f3f5da\" title=\"Other Id (see the one above)\">Other Id:</td><td colspan=\"3\">Patient external identifier/22ea1d1b-03a5-47d6-81e0-b9b4cbb15ccf\u00a0(use:\u00a0usual,\u00a0)</td></tr><tr><td style=\"background-color: #f3f5da\" title=\"Ways to contact the Patient\">Contact Detail</td><td colspan=\"3\">987 Main St Anytown 12345 US </td></tr><tr><td style=\"background-color: #f3f5da\" title=\"A code classifying the person's sex assigned at birth as specified by the [Office of the National Coordinator for Health IT (ONC)](https://www.healthit.gov/newsroom/about-onc). This extension aligns with the C-CDA Birth Sex Observation (LOINC 76689-9). After version 6.0.0, this extension is no longer a *USCDI Requirement*.\"><a href=\"http://hl7.org/fhir/us/core/STU6.1/StructureDefinition-us-core-birthsex.html\">US Core Birth Sex Extension</a></td><td colspan=\"3\">M</td></tr></table></div>"
},
"extension" : [
{
"url" : "http://hl7.org/fhir/us/core/StructureDefinition/us-core-birthsex",
"valueCode" : "M"
}
],
"identifier" : [
{
"use" : "usual",
"type" : {
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/v2-0203",
"code" : "PT",
"display" : "Patient external identifier"
}
]
},
"system" : "https://www.gensop.com",
"value" : "22ea1d1b-03a5-47d6-81e0-b9b4cbb15ccf"
},
{
"type" : {
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/v2-0203",
"code" : "MR",
"display" : "Medical Record Number"
}
]
},
"system" : "http://hospital.example.org",
"value" : "123456789"
}
],
"name" : [
{
"family" : "Anyperson",
"given" : [
"Adam"
]
}
],
"gender" : "male",
"birthDate" : "1990-01-01",
"address" : [
{
"line" : [
"987 Main St"
],
"city" : "Anytown",
"postalCode" : "12345",
"country" : "US"
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/DiagnosticReport/gx-genomics-report-adam-anyperson",
"resource" : {
"resourceType" : "DiagnosticReport",
"id" : "gx-genomics-report-adam-anyperson",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-genomics-report"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"DiagnosticReport_gx-genomics-report-adam-anyperson\"> </a><p class=\"res-header-id\"><b>Generated Narrative: DiagnosticReport gx-genomics-report-adam-anyperson</b></p><a name=\"gx-genomics-report-adam-anyperson\"> </a><a name=\"hcgx-genomics-report-adam-anyperson\"> </a><a name=\"gx-genomics-report-adam-anyperson-en-US\"> </a><h2><span title=\"Codes:{http://loinc.org 51969-4}\">Genetic analysis report</span> (<span title=\"Codes:{http://terminology.hl7.org/CodeSystem/v2-0074 GE}\">Genetics</span>) </h2><table class=\"grid\"><tr><td>Subject</td><td>Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</td></tr><tr><td>When For</td><td>2022-02-15 19:28:58+0500</td></tr><tr><td>Performer</td><td> <a href=\"Organization-gx-us-core-organization-gensop-inc.html\">Organization Gensop Labs, Inc.</a></td></tr></table><p><b>Report Details</b></p><table class=\"grid\"><tr><td><b>Code</b></td><td><b>Value</b></td><td><b>Flags</b></td><td><b>When For</b></td></tr><tr><td><a href=\"Observation-gx-genomic-variant-somatic-bap1-indel.html\"><span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></a></td><td><span title=\"Codes:{http://loinc.org LA9633-4}\">Present</span></td><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-variant-somatic-cdkn2a-cnv.html\"><span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></a></td><td><span title=\"Codes:{http://loinc.org LA9633-4}\">Present</span></td><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-variant-somatic-cdkn2b-cnv.html\"><span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></a></td><td><span title=\"Codes:{http://loinc.org LA9633-4}\">Present</span></td><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-variant-somatic-kdm5d.html\"><span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></a></td><td><span title=\"Codes:{http://loinc.org LA9633-4}\">Present</span></td><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-variant-somatic-mtap.html\"><span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></a></td><td><span title=\"Codes:{http://loinc.org LA9633-4}\">Present</span></td><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-variant-somatic-mycn.html\"><span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></a></td><td><span title=\"Codes:{http://loinc.org LA9633-4}\">Present</span></td><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-variant-somatic-pof1b.html\"><span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></a></td><td><span title=\"Codes:{http://loinc.org LA9633-4}\">Present</span></td><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-variant-somatic-polrmt.html\"><span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></a></td><td><span title=\"Codes:{http://loinc.org LA9633-4}\">Present</span></td><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-diagnostic-implication-bap1.html\"><span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs diagnostic-implication}\">Diagnostic Implication</span></a></td><td/><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-diagnostic-implication-pof1b.html\"><span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs diagnostic-implication}\">Diagnostic Implication</span></a></td><td/><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-diagnostic-implication-polrmt.html\"><span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs diagnostic-implication}\">Diagnostic Implication</span></a></td><td/><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-variant-fusion-met-alk.html\"><span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></a></td><td><span title=\"Codes:{http://loinc.org LA9633-4}\">Present</span></td><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-variant-pertinent-negative-nras-kit-braf.html\"><span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></a></td><td><span title=\"Codes:{http://loinc.org LA9634-2}\">Absent</span></td><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-tmb.html\"><span title=\"Codes:{http://loinc.org 94076-7}\">Mutations/Megabase [# Ratio] in Tumor</span></a></td><td>57.1 1/1000000{Base}<span style=\"background: LightGoldenRodYellow\"> (Details: UCUM code1/1000000{Base} = '1/1000000{Base}')</span></td><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-msi.html\"><span title=\"Codes:{http://loinc.org 81695-9}\">Microsatellite instability [Interpretation] in Cancer specimen Qualitative</span></a></td><td><span title=\"Codes:{http://loinc.org LA26203-2}\">MSI-H</span></td><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-therapeutic-implication-alectinib.html\"><span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs therapeutic-implication}\">Therapeutic Implication</span></a></td><td/><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-therapeutic-implication-brigatinib.html\"><span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs therapeutic-implication}\">Therapeutic Implication</span></a></td><td/><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-therapeutic-implication-ceritinib.html\"><span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs therapeutic-implication}\">Therapeutic Implication</span></a></td><td/><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-therapeutic-implication-crizotinib.html\"><span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs therapeutic-implication}\">Therapeutic Implication</span></a></td><td/><td>Final</td><td>2019-04-01</td></tr><tr><td><a href=\"Observation-gx-genomic-therapeutic-implication-lorlatinib.html\"><span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs therapeutic-implication}\">Therapeutic Implication</span></a></td><td/><td>Final</td><td>2019-04-01</td></tr></table></div>"
},
"basedOn" : [
{
🔗 "reference" : "ServiceRequest/gx-order-tumornormal-gensop-inc"
}
],
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/v2-0074",
"code" : "GE"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "51969-4",
"display" : "Genetic analysis report"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2022-02-15T19:28:58+05:00",
"performer" : [
{
🔗 "reference" : "Organization/gx-us-core-organization-gensop-inc"
}
],
"resultsInterpreter" : [
{
🔗 "reference" : "Practitioner/gx-practitioner-test-pathologist"
}
],
"specimen" : [
{
🔗 "reference" : "Specimen/gx-genomic-specimen-tumornormal-tumor"
},
{
🔗 "reference" : "Specimen/gx-genomic-specimen-tumornormal-normal"
}
],
"result" : [
{
🔗 "reference" : "Observation/gx-genomic-variant-somatic-bap1-indel"
},
{
🔗 "reference" : "Observation/gx-genomic-variant-somatic-cdkn2a-cnv"
},
{
🔗 "reference" : "Observation/gx-genomic-variant-somatic-cdkn2b-cnv"
},
{
🔗 "reference" : "Observation/gx-genomic-variant-somatic-kdm5d"
},
{
🔗 "reference" : "Observation/gx-genomic-variant-somatic-mtap"
},
{
🔗 "reference" : "Observation/gx-genomic-variant-somatic-mycn"
},
{
🔗 "reference" : "Observation/gx-genomic-variant-somatic-pof1b"
},
{
🔗 "reference" : "Observation/gx-genomic-variant-somatic-polrmt"
},
{
🔗 "reference" : "Observation/gx-genomic-diagnostic-implication-bap1"
},
{
🔗 "reference" : "Observation/gx-genomic-diagnostic-implication-pof1b"
},
{
🔗 "reference" : "Observation/gx-genomic-diagnostic-implication-polrmt"
},
{
🔗 "reference" : "Observation/gx-genomic-variant-fusion-met-alk"
},
{
🔗 "reference" : "Observation/gx-genomic-variant-pertinent-negative-nras-kit-braf"
},
{
🔗 "reference" : "Observation/gx-genomic-tmb"
},
{
🔗 "reference" : "Observation/gx-genomic-msi"
},
{
🔗 "reference" : "Observation/gx-genomic-therapeutic-implication-alectinib"
},
{
🔗 "reference" : "Observation/gx-genomic-therapeutic-implication-brigatinib"
},
{
🔗 "reference" : "Observation/gx-genomic-therapeutic-implication-ceritinib"
},
{
🔗 "reference" : "Observation/gx-genomic-therapeutic-implication-crizotinib"
},
{
🔗 "reference" : "Observation/gx-genomic-therapeutic-implication-lorlatinib"
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/ServiceRequest/gx-order-tumornormal-gensop-inc",
"resource" : {
"resourceType" : "ServiceRequest",
"id" : "gx-order-tumornormal-gensop-inc",
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"ServiceRequest_gx-order-tumornormal-gensop-inc\"> </a><p class=\"res-header-id\"><b>Generated Narrative: ServiceRequest gx-order-tumornormal-gensop-inc</b></p><a name=\"gx-order-tumornormal-gensop-inc\"> </a><a name=\"hcgx-order-tumornormal-gensop-inc\"> </a><a name=\"gx-order-tumornormal-gensop-inc-en-US\"> </a><p><b>identifier</b>: Filler Identifier/22howe</p><p><b>status</b>: Completed</p><p><b>intent</b>: Order</p><p><b>code</b>: <span title=\"Codes:{https://www.gensop.com XT.V4}\">xT - 648 gene panel</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>reasonCode</b>: <span title=\"Codes:{http://hl7.org/fhir/sid/icd-10-cm C34.9}, {http://terminology.hl7.org/CodeSystem/icd-o-3 C34.9 8140/3}\">Malignant neoplasm of unspecified part of bronchus or lung</span></p></div>"
},
"identifier" : [
{
"type" : {
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/v2-0203",
"code" : "FILL",
"display" : "Filler Identifier"
}
]
},
"system" : "https://www.gensop.com",
"value" : "22howe"
}
],
"status" : "completed",
"intent" : "order",
"code" : {
"coding" : [
{
"system" : "https://www.gensop.com",
"code" : "XT.V4",
"display" : "xT - 648 gene panel"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"reasonCode" : [
{
"coding" : [
{
"system" : "http://hl7.org/fhir/sid/icd-10-cm",
"code" : "C34.9",
"display" : "Malignant neoplasm of unspecified part of bronchus or lung"
},
{
"system" : "http://terminology.hl7.org/CodeSystem/icd-o-3",
"code" : "C34.9 8140/3",
"display" : "Lung adenocarcinoma"
}
]
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Practitioner/gx-practitioner-test-pathologist",
"resource" : {
"resourceType" : "Practitioner",
"id" : "gx-practitioner-test-pathologist",
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Practitioner_gx-practitioner-test-pathologist\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Practitioner gx-practitioner-test-pathologist</b></p><a name=\"gx-practitioner-test-pathologist\"> </a><a name=\"hcgx-practitioner-test-pathologist\"> </a><a name=\"gx-practitioner-test-pathologist-en-US\"> </a><p><b>name</b>: Test Pathologist, MD</p></div>"
},
"name" : [
{
"text" : "Test Pathologist, MD"
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Specimen/gx-genomic-specimen-tumornormal-tumor",
"resource" : {
"resourceType" : "Specimen",
"id" : "gx-genomic-specimen-tumornormal-tumor",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-human-specimen"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Specimen_gx-genomic-specimen-tumornormal-tumor\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Specimen gx-genomic-specimen-tumornormal-tumor</b></p><a name=\"gx-genomic-specimen-tumornormal-tumor\"> </a><a name=\"hcgx-genomic-specimen-tumornormal-tumor\"> </a><a name=\"gx-genomic-specimen-tumornormal-tumor-en-US\"> </a><p><b>status</b>: Available</p><p><b>type</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/v2-0487 TUMOR}\">Tumor</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>receivedTime</b>: 2021-02-09 21:30:50+0500</p><h3>Collections</h3><table class=\"grid\"><tr><td style=\"display: none\">-</td><td><b>Collected[x]</b></td><td><b>BodySite</b></td></tr><tr><td style=\"display: none\">*</td><td>2021-02-06 17:15:00+0500</td><td><span title=\"Codes:{http://snomed.info/sct 44029006}\">Left lung structure (body structure)</span></td></tr></table></div>"
},
"status" : "available",
"type" : {
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/v2-0487",
"code" : "TUMOR",
"display" : "Tumor"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"receivedTime" : "2021-02-09T21:30:50+05:00",
"collection" : {
"collectedDateTime" : "2021-02-06T17:15:00+05:00",
"bodySite" : {
"coding" : [
{
"system" : "http://snomed.info/sct",
"code" : "44029006",
"display" : "Left lung structure (body structure)"
}
]
}
}
}
},
{
"fullUrl" : "http://example.org/fhir/Specimen/gx-genomic-specimen-tumornormal-normal",
"resource" : {
"resourceType" : "Specimen",
"id" : "gx-genomic-specimen-tumornormal-normal",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-human-specimen"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Specimen_gx-genomic-specimen-tumornormal-normal\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Specimen gx-genomic-specimen-tumornormal-normal</b></p><a name=\"gx-genomic-specimen-tumornormal-normal\"> </a><a name=\"hcgx-genomic-specimen-tumornormal-normal\"> </a><a name=\"gx-genomic-specimen-tumornormal-normal-en-US\"> </a><p><b>status</b>: Available</p><p><b>type</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/v2-0487 BLD}\">Whole Blood</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>receivedTime</b>: 2021-02-09 21:30:50+0500</p><h3>Collections</h3><table class=\"grid\"><tr><td style=\"display: none\">-</td><td><b>Collected[x]</b></td></tr><tr><td style=\"display: none\">*</td><td>2021-02-06 17:15:00+0500</td></tr></table></div>"
},
"status" : "available",
"type" : {
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/v2-0487",
"code" : "BLD",
"display" : "Whole Blood"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"receivedTime" : "2021-02-09T21:30:50+05:00",
"collection" : {
"collectedDateTime" : "2021-02-06T17:15:00+05:00"
}
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-variant-somatic-bap1-indel",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-variant-somatic-bap1-indel",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-genomic-variant"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-variant-somatic-bap1-indel\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-variant-somatic-bap1-indel</b></p><a name=\"gx-genomic-variant-somatic-bap1-indel\"> </a><a name=\"hcgx-genomic-variant-somatic-bap1-indel\"> </a><a name=\"gx-genomic-variant-somatic-bap1-indel-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA9633-4}\">Present</span></p><p><b>method</b>: <span title=\"Codes:{http://loinc.org LA26398-0}\">Sequencing</span></p><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48018-6}\">Gene studied [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.genenames.org HGNC:950}, {https://www.ncbi.nlm.nih.gov/gene 3815}\">BAP1</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 51958-7}\">Transcript reference sequence [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.ncbi.nlm.nih.gov/refseq NM_004656}\">NM_004656.4</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48004-6}\">DNA change (c.HGVS)</span></p><p><b>value</b>: <span title=\"Codes:{http://varnomen.hgvs.org NM_004656.4:c.1768C>T}\">NM_004656.4:c.1768C>T</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48005-3}\">Amino acid change (pHGVS)</span></p><p><b>value</b>: <span title=\"Codes:{http://varnomen.hgvs.org NP_004647.1:p.(Gln590Ter)}\">NP_004647.1:p.(Gln590Ter)</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48002-0}\">Genomic source class [Type]</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA6684-0}\">Somatic</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 81258-6}\">Sample variant allelic frequency [NFr]</span></p><p><b>value</b>: 57.4 %<span style=\"background: LightGoldenRodYellow\"> (Details: UCUM code% = '%')</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs molecular-consequence}\">Molecular Consequence</span></p><p><b>value</b>: <span title=\"Codes:{http://www.sequenceontology.org/ SO:0001587}\">stop_gained</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 62374-4}\">Human reference sequence assembly version</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA14029-5}\">GRCh37</span></p></blockquote></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "69548-6"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA9633-4",
"display" : "Present"
}
]
},
"method" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA26398-0",
"display" : "Sequencing"
}
]
},
"component" : [
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48018-6"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.genenames.org",
"code" : "HGNC:950",
"display" : "BAP1"
},
{
"system" : "https://www.ncbi.nlm.nih.gov/gene",
"code" : "3815",
"display" : "BAP1"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "51958-7"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.ncbi.nlm.nih.gov/refseq",
"code" : "NM_004656",
"display" : "NM_004656.4"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48004-6"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://varnomen.hgvs.org",
"code" : "NM_004656.4:c.1768C>T",
"display" : "NM_004656.4:c.1768C>T"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48005-3"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://varnomen.hgvs.org",
"code" : "NP_004647.1:p.(Gln590Ter)",
"display" : "NP_004647.1:p.(Gln590Ter)"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48002-0"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA6684-0",
"display" : "Somatic"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "81258-6"
}
]
},
"valueQuantity" : {
"value" : 57.4,
"unit" : "%",
"system" : "http://unitsofmeasure.org",
"code" : "%"
}
},
{
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "molecular-consequence"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.sequenceontology.org/",
"code" : "SO:0001587",
"display" : "stop_gained"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "62374-4"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA14029-5",
"display" : "GRCh37"
}
]
}
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-variant-somatic-cdkn2a-cnv",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-variant-somatic-cdkn2a-cnv",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-genomic-variant"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-variant-somatic-cdkn2a-cnv\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-variant-somatic-cdkn2a-cnv</b></p><a name=\"gx-genomic-variant-somatic-cdkn2a-cnv\"> </a><a name=\"hcgx-genomic-variant-somatic-cdkn2a-cnv\"> </a><a name=\"gx-genomic-variant-somatic-cdkn2a-cnv-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA9633-4}\">Present</span></p><p><b>method</b>: <span title=\"Codes:{http://loinc.org LA26398-0}\">Sequencing</span></p><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48018-6}\">Gene studied [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.genenames.org HGNC:1787}, {https://www.ncbi.nlm.nih.gov/gene 1029}\">CDKN2A</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48002-0}\">Genomic source class [Type]</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA6684-0}\">Somatic</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs molecular-consequence}\">Molecular Consequence</span></p><p><b>value</b>: <span title=\"Codes:{http://www.sequenceontology.org/ SO:0001743}\">copy_number_loss</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 62374-4}\">Human reference sequence assembly version</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA14029-5}\">GRCh37</span></p></blockquote></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "69548-6"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA9633-4",
"display" : "Present"
}
]
},
"method" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA26398-0",
"display" : "Sequencing"
}
]
},
"component" : [
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48018-6"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.genenames.org",
"code" : "HGNC:1787",
"display" : "CDKN2A"
},
{
"system" : "https://www.ncbi.nlm.nih.gov/gene",
"code" : "1029",
"display" : "CDKN2A"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48002-0"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA6684-0",
"display" : "Somatic"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "molecular-consequence"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.sequenceontology.org/",
"code" : "SO:0001743",
"display" : "copy_number_loss"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "62374-4"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA14029-5",
"display" : "GRCh37"
}
]
}
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-variant-somatic-cdkn2b-cnv",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-variant-somatic-cdkn2b-cnv",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-genomic-variant"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-variant-somatic-cdkn2b-cnv\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-variant-somatic-cdkn2b-cnv</b></p><a name=\"gx-genomic-variant-somatic-cdkn2b-cnv\"> </a><a name=\"hcgx-genomic-variant-somatic-cdkn2b-cnv\"> </a><a name=\"gx-genomic-variant-somatic-cdkn2b-cnv-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA9633-4}\">Present</span></p><p><b>method</b>: <span title=\"Codes:{http://loinc.org LA26398-0}\">Sequencing</span></p><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48018-6}\">Gene studied [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.genenames.org HGNC:1788}, {https://www.ncbi.nlm.nih.gov/gene 1030}\">CDKN2B</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48002-0}\">Genomic source class [Type]</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA6684-0}\">Somatic</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs molecular-consequence}\">Molecular Consequence</span></p><p><b>value</b>: <span title=\"Codes:{http://www.sequenceontology.org/ SO:0001743}\">copy_number_loss</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 62374-4}\">Human reference sequence assembly version</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA14029-5}\">GRCh37</span></p></blockquote></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "69548-6"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA9633-4",
"display" : "Present"
}
]
},
"method" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA26398-0",
"display" : "Sequencing"
}
]
},
"component" : [
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48018-6"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.genenames.org",
"code" : "HGNC:1788",
"display" : "CDKN2B"
},
{
"system" : "https://www.ncbi.nlm.nih.gov/gene",
"code" : "1030",
"display" : "CDKN2B"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48002-0"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA6684-0",
"display" : "Somatic"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "molecular-consequence"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.sequenceontology.org/",
"code" : "SO:0001743",
"display" : "copy_number_loss"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "62374-4"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA14029-5",
"display" : "GRCh37"
}
]
}
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-variant-somatic-kdm5d",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-variant-somatic-kdm5d",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-genomic-variant"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-variant-somatic-kdm5d\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-variant-somatic-kdm5d</b></p><a name=\"gx-genomic-variant-somatic-kdm5d\"> </a><a name=\"hcgx-genomic-variant-somatic-kdm5d\"> </a><a name=\"gx-genomic-variant-somatic-kdm5d-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA9633-4}\">Present</span></p><p><b>method</b>: <span title=\"Codes:{http://loinc.org LA26398-0}\">Sequencing</span></p><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48018-6}\">Gene studied [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.genenames.org HGNC:11115}, {https://www.ncbi.nlm.nih.gov/gene 8284}\">KDM5D</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48002-0}\">Genomic source class [Type]</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA6684-0}\">Somatic</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs molecular-consequence}\">Molecular Consequence</span></p><p><b>value</b>: <span title=\"Codes:{http://www.sequenceontology.org/ SO:0001743}\">copy_number_loss</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 62374-4}\">Human reference sequence assembly version</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA14029-5}\">GRCh37</span></p></blockquote></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "69548-6"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA9633-4",
"display" : "Present"
}
]
},
"method" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA26398-0",
"display" : "Sequencing"
}
]
},
"component" : [
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48018-6"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.genenames.org",
"code" : "HGNC:11115",
"display" : "KDM5D"
},
{
"system" : "https://www.ncbi.nlm.nih.gov/gene",
"code" : "8284",
"display" : "KDM5D"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48002-0"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA6684-0",
"display" : "Somatic"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "molecular-consequence"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.sequenceontology.org/",
"code" : "SO:0001743",
"display" : "copy_number_loss"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "62374-4"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA14029-5",
"display" : "GRCh37"
}
]
}
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-variant-somatic-mtap",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-variant-somatic-mtap",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-genomic-variant"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-variant-somatic-mtap\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-variant-somatic-mtap</b></p><a name=\"gx-genomic-variant-somatic-mtap\"> </a><a name=\"hcgx-genomic-variant-somatic-mtap\"> </a><a name=\"gx-genomic-variant-somatic-mtap-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA9633-4}\">Present</span></p><p><b>method</b>: <span title=\"Codes:{http://loinc.org LA26398-0}\">Sequencing</span></p><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48018-6}\">Gene studied [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.genenames.org HGNC:7413}, {https://www.ncbi.nlm.nih.gov/gene 4507}\">MTAP</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48002-0}\">Genomic source class [Type]</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA6684-0}\">Somatic</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs molecular-consequence}\">Molecular Consequence</span></p><p><b>value</b>: <span title=\"Codes:{http://www.sequenceontology.org/ SO:0001743}\">copy_number_loss</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 62374-4}\">Human reference sequence assembly version</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA14029-5}\">GRCh37</span></p></blockquote></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "69548-6"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA9633-4",
"display" : "Present"
}
]
},
"method" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA26398-0",
"display" : "Sequencing"
}
]
},
"component" : [
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48018-6"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.genenames.org",
"code" : "HGNC:7413",
"display" : "MTAP"
},
{
"system" : "https://www.ncbi.nlm.nih.gov/gene",
"code" : "4507",
"display" : "MTAP"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48002-0"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA6684-0",
"display" : "Somatic"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "molecular-consequence"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.sequenceontology.org/",
"code" : "SO:0001743",
"display" : "copy_number_loss"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "62374-4"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA14029-5",
"display" : "GRCh37"
}
]
}
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-variant-somatic-mycn",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-variant-somatic-mycn",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-genomic-variant"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-variant-somatic-mycn\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-variant-somatic-mycn</b></p><a name=\"gx-genomic-variant-somatic-mycn\"> </a><a name=\"hcgx-genomic-variant-somatic-mycn\"> </a><a name=\"gx-genomic-variant-somatic-mycn-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA9633-4}\">Present</span></p><p><b>method</b>: <span title=\"Codes:{http://loinc.org LA26398-0}\">Sequencing</span></p><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48018-6}\">Gene studied [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.genenames.org HGNC:7559}, {https://www.ncbi.nlm.nih.gov/gene 4613}\">MYCN</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48002-0}\">Genomic source class [Type]</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA6684-0}\">Somatic</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs molecular-consequence}\">Molecular Consequence</span></p><p><b>value</b>: <span title=\"Codes:{http://www.sequenceontology.org/ SO:0001742}\">copy_number_gain</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 62374-4}\">Human reference sequence assembly version</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA14029-5}\">GRCh37</span></p></blockquote></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "69548-6"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA9633-4",
"display" : "Present"
}
]
},
"method" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA26398-0",
"display" : "Sequencing"
}
]
},
"component" : [
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48018-6"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.genenames.org",
"code" : "HGNC:7559",
"display" : "MYCN"
},
{
"system" : "https://www.ncbi.nlm.nih.gov/gene",
"code" : "4613",
"display" : "MYCN"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48002-0"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA6684-0",
"display" : "Somatic"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "molecular-consequence"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.sequenceontology.org/",
"code" : "SO:0001742",
"display" : "copy_number_gain"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "62374-4"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA14029-5",
"display" : "GRCh37"
}
]
}
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-variant-somatic-pof1b",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-variant-somatic-pof1b",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-genomic-variant"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-variant-somatic-pof1b\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-variant-somatic-pof1b</b></p><a name=\"gx-genomic-variant-somatic-pof1b\"> </a><a name=\"hcgx-genomic-variant-somatic-pof1b\"> </a><a name=\"gx-genomic-variant-somatic-pof1b-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA9633-4}\">Present</span></p><p><b>method</b>: <span title=\"Codes:{http://loinc.org LA26398-0}\">Sequencing</span></p><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48018-6}\">Gene studied [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.genenames.org HGNC:13711}, {https://www.ncbi.nlm.nih.gov/gene 79983}\">POF1B</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48002-0}\">Genomic source class [Type]</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA6684-0}\">Somatic</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs molecular-consequence}\">Molecular Consequence</span></p><p><b>value</b>: <span title=\"Codes:{http://www.sequenceontology.org/ SO:0001583}\">missense_variant</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 51958-7}\">Transcript reference sequence [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.ncbi.nlm.nih.gov/refseq NM_004656}\">NM_004656</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48004-6}\">DNA change (c.HGVS)</span></p><p><b>value</b>: <span title=\"Codes:{http://varnomen.hgvs.org NM_001307940.2:c.430C>T}\">NM_001307940.2:c.430C>T</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48005-3}\">Amino acid change (pHGVS)</span></p><p><b>value</b>: <span title=\"Codes:{http://varnomen.hgvs.org NP_001294869.1:p.(Pro144Ser)}\">NP_001294869.1:p.(Pro144Ser)</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 81258-6}\">Sample variant allelic frequency [NFr]</span></p><p><b>value</b>: 78.6 %<span style=\"background: LightGoldenRodYellow\"> (Details: UCUM code% = '%')</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 62374-4}\">Human reference sequence assembly version</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA14029-5}\">GRCh37</span></p></blockquote></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "69548-6"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA9633-4",
"display" : "Present"
}
]
},
"method" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA26398-0",
"display" : "Sequencing"
}
]
},
"component" : [
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48018-6"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.genenames.org",
"code" : "HGNC:13711",
"display" : "POF1B"
},
{
"system" : "https://www.ncbi.nlm.nih.gov/gene",
"code" : "79983",
"display" : "POF1B"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48002-0"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA6684-0",
"display" : "Somatic"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "molecular-consequence"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.sequenceontology.org/",
"code" : "SO:0001583",
"display" : "missense_variant"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "51958-7"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.ncbi.nlm.nih.gov/refseq",
"code" : "NM_004656",
"display" : "NM_004656"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48004-6"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://varnomen.hgvs.org",
"code" : "NM_001307940.2:c.430C>T",
"display" : "NM_001307940.2:c.430C>T"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48005-3"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://varnomen.hgvs.org",
"code" : "NP_001294869.1:p.(Pro144Ser)",
"display" : "NP_001294869.1:p.(Pro144Ser)"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "81258-6"
}
]
},
"valueQuantity" : {
"value" : 78.6,
"unit" : "%",
"system" : "http://unitsofmeasure.org",
"code" : "%"
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "62374-4"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA14029-5",
"display" : "GRCh37"
}
]
}
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-variant-somatic-polrmt",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-variant-somatic-polrmt",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-genomic-variant"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-variant-somatic-polrmt\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-variant-somatic-polrmt</b></p><a name=\"gx-genomic-variant-somatic-polrmt\"> </a><a name=\"hcgx-genomic-variant-somatic-polrmt\"> </a><a name=\"gx-genomic-variant-somatic-polrmt-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA9633-4}\">Present</span></p><p><b>method</b>: <span title=\"Codes:{http://loinc.org LA26398-0}\">Sequencing</span></p><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48018-6}\">Gene studied [ID]</span></p><p><b>value</b>: <span title=\"Codes:{https://www.ncbi.nlm.nih.gov/gene 5442}\">POLRMT</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48002-0}\">Genomic source class [Type]</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA6684-0}\">Somatic</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs molecular-consequence}\">Molecular Consequence</span></p><p><b>value</b>: <span title=\"Codes:{http://www.sequenceontology.org/ SO:0001583}\">missense_variant</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 51958-7}\">Transcript reference sequence [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.ncbi.nlm.nih.gov/refseq NM_004656}\">NM_005035</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48004-6}\">DNA change (c.HGVS)</span></p><p><b>value</b>: <span title=\"Codes:{http://varnomen.hgvs.org NM_005035.4:c.598G>A}\">NM_005035.4:c.598G>A</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48005-3}\">Amino acid change (pHGVS)</span></p><p><b>value</b>: <span title=\"Codes:{http://varnomen.hgvs.org NP_005026.3:p.(Gly200Arg)}\">NP_005026.3:p.(Gly200Arg)</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 81258-6}\">Sample variant allelic frequency [NFr]</span></p><p><b>value</b>: 75.6 %<span style=\"background: LightGoldenRodYellow\"> (Details: UCUM code% = '%')</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 62374-4}\">Human reference sequence assembly version</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA14029-5}\">GRCh37</span></p></blockquote></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "69548-6"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA9633-4",
"display" : "Present"
}
]
},
"method" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA26398-0",
"display" : "Sequencing"
}
]
},
"component" : [
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48018-6"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "https://www.ncbi.nlm.nih.gov/gene",
"code" : "5442",
"display" : "POLRMT"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48002-0"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA6684-0",
"display" : "Somatic"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "molecular-consequence"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.sequenceontology.org/",
"code" : "SO:0001583",
"display" : "missense_variant"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "51958-7"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.ncbi.nlm.nih.gov/refseq",
"code" : "NM_004656",
"display" : "NM_005035"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48004-6"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://varnomen.hgvs.org",
"code" : "NM_005035.4:c.598G>A",
"display" : "NM_005035.4:c.598G>A"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48005-3"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://varnomen.hgvs.org",
"code" : "NP_005026.3:p.(Gly200Arg)",
"display" : "NP_005026.3:p.(Gly200Arg)"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "81258-6"
}
]
},
"valueQuantity" : {
"value" : 75.6,
"unit" : "%",
"system" : "http://unitsofmeasure.org",
"code" : "%"
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "62374-4"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA14029-5",
"display" : "GRCh37"
}
]
}
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-diagnostic-implication-bap1",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-diagnostic-implication-bap1",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/uv/genomics-reporting/StructureDefinition/diagnostic-implication"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-diagnostic-implication-bap1\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-diagnostic-implication-bap1</b></p><a name=\"gx-genomic-diagnostic-implication-bap1\"> </a><a name=\"hcgx-genomic-diagnostic-implication-bap1\"> </a><a name=\"gx-genomic-diagnostic-implication-bap1-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs diagnostic-implication}\">Diagnostic Implication</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>derivedFrom</b>: <a href=\"Observation-gx-genomic-variant-somatic-bap1-indel.html\">Observation Genetic variant assessment</a></p><h3>Components</h3><table class=\"grid\"><tr><td style=\"display: none\">-</td><td><b>Code</b></td><td><b>Value[x]</b></td></tr><tr><td style=\"display: none\">*</td><td><span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs functional-effect}\">Functional Effect</span></td><td><span title=\"Codes:{http://www.sequenceontology.org/ SO:0002054}\">loss of function variant</span></td></tr></table></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "diagnostic-implication"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"derivedFrom" : [
{
🔗 "reference" : "Observation/gx-genomic-variant-somatic-bap1-indel"
}
],
"component" : [
{
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "functional-effect"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.sequenceontology.org/",
"code" : "SO:0002054",
"display" : "loss of function variant"
}
]
}
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-diagnostic-implication-pof1b",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-diagnostic-implication-pof1b",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/uv/genomics-reporting/StructureDefinition/diagnostic-implication"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-diagnostic-implication-pof1b\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-diagnostic-implication-pof1b</b></p><a name=\"gx-genomic-diagnostic-implication-pof1b\"> </a><a name=\"hcgx-genomic-diagnostic-implication-pof1b\"> </a><a name=\"gx-genomic-diagnostic-implication-pof1b-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs diagnostic-implication}\">Diagnostic Implication</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>derivedFrom</b>: <a href=\"Observation-gx-genomic-variant-somatic-pof1b.html\">Observation Genetic variant assessment</a></p><h3>Components</h3><table class=\"grid\"><tr><td style=\"display: none\">-</td><td><b>Code</b></td><td><b>Value[x]</b></td></tr><tr><td style=\"display: none\">*</td><td><span title=\"Codes:{http://loinc.org 53037-8}\">Genetic variation clinical significance [Imp]</span></td><td><span title=\"Codes:{http://loinc.org LA26333-7}\">Uncertain significance</span></td></tr></table></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "diagnostic-implication"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"derivedFrom" : [
{
🔗 "reference" : "Observation/gx-genomic-variant-somatic-pof1b"
}
],
"component" : [
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "53037-8"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA26333-7",
"display" : "Uncertain significance"
}
]
}
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-diagnostic-implication-polrmt",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-diagnostic-implication-polrmt",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/uv/genomics-reporting/StructureDefinition/diagnostic-implication"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-diagnostic-implication-polrmt\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-diagnostic-implication-polrmt</b></p><a name=\"gx-genomic-diagnostic-implication-polrmt\"> </a><a name=\"hcgx-genomic-diagnostic-implication-polrmt\"> </a><a name=\"gx-genomic-diagnostic-implication-polrmt-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs diagnostic-implication}\">Diagnostic Implication</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>derivedFrom</b>: <a href=\"Observation-gx-genomic-variant-somatic-polrmt.html\">Observation Genetic variant assessment</a></p><h3>Components</h3><table class=\"grid\"><tr><td style=\"display: none\">-</td><td><b>Code</b></td><td><b>Value[x]</b></td></tr><tr><td style=\"display: none\">*</td><td><span title=\"Codes:{http://loinc.org 53037-8}\">Genetic variation clinical significance [Imp]</span></td><td><span title=\"Codes:{http://loinc.org LA26333-7}\">Uncertain significance</span></td></tr></table></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "diagnostic-implication"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"derivedFrom" : [
{
🔗 "reference" : "Observation/gx-genomic-variant-somatic-polrmt"
}
],
"component" : [
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "53037-8"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA26333-7",
"display" : "Uncertain significance"
}
]
}
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-variant-fusion-met-alk",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-variant-fusion-met-alk",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-genomic-variant"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-variant-fusion-met-alk\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-variant-fusion-met-alk</b></p><a name=\"gx-genomic-variant-fusion-met-alk\"> </a><a name=\"hcgx-genomic-variant-fusion-met-alk\"> </a><a name=\"gx-genomic-variant-fusion-met-alk-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA9633-4}\">Present</span></p><p><b>method</b>: <span title=\"Codes:{http://loinc.org LA26398-0}\">Sequencing</span></p><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48018-6}\">Gene studied [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.genenames.org HGNC:7029}, {https://www.ncbi.nlm.nih.gov/gene 4233}\">MET</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48018-6}\">Gene studied [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.genenames.org HGNC:427}, {https://www.ncbi.nlm.nih.gov/gene 238}\">ALK</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48019-4}\">DNA change type</span></p><p><b>value</b>: <span title=\"Codes:{http://www.sequenceontology.org/ SO:0002062}\">complex chromosomal rearrangement</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48002-0}\">Genomic source class [Type]</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA6684-0}\">Somatic</span></p></blockquote></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "69548-6"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA9633-4",
"display" : "Present"
}
]
},
"method" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA26398-0",
"display" : "Sequencing"
}
]
},
"component" : [
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48018-6"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.genenames.org",
"code" : "HGNC:7029",
"display" : "MET"
},
{
"system" : "https://www.ncbi.nlm.nih.gov/gene",
"code" : "4233",
"display" : "MET"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48018-6"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.genenames.org",
"code" : "HGNC:427",
"display" : "ALK"
},
{
"system" : "https://www.ncbi.nlm.nih.gov/gene",
"code" : "238",
"display" : "ALK"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48019-4"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.sequenceontology.org/",
"code" : "SO:0002062",
"display" : "complex chromosomal rearrangement"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48002-0"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA6684-0",
"display" : "Somatic"
}
]
}
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-variant-pertinent-negative-nras-kit-braf",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-variant-pertinent-negative-nras-kit-braf",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-genomic-variant"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-variant-pertinent-negative-nras-kit-braf\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-variant-pertinent-negative-nras-kit-braf</b></p><a name=\"gx-genomic-variant-pertinent-negative-nras-kit-braf\"> </a><a name=\"hcgx-genomic-variant-pertinent-negative-nras-kit-braf\"> </a><a name=\"gx-genomic-variant-pertinent-negative-nras-kit-braf-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 69548-6}\">Genetic variant assessment</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA9634-2}\">Absent</span></p><p><b>method</b>: <span title=\"Codes:{http://loinc.org LA26398-0}\">Sequencing</span></p><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48018-6}\">Gene studied [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.genenames.org HGNC:6342}\">NRAS</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48018-6}\">Gene studied [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.genenames.org HGNC:7989}\">KIT</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 48018-6}\">Gene studied [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.genenames.org HGNC:1097}\">BRAF</span></p></blockquote></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "69548-6"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA9634-2",
"display" : "Absent"
}
]
},
"method" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA26398-0",
"display" : "Sequencing"
}
]
},
"component" : [
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48018-6"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.genenames.org",
"code" : "HGNC:6342",
"display" : "NRAS"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48018-6"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.genenames.org",
"code" : "HGNC:7989",
"display" : "KIT"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "48018-6"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.genenames.org",
"code" : "HGNC:1097",
"display" : "BRAF"
}
]
}
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-tmb",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-tmb",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/uv/genomics-reporting/StructureDefinition/tmb"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-tmb\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-tmb</b></p><a name=\"gx-genomic-tmb\"> </a><a name=\"hcgx-genomic-tmb\"> </a><a name=\"gx-genomic-tmb-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 94076-7}\">Mutations/Megabase [# Ratio] in Tumor</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>value</b>: 57.1 1/1000000{Base}<span style=\"background: LightGoldenRodYellow\"> (Details: UCUM code1/1000000{Base} = '1/1000000{Base}')</span></p></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "94076-7"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"valueQuantity" : {
"value" : 57.1,
"system" : "http://unitsofmeasure.org",
"code" : "1/1000000{Base}"
}
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-therapeutic-implication-alectinib",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-therapeutic-implication-alectinib",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/uv/genomics-reporting/StructureDefinition/therapeutic-implication"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-therapeutic-implication-alectinib\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-therapeutic-implication-alectinib</b></p><a name=\"gx-genomic-therapeutic-implication-alectinib\"> </a><a name=\"hcgx-genomic-therapeutic-implication-alectinib\"> </a><a name=\"gx-genomic-therapeutic-implication-alectinib-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs therapeutic-implication}\">Therapeutic Implication</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>derivedFrom</b>: <a href=\"Observation-gx-genomic-variant-fusion-met-alk.html\">Observation Genetic variant assessment</a></p><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 51963-7}\">Medication assessed [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.nlm.nih.gov/research/umls/rxnorm 1727455}\">alectinib</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs predicted-therapeutic-implication}\">Predicted Therapeutic Implication</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA9661-5}\">Presumed responsive</span></p></blockquote></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "therapeutic-implication"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"derivedFrom" : [
{
🔗 "reference" : "Observation/gx-genomic-variant-fusion-met-alk"
}
],
"component" : [
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "51963-7"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.nlm.nih.gov/research/umls/rxnorm",
"code" : "1727455",
"display" : "alectinib"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "predicted-therapeutic-implication"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA9661-5",
"display" : "Presumed responsive"
}
]
}
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-therapeutic-implication-brigatinib",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-therapeutic-implication-brigatinib",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/uv/genomics-reporting/StructureDefinition/therapeutic-implication"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-therapeutic-implication-brigatinib\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-therapeutic-implication-brigatinib</b></p><a name=\"gx-genomic-therapeutic-implication-brigatinib\"> </a><a name=\"hcgx-genomic-therapeutic-implication-brigatinib\"> </a><a name=\"gx-genomic-therapeutic-implication-brigatinib-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs therapeutic-implication}\">Therapeutic Implication</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>derivedFrom</b>: <a href=\"Observation-gx-genomic-variant-fusion-met-alk.html\">Observation Genetic variant assessment</a></p><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 51963-7}\">Medication assessed [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.nlm.nih.gov/research/umls/rxnorm 1921217}\">brigatinib</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs predicted-therapeutic-implication}\">Predicted Therapeutic Implication</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA9661-5}\">Presumed responsive</span></p></blockquote></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "therapeutic-implication"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"derivedFrom" : [
{
🔗 "reference" : "Observation/gx-genomic-variant-fusion-met-alk"
}
],
"component" : [
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "51963-7"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.nlm.nih.gov/research/umls/rxnorm",
"code" : "1921217",
"display" : "brigatinib"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "predicted-therapeutic-implication"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA9661-5",
"display" : "Presumed responsive"
}
]
}
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-therapeutic-implication-ceritinib",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-therapeutic-implication-ceritinib",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/uv/genomics-reporting/StructureDefinition/therapeutic-implication"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-therapeutic-implication-ceritinib\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-therapeutic-implication-ceritinib</b></p><a name=\"gx-genomic-therapeutic-implication-ceritinib\"> </a><a name=\"hcgx-genomic-therapeutic-implication-ceritinib\"> </a><a name=\"gx-genomic-therapeutic-implication-ceritinib-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs therapeutic-implication}\">Therapeutic Implication</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>derivedFrom</b>: <a href=\"Observation-gx-genomic-variant-fusion-met-alk.html\">Observation Genetic variant assessment</a></p><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 51963-7}\">Medication assessed [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.nlm.nih.gov/research/umls/rxnorm 1535457}\">ceritinib</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs predicted-therapeutic-implication}\">Predicted Therapeutic Implication</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA9661-5}\">Presumed responsive</span></p></blockquote></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "therapeutic-implication"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"derivedFrom" : [
{
🔗 "reference" : "Observation/gx-genomic-variant-fusion-met-alk"
}
],
"component" : [
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "51963-7"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.nlm.nih.gov/research/umls/rxnorm",
"code" : "1535457",
"display" : "ceritinib"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "predicted-therapeutic-implication"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA9661-5",
"display" : "Presumed responsive"
}
]
}
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-therapeutic-implication-crizotinib",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-therapeutic-implication-crizotinib",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/uv/genomics-reporting/StructureDefinition/therapeutic-implication"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-therapeutic-implication-crizotinib\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-therapeutic-implication-crizotinib</b></p><a name=\"gx-genomic-therapeutic-implication-crizotinib\"> </a><a name=\"hcgx-genomic-therapeutic-implication-crizotinib\"> </a><a name=\"gx-genomic-therapeutic-implication-crizotinib-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs therapeutic-implication}\">Therapeutic Implication</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>derivedFrom</b>: <a href=\"Observation-gx-genomic-variant-fusion-met-alk.html\">Observation Genetic variant assessment</a></p><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 51963-7}\">Medication assessed [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.nlm.nih.gov/research/umls/rxnorm 1148495}\">crizotinib</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs predicted-therapeutic-implication}\">Predicted Therapeutic Implication</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA9661-5}\">Presumed responsive</span></p></blockquote></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "therapeutic-implication"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"derivedFrom" : [
{
🔗 "reference" : "Observation/gx-genomic-variant-fusion-met-alk"
}
],
"component" : [
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "51963-7"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.nlm.nih.gov/research/umls/rxnorm",
"code" : "1148495",
"display" : "crizotinib"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "predicted-therapeutic-implication"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA9661-5",
"display" : "Presumed responsive"
}
]
}
}
]
}
},
{
"fullUrl" : "http://example.org/fhir/Observation/gx-genomic-therapeutic-implication-lorlatinib",
"resource" : {
"resourceType" : "Observation",
"id" : "gx-genomic-therapeutic-implication-lorlatinib",
"meta" : {
"profile" : [
🔗 "http://hl7.org/fhir/uv/genomics-reporting/StructureDefinition/therapeutic-implication"
]
},
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Observation_gx-genomic-therapeutic-implication-lorlatinib\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Observation gx-genomic-therapeutic-implication-lorlatinib</b></p><a name=\"gx-genomic-therapeutic-implication-lorlatinib\"> </a><a name=\"hcgx-genomic-therapeutic-implication-lorlatinib\"> </a><a name=\"gx-genomic-therapeutic-implication-lorlatinib-en-US\"> </a><p><b>status</b>: Final</p><p><b>category</b>: <span title=\"Codes:{http://terminology.hl7.org/CodeSystem/observation-category laboratory}\">Laboratory</span></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs therapeutic-implication}\">Therapeutic Implication</span></p><p><b>subject</b>: <a href=\"Patient-gx-cancer-patient-adam-anyperson.html\">Adam Anyperson Male, DoB: 1990-01-01 ( Medical Record Number: 123456789)</a></p><p><b>effective</b>: 2019-04-01</p><p><b>performer</b>: <a href=\"Practitioner-us-core-practitioner-owen-oncologist.html\">Practitioner Owen Oncologist </a></p><p><b>derivedFrom</b>: <a href=\"Observation-gx-genomic-variant-fusion-met-alk.html\">Observation Genetic variant assessment</a></p><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://loinc.org 51963-7}\">Medication assessed [ID]</span></p><p><b>value</b>: <span title=\"Codes:{http://www.nlm.nih.gov/research/umls/rxnorm 2103164}\">lorlatinib</span></p></blockquote><blockquote><p><b>component</b></p><p><b>code</b>: <span title=\"Codes:{http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs predicted-therapeutic-implication}\">Predicted Therapeutic Implication</span></p><p><b>value</b>: <span title=\"Codes:{http://loinc.org LA9661-5}\">Presumed responsive</span></p></blockquote></div>"
},
"status" : "final",
"category" : [
{
"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/observation-category",
"code" : "laboratory"
}
]
}
],
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "therapeutic-implication"
}
]
},
"subject" : {
🔗 "reference" : "Patient/gx-cancer-patient-adam-anyperson"
},
"effectiveDateTime" : "2019-04-01",
"performer" : [
{
🔗 "reference" : "Practitioner/us-core-practitioner-owen-oncologist"
}
],
"derivedFrom" : [
{
🔗 "reference" : "Observation/gx-genomic-variant-fusion-met-alk"
}
],
"component" : [
{
"code" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "51963-7"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://www.nlm.nih.gov/research/umls/rxnorm",
"code" : "2103164",
"display" : "lorlatinib"
}
]
}
},
{
"code" : {
"coding" : [
{
"system" : "http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/tbd-codes-cs",
"code" : "predicted-therapeutic-implication"
}
]
},
"valueCodeableConcept" : {
"coding" : [
{
"system" : "http://loinc.org",
"code" : "LA9661-5",
"display" : "Presumed responsive"
}
]
}
}
]
}
}
]
}
IG © 2019+ HL7 International / Clinical Interoperability Council. Package hl7.fhir.us.mcode#4.0.0 based on FHIR 4.0.1. Generated 2024-11-20
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