GenomeX Data Exchange FHIR IG
0.2.0 - draft
GenomeX Data Exchange FHIR IG, published by MITRE. This guide is not an authorized publication; it is the continuous build for version 0.2.0 built by the FHIR (HL7® FHIR® Standard) CI Build. This version is based on the current content of https://github.com/CodeX-HL7-FHIR-Accelerator/GenomeX-DataExchange/ and changes regularly. See the Directory of published versions
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"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Patient_ct-xT-Patient\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Patient ct-xT-Patient</b></p><a name=\"ct-xT-Patient\"> </a><a name=\"hcct-xT-Patient\"> </a><a name=\"ct-xT-Patient-en-US\"> </a><p style=\"border: 1px #661aff solid; background-color: #e6e6ff; padding: 10px;\">Mela Mann Female, DoB: 1926-08-06 ( Medical Record Number: 993456789\u00a0(use:\u00a0official,\u00a0))</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/23ef1d1b-03a5-47d6-81e0-b9b4cbb15ccf\u00a0(use:\u00a0official,\u00a0)</td></tr></table></div>"
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"text" : "(c) Copyright Tempus 2022. All Rights Reserved."
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"text" : "1.5.0"
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"type" : {
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"code" : "ACSN",
"display" : "Accession ID"
}
]
},
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"value" : "TL-22-D3MTCAU4"
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{
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"url" : "DiagnosticReport"
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"resource" : {
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"id" : "ct-xT-ServiceRequest",
"meta" : {
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🔗 "http://mitre.org/gdx/StructureDefinition/gdx-service-request"
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"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"ServiceRequest_ct-xT-ServiceRequest\"> </a><p class=\"res-header-id\"><b>Generated Narrative: ServiceRequest ct-xT-ServiceRequest</b></p><a name=\"ct-xT-ServiceRequest\"> </a><a name=\"hcct-xT-ServiceRequest\"> </a><a name=\"ct-xT-ServiceRequest-en-US\"> </a><p><b>identifier</b>: Filler Identifier/23gcimeh</p><p><b>requisition</b>: Accession ID/TL-23-5B8EHM49</p><p><b>status</b>: Completed</p><p><b>intent</b>: Order</p><p><b>code</b>: <span title=\"Codes:{https://www.tempus.com XT.V4}\">xT - 648 gene panel</span></p><p><b>subject</b>: <a href=\"Bundle-ct-xT-bundle.html#urn-uuid-2ddeec04-75de-441c-8767-18c884ece7h4\">Bundle: type = transaction</a></p><p><b>requester</b>: <a href=\"Bundle-ct-xT-bundle.html#urn-uuid-3b3363be-d153-40ae-952f-09d15df1d9bf\">Bundle: type = transaction</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>"
},
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"code" : "FILL",
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}
]
},
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"value" : "23gcimeh"
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],
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"type" : {
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"code" : "ACSN",
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}
]
},
"system" : "https://www.tempus.com",
"value" : "TL-23-5B8EHM49"
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"status" : "completed",
"intent" : "order",
"code" : {
"coding" : [
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"system" : "https://www.tempus.com",
"code" : "XT.V4",
"display" : "xT - 648 gene panel"
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]
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"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"
}
]
}
]
},
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},
{
"fullUrl" : "urn:uuid:3b3363be-d153-40ae-952f-09d15df1d9bf",
"resource" : {
"resourceType" : "Practitioner",
"id" : "ct-xT-practitioner",
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Practitioner_ct-xT-practitioner\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Practitioner ct-xT-practitioner</b></p><a name=\"ct-xT-practitioner\"> </a><a name=\"hcct-xT-practitioner\"> </a><a name=\"ct-xT-practitioner-en-US\"> </a><p><b>identifier</b>: <a href=\"http://terminology.hl7.org/5.3.0/NamingSystem-npi.html\" title=\"National Provider Identifier\">United States National Provider Identifier</a>/9988776345</p><p><b>name</b>: Test Physician </p><p><b>address</b>: 600 Chicago Drive Everywhere TX 16789 US (work)</p><p><b>gender</b>: Female</p><h3>Qualifications</h3><table class=\"grid\"><tr><td style=\"display: none\">-</td><td><b>Code</b></td></tr><tr><td style=\"display: none\">*</td><td><span title=\"Codes:{http://terminology.hl7.org/CodeSystem/v2-0360 MD}\">Doctor of Medicine</span></td></tr></table></div>"
},
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"value" : "9988776345"
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],
"name" : [
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"given" : [
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"prefix" : [
"Dr."
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],
"address" : [
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"line" : [
"600 Chicago Drive"
],
"city" : "Everywhere",
"state" : "TX",
"postalCode" : "16789",
"country" : "US"
}
],
"gender" : "female",
"qualification" : [
{
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"coding" : [
{
"system" : "http://terminology.hl7.org/CodeSystem/v2-0360",
"version" : "2.7",
"code" : "MD"
}
]
}
}
]
},
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"url" : "Practitioner"
}
},
{
"fullUrl" : "urn:uuid:60863097-6033-41af-9f6a-d7b012e276ae",
"resource" : {
"resourceType" : "PractitionerRole",
"id" : "ct-xT-physicianRole",
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"PractitionerRole_ct-xT-physicianRole\"> </a><p class=\"res-header-id\"><b>Generated Narrative: PractitionerRole ct-xT-physicianRole</b></p><a name=\"ct-xT-physicianRole\"> </a><a name=\"hcct-xT-physicianRole\"> </a><a name=\"ct-xT-physicianRole-en-US\"> </a><p><b>practitioner</b>: <a href=\"Bundle-ct-xT-bundle.html#urn-uuid-3b3363be-d153-40ae-952f-09d15df1d9bf\">Bundle: type = transaction</a></p><p><b>organization</b>: <a href=\"Bundle-ct-xT-bundle.html#urn-uuid-f55969f0-aad6-4d9d-8af8-ae73b0ca4e8e\">Bundle: type = transaction</a></p></div>"
},
"practitioner" : {
"reference" : "urn:uuid:3b3363be-d153-40ae-952f-09d15df1d9bf"
},
"organization" : {
"reference" : "urn:uuid:f55969f0-aad6-4d9d-8af8-ae73b0ca4e8e"
}
},
"request" : {
"method" : "POST",
"url" : "PractitionerRole"
}
},
{
"fullUrl" : "urn:uuid:f55969f0-aad6-4d9d-8af8-ae73b0ca4e8e",
"resource" : {
"resourceType" : "Organization",
"id" : "ct-xT-OrderingOrganization",
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Organization_ct-xT-OrderingOrganization\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Organization ct-xT-OrderingOrganization</b></p><a name=\"ct-xT-OrderingOrganization\"> </a><a name=\"hcct-xT-OrderingOrganization\"> </a><a name=\"ct-xT-OrderingOrganization-en-US\"> </a><p><b>identifier</b>: <a href=\"http://terminology.hl7.org/5.3.0/NamingSystem-CLIA.html\" title=\""The Centers for Medicare & Medicaid Services (CMS) regulates all laboratory testing (except research) performed on humans in the U.S. through the Clinical Laboratory Improvement Amendments (CLIA). In total, CLIA covers approximately 330,000 laboratory entities. The Division of Clinical Laboratory Improvement & Quality, within the Quality, Safety & Oversight Group, under the Center for Clinical Standards and Quality (CCSQ) has the responsibility for implementing the CLIA Program.\r\n\r\nThe objective of the CLIA program is to ensure quality laboratory testing. Although all clinical laboratories must be properly certified to receive Medicare or Medicaid payments, CLIA has no direct Medicare or Medicaid program responsibilities."\r\n\r\nCMS CLIA certified laboratories will be assigned a10-digit alphanumeric CLIA identification number, with the "D" in the third position identifying the provider/supplier as a laboratory certified under CLIA."\r\n\r\nCLIA is maintained by CMS. It is in the public domain and free to use without restriction.\r\n\r\nSee http://cms.gov/regulations-and-guidance/legislation/clia.\">Clinical Laboratory Improvement Amendments</a>/14D2114007</p><p><b>active</b>: true</p><p><b>name</b>: Ordering Organization</p></div>"
},
"identifier" : [
{
"system" : "urn:oid:2.16.840.1.113883.4.7",
"value" : "14D2114007"
}
],
"active" : true,
"name" : "Ordering Organization"
},
"request" : {
"method" : "POST",
"url" : "Organization"
}
},
{
"fullUrl" : "urn:uuid:9ebd0cb1-4733-4b8e-999c-a66bcbd939dd",
"resource" : {
"resourceType" : "Practitioner",
"id" : "ct-xT-Pathologist",
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><a name=\"Practitioner_ct-xT-Pathologist\"> </a><p class=\"res-header-id\"><b>Generated Narrative: Practitioner ct-xT-Pathologist</b></p><a name=\"ct-xT-Pathologist\"> </a><a name=\"hcct-xT-Pathologist\"> </a><a name=\"ct-xT-Pathologist-en-US\"> </a><p><b>identifier</b>: <code>http://www.acme.com/identifiers/patient</code>/123456</p><p><b>name</b>: Test Pathologist </p></div>"
},
"identifier" : [
{
"system" : "http://www.acme.com/identifiers/patient",
"value" : "123456"
}
],
"name" : [
{
"family" : "Pathologist",
"given" : [
"Test"
]
}
]
},
"request" : {
"method" : "POST",
"url" : "Practitioner"
}
},
{
"fullUrl" : "urn:uuid:3970f176-e402-4eaf-989c-959e80d918ae",
"resource" : {
"resourceType" : "Organization",
"id" : "ct-xT-Tempus-Organization",
"meta" : {
"profile" : [
🔗 "http://mitre.org/gdx/StructureDefinition/gdx-lab-organization"
]
},
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"id" : "ct-xT-HLA-B-haplotype2",
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"profile" : [
🔗 "http://hl7.org/fhir/uv/genomics-reporting/StructureDefinition/haplotype"
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"system" : "http://loinc.org",
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},
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"reference" : "urn:uuid:2ddeec04-75de-441c-8767-18c884ece7h4"
},
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"code" : "B*35:01",
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}
]
},
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"code" : {
"coding" : [
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"code" : "HGNC:4932",
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}
]
}
}
]
},
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"url" : "Observation"
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},
{
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"id" : "ct-xT-HLA-C-haplotype1",
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},
"text" : {
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},
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},
{
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]
}
],
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},
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"reference" : "urn:uuid:2ddeec04-75de-441c-8767-18c884ece7h4"
},
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"issued" : "2019-02-01T00:00:00-05:00",
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"reference" : "urn:uuid:3970f176-e402-4eaf-989c-959e80d918ae"
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],
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},
{
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🔗 "http://hl7.org/fhir/uv/genomics-reporting/StructureDefinition/haplotype"
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},
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},
{
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🔗 "http://hl7.org/fhir/uv/genomics-reporting/StructureDefinition/genomic-data-file"
]
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],
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}
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"url" : "DocumentReference"
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{
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"resource" : {
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},
"text" : {
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{
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{
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"valueReference" : {
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}
}
],
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},
"performedDateTime" : "2023-02-02T01:01:10-06:00"
},
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}
},
{
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"resource" : {
"resourceType" : "Procedure",
"id" : "ct-xT-genomicStudy-2",
"meta" : {
"profile" : [
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"text" : {
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