diff --git a/BodyStructure/BodyStructure-BodySiteLocationAbdomen-Example.json b/BodyStructure/BodyStructure-BodySiteLocationAbdomen-Example.json new file mode 100644 index 00000000..2ed2a61f --- /dev/null +++ b/BodyStructure/BodyStructure-BodySiteLocationAbdomen-Example.json @@ -0,0 +1,29 @@ +{ + "resourceType": "BodyStructure", + "id": "BodyStructure-BodySiteLocationAbdomen-Example", + "morphology": { + "coding": [ + { + "system": "http://snomed.info/sct", + "code": "369755005", + "display": "Multiple tumors (qualifier value)" + } + ] + }, + "location": { + "coding": [ + { + "system": "http://snomed.info/sct", + "code": "818983003", + "display": "Structure of abdominopelvic cavity and/or content of abdominopelvic cavity and/or anterior abdominal wall (body structure)" + } + ] + }, + "patient": { + "reference": "Patient-DemeizaSeo-Example", + "identifier": { + "system": "https://fhir.nhs.uk/Id/nhs-number", + "value": "9449306559" + } + } +} \ No newline at end of file diff --git a/Observation/Observation-PercentageMalignantNuclei-Example.json b/Observation/Observation-PercentageMalignantNuclei-Example.json new file mode 100644 index 00000000..ab1df124 --- /dev/null +++ b/Observation/Observation-PercentageMalignantNuclei-Example.json @@ -0,0 +1,41 @@ +{ + "resourceType": "Observation", + "id": "Observation-PercentageMalignantNuclei-Example", + "status": "final", + "code": { + "coding": [ + { + "system": "http://snomed.info/sct", + "code": "1255076007", + "display": "Percent of cell nuclei positive for proliferation marker protein Ki-67 in primary malignant neoplasm of stomach by immunohistochemistry (observable entity)" + } + ] + }, + "subject": { + "reference": "Patient/Patient-DemeizaSeo-Example", + "identifier": { + "system": "https://fhir.nhs.uk/Id/nhs-number", + "value": "9449306559" + } + }, + "specimen": { + "reference":"Specimen/Specimen-SolidTumorDemeizaSeo-Example", + "identifier": { + "system": "https://fhir.add.nhs.uk/Id/specimenId", + "value": "RA257631", + "assigner": { + "identifier": { + "system": "https://fhir.nhs.uk/Id/ods-organization-code", + "value": "696B0" + } + } + } + }, + "valueQuantity": { + "value": 25, + "unit": "%", + "system": "http://unitsofmeasure.org", + "code": "%" + }, + "effectiveDateTime": "2023-08-09" +} \ No newline at end of file diff --git a/Observation/Observation-TumourTypeDemeizaSeo-Example.json b/Observation/Observation-TumourTypeDemeizaSeo-Example.json new file mode 100644 index 00000000..cec810bb --- /dev/null +++ b/Observation/Observation-TumourTypeDemeizaSeo-Example.json @@ -0,0 +1,28 @@ +{ + "resourceType": "Observation", + "id": "Observation-TumourTypeDemeizaSeo-Example", + "status": "final", + "code": { + "coding": [ + { + "system": "http://snomed.info/sct", + "code": "116061001", + "display": "Solid pseudopapillary carcinoma (morphologic abnormality)" + } + ] + }, + "subject": { + "reference": "Patient/Patient-DemeizaSeo-Example", + "identifier": { + "system": "https://fhir.nhs.uk/Id/nhs-number", + "value": "9449306559" + } + }, + "specimen": { + "identifier": { + "system": "https://fhir.add.nhs.uk/Id/specimenId", + "value": "RA257631" + } + }, + "effectiveDateTime": "2023-09-08T11:00:00Z" +} \ No newline at end of file diff --git a/ServiceRequest/ServiceRequest-WGSTestOrderForm-CancerSolidTumor-Example.json b/ServiceRequest/ServiceRequest-WGSTestOrderForm-CancerSolidTumor-Example.json new file mode 100644 index 00000000..ae5c5e74 --- /dev/null +++ b/ServiceRequest/ServiceRequest-WGSTestOrderForm-CancerSolidTumor-Example.json @@ -0,0 +1,111 @@ +{ + "resourceType": "ServiceRequest", + "id": "ServiceRequest-WGSTestOrderForm-CancerSolidTumor-Example", + "extension": [ + { + "url": "https://fhir.hl7.org.uk/StructureDefinition/Extension-UKCore-Coverage", + "valueCodeableConcept": { + "coding": [ + { + "system": "https://fhir.hl7.org.uk/CodeSystem/UKCore-FundingCategory", + "code": "nhs-england", + "display": "NHS England" + } + ] + } + }, + { + "url": "https://fhir.hl7.org.uk/StructureDefinition/Extension-UKCore-AdditionalContact", + "valueReference": { + "reference": "PractitionerRole/PractitionerRole-AnnaLaneKingstonPathology-Example" + } + } + ], + "status": "active", + "intent": "order", + "category": [ + { + "coding": [ + { + "system": "https://fhir.hl7.org.uk/CodeSystem/UKCore-GenomeSequencingCategory", + "code": "cancer-wgs", + "display": "Cancer - WGS" + } + ] + }, + { + "coding": [ + { + "system": "https://fhir.nhs.uk/CodeSystem/reasonfortesting-genomics", + "code": "diagnostic", + "display": "Diagnostic" + } + ] + } + ], + "priority": "routine", + "code": { + "coding": [ + { + "system": "https://fhir.nhs.uk/CodeSystem/England-GenomicTestDirectory", + "code": "M233.1", + "display": "WGS Germline and Tumour" + } + ] + }, + "subject": { + "reference": "Patient/Patient-DemeizaSeo-Example", + "identifier": { + "system": "https://fhir.nhs.uk/Id/nhs-number", + "value": "9449306559" + } + }, + "authoredOn": "2023-09-08", + "requester": { + "reference": "PractitionerRole/PractitionerRole-HazelSmithKingstonPathology-Example" + }, + "reasonCode": [ + { + "coding": [ + { + "system": "https://fhir.nhs.uk/CodeSystem/reasonfortesting-genomics", + "code": "diagnostic", + "display": "Diagnostic" + } + ] + } + ], + "performer": [ + { + "identifier": { + "system": "https://fhir.nhs.uk/Id/ods-organization-code", + "value": "RJZ" + }, + "display": "KING'S COLLEGE HOSPITAL NHS FOUNDATION TRUST" + } + ], + "supportingInfo": [ + { + "reference": "Observation/Observation-TumorType-Example" + }, + { + "reference": "Observation/Observation-PercentageMalignantNuclei-Example" + }, + { + "reference": "Consent/Consent-RoDToFollow-Example" + } + ], + "specimen": [ + { + "reference": "Specimen/Specimen-SolidTumorDemeizaSeo-Example" + } + ], + "note": [ + { + "text": "Relevant Family History" + }, + { + "text": "Other Additional Information" + } + ] +} \ No newline at end of file diff --git a/Specimen/Specimen-SolidTumorDemeizaSeo-Example.json b/Specimen/Specimen-SolidTumorDemeizaSeo-Example.json new file mode 100644 index 00000000..2d21ca33 --- /dev/null +++ b/Specimen/Specimen-SolidTumorDemeizaSeo-Example.json @@ -0,0 +1,77 @@ +{ + "resourceType": "Specimen", + "id": "Specimen-SolidTumorDemeizaSeo-Example", + "extension": [ + { + "url": "https://fhir.hl7.org.uk/StructureDefinition/Extension-UKCore-SampleCategory", + "valueCodeableConcept": { + "coding": [ + { + "system": "https://fhir.hl7.org.uk/CodeSystem/UKCore-SampleCategory", + "code": "solid-tumour", + "display": "Solid Tumour" + } + ] + } + } + ], + "identifier": [ + { + "system": "https://fhir.add.nhs.uk/Id/specimenId", + "value": "RA257631" + } + ], + "status": "available", + "type": { + "coding": [ + { + "system": "http://snomed.info/sct", + "code": "364611000000101", + "display": "Tissue resection sample" + } + ] + }, + "subject": { + "reference": "Patient/Patient-DemeizaSeo-Example", + "identifier": { + "system": "https://fhir.nhs.uk/Id/nhs-number", + "value": "9449306559" + } + }, + "collection": { + "collector": { + "identifier": { + "system": "https://fhir.nhs.uk/Id/sds-user-id", + "value": "9999999998" + }, + "display": "ClinicalScientist-John Taylor" + }, + "collectedDateTime": "2023-09-09T11:00:00Z", + "bodySite": { + "extension": [ + { + "url": "https://fhir.hl7.org.uk/StructureDefinition/Extension-UKCore-BodySiteReference", + "valueReference": { + "reference": "BodyStructure/BodyStructure-BodySiteLocationAbdomen-Example" + } + } + ] + } + }, + "condition": [ + { + "coding": [ + { + "system": "https://fhir.hl7.org.uk/CodeSystem/UKCore-PrimarySampleState", + "code": "fresh", + "display": "Fresh" + } + ] + } + ], + "request": [ + { + "reference": "ServiceRequest/ServiceRequest-WGSTestOrderForm-CancerSolidTumor-Example" + } + ] +} \ No newline at end of file diff --git a/Task/Task-WGSCancerTestOrder-SolidTumour-Example.json b/Task/Task-WGSCancerTestOrder-SolidTumour-Example.json new file mode 100644 index 00000000..870a68c3 --- /dev/null +++ b/Task/Task-WGSCancerTestOrder-SolidTumour-Example.json @@ -0,0 +1,30 @@ +{ + "resourceType": "Task", + "id": "Task-WGSCancerTestOrder-SolidTumor-Example", + "status": "requested", + "intent": "order", + "priority": "routine", + "code": { + "coding": [ + { + "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", + "code": "process-genomic-test-request", + "display": "Process Genomic Test Request" + } + ] + }, + "focus": { + "reference": "ServiceRequest/ServiceRequest-WGSTestOrderForm-CancerSolidTumor-Example" + }, + "for": { + "reference": "Patient/Patient-DemeizaSeo-Example", + "identifier": { + "system": "https://fhir.nhs.uk/Id/nhs-number", + "value": "9449306559" + } + }, + "authoredOn": "2023-09-09", + "requester": { + "reference": "PractitionerRole/PractitionerRole-HazelSmithKingstonPathology-Example" + } +}