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KazeemHamzatKazeemHamzat
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Feature-IOPS-2377-WGS Test Order Form-Send-to-LAB (#43)
* Add Task & DiagReport 1. Add Task & DiagReport 2. Update from main to CodeSystem-Genomics-task-code * Update Rename to Order On-hold Update Rename to Order On-hold * Add Consent-RoDYoungPersonAssentForm Update SR & Task Resource * Update Task Resource (Accepted & Requested) Update Task Resource (Accepted & Requested)
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‎CodeSystem/CodeSystem-Genomics-task-statusReason.json‎

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"caseSensitive": true,
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"content": "complete",
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"concept": [
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{
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"code": "AwaitingRoDAndSpecimen",
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"display": "Awaiting Record of Discussion and Specimen"
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},
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{
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"code": "InvalidRequest",
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"display": "Invalid Request"
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"code": "UnableToInterpret",
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"display": "Unable To Interpret"
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},
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{
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"code": "SpecimenReceived",
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"display": "SpecimenReceived"
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},
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{
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"code": "SpecimenQualityNotOK",
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"display": "Specimen Quality Not OK"

‎Consent/Consent-RoDYoungPersonAssentFormAvailable-Example.json‎

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{
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"resourceType": "Consent",
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"id": "Consent-RoDYoungPersonAssentFormAvailable-Example",
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"status": "active",
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"scope": {
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"coding": [
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{
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"system": "http://terminology.hl7.org/CodeSystem/consentscope",
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"code": "research",
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"display": "Research"
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}
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]
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},
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"category": [
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{
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"coding": [
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{
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"system": "http://terminology.hl7.org/CodeSystem/consentcategorycodes",
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"code": "research",
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"display": "Research Information Access"
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}
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]
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}
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],
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"sourceReference": {
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"reference": "QuestionnaireResponse/QuestionnaireResponse-RoD-YoungPersonAssentForm-Example"
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},
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"policy": [
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{
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"authority": "https://www.england.nhs.uk",
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"uri": "https://www.england.nhs.uk/wp-content/uploads/2021/09/nhs-genomic-medicine-service-young-persons-assent-form.pdf"
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}
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]
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}

‎DiagnosticReport/DiagnosticReport-JamesMetcalfeGeneticReport-Example.json‎

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{
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"resourceType": "DiagnosticReport",
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"id": "DiagnosticReport-JamesMetcalfeGeneticReport-Example",
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"identifier": [
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{
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"system": "https://royaldevon.nhs.uk//nwglh/lims",
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"value": "MD_GenomicReport",
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"assigner": {
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"identifier": {
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"system": "https://fhir.nhs.uk/Id/ods-organization-code",
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"value": "RH8"
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}
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}
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}
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],
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"basedOn": [
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{
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"reference": "ServiceRequest/ServiceRequest-WGSTestOrderFormUpdated-DirectToLab-Example"
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}
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],
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"status": "final",
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"category": [
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{
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"coding": [
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{
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"system": "http://terminology.hl7.org/CodeSystem/v2-0074",
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"code": "GE",
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"display": "Genetics"
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}
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]
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}
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],
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"code": {
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"coding": [
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{
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"system": "http://snomed.info/sct",
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"code": "1054161000000101",
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"display": "Genetic report"
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}
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]
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},
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"subject": {
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"reference": "Patient/Patient-JamesMetcalfe-Example"
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},
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"issued": "2023-10-18T11:10:00Z",
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"performer": [
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{
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"identifier": {
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"system": "https://fhir.nhs.uk/Id/ods-organization-code",
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"value": "RH8"
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}
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}
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],
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"specimen": [
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{
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"reference": "Specimen/Specimen-JamesMetcalfeBloodEDTA-Example"
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}
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],
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"presentedForm": [
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{
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"contentType": "application/pdf",
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"language": "en-GB",
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"url":"https://rgvu8f.axshare.com/?id=c6inxk&p=requester-_view_final_report",
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"size": 43272,
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"title": "Genomic Report for James Metcalfe",
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"creation": "2023-10-10"
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}
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]
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}

‎Observation/Observation-DiseasePenetrance-Example.json‎

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{
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"resourceType": "Observation",
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"id": "Observation-DiseasePenetrance-Example",
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"status": "final",
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"code": {
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"coding": [
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{
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"system": "https://fhir.nhs.uk/CodeSystem/England-GenomicTestDirectory",
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"code": "R14",
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"display": "Acutely unwell children with a likely monogenic disorder"
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}
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]
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},
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"subject": {
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"reference": "Patient/Patient-JamesMetcalfe-Example",
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"identifier": {
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"system": "https://fhir.nhs.uk/Id/nhs-number",
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"value": "7449306524"
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}
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},
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"effectiveDateTime": "2023-10-01",
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"valueCodeableConcept": {
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"coding": [
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{
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"system": "http://snomed.info/sct",
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"code": "87006007",
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"display": "Dominant autosomal hereditary disorder, incomplete penetrance"
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}
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]
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}
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}

‎Observation/Observation-Immunodeficiency-Example.json‎

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{
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"resourceType": "Observation",
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"id": "Observation-Immunodefficiency-Example",
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"status": "final",
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"code": {
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"coding": [
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{
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"system": "https://hpo.jax.org/app/",
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"code": "HP:0002721",
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"display": "Immunodefficiency"
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}
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]
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},
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"subject": {
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"reference": "Patient/Patient-JamesMetcalfe-Example",
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"identifier": {
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"system": "https://fhir.nhs.uk/Id/nhs-number",
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"value": "7449306524"
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}
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},
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"effectiveDateTime": "2023-10-01",
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"valueBoolean": true
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}

‎Patient/Patient-JamesMetcalfe-Example.json‎

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{
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"resourceType": "Patient",
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"id": "Patient-JamesMetcalfe-Example",
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"extension": [
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{
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"url": "https://fhir.hl7.org.uk/StructureDefinition/Extension-UKCore-BirthSex",
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"valueCode": "M"
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},
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{
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"url": "https://fhir.hl7.org.uk/StructureDefinition/Extension-UKCore-EthnicCategory",
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"valueCodeableConcept": {
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"coding": [
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{
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"system": "https://fhir.hl7.org.uk/CodeSystem/UKCore-EthnicCategoryEngland",
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"code": "A",
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"display": "White - British"
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}
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]
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}
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}
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],
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"identifier": [
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{
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"system": "https://fhir.nhs.uk/Id/nhs-number",
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"value": "7449306524",
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"extension": [
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{
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"url": "https://fhir.hl7.org.uk/StructureDefinition/Extension-UKCore-NHSNumberVerificationStatus",
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"valueCodeableConcept": {
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"coding": [
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{
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"system": "https://fhir.hl7.org.uk/CodeSystem/UKCore-NHSNumberVerificationStatusEngland",
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"version": "2.2.0",
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"code": "01",
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"display": "Number present and verified"
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}
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]
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}
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}
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]
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},
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{
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"system": "urn:oid:2.16.840.1.113883.2.1.3.2.4.18.24",
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"value": "RPA17643",
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"assigner": {
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"identifier": {
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"system": "https://fhir.nhs.uk/Id/ods-organization-code",
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"value": "RPA02"
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}
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}
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}
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],
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"name": [
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{
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"given": [
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"James"
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],
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"family": "Metcalfe"
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}
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],
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"gender": "male",
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"birthDate": "2013-10-10",
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"deceasedBoolean": false,
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"address": [
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{
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"line": [
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"9 Boxhill Hill,",
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"Medway"
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],
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"city": "Kent",
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"postalCode": "GH20 7PF"
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}
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],
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"generalPractitioner": [
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{
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"identifier": {
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"system": "https://fhir.hl7.org.uk/Id/gmp-number",
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"value": "G9999999"
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},
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"display": "Dr. Aero Smith"
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},
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{
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"identifier": {
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"system": "https://fhir.hl7.org.uk/Id/ODS-code",
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"value": "TP"
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},
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"display": "Test Practice"
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}
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],
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"link": [
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{
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"other": {
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"reference": "https://api.service.nhs.uk/personal-demographics/FHIR/R4/Patient/7449306524"
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},
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"type": "seealso"
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}
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]
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}

‎PractitionerRole/PractitionerRole-EugeneSmith-Example.json‎

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{
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"resourceType": "PractitionerRole",
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"id": "PractitionerRole-EugeneSmith-Example",
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"practitioner": {
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"identifier": {
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"system": "https://fhir.nhs.uk/Id/sds-user-id",
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"value": "9999999998"
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},
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"display": "Dr. Eugene Smith"
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},
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"organization": {
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"identifier": {
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"system": "https://fhir.nhs.uk/Id/ods-organization-code",
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"value": "RPA02"
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},
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"display": "MEDWAY MARITIME HOSPITAL"
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},
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"specialty": [
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{
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"coding": [
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{
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"system": "https://fhir.hl7.org.uk/CodeSystem/UKCore-PracticeSettingCode",
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"code": "820",
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"display": "General Pathology"
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}
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]
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}
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],
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"telecom": [
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{
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"system": "phone",
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"value": "01634976477"
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},
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{
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"system": "email",
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"value": "medwaypath@nhs.net"
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},
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{
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"system": "email",
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"value": "clinicalgeneticsmedway@nhs.net",
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"extension": [
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{
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"url": "http://hl7.org/fhir/StructureDefinition/contactpoint-comment",
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"valueString": "reporting"
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}
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]
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},
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{
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"system": "email",
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"value": "asmithgppracticeg@nhs.net",
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"extension": [
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{
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"url": "http://hl7.org/fhir/StructureDefinition/contactpoint-comment",
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"valueString": "reporting"
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}
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]
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}
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]
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}

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