{ "resourceType" : "Questionnaire", "id" : "dWGSAskAtOrderEntry", "meta" : { "profile" : ["https://fhir.nwgenomics.nhs.uk/StructureDefinition/NWQuestionnaire"] }, "language" : "en", "text" : { "status" : "extensions", "div" : "

Generated Narrative: Questionnaire dWGSAskAtOrderEntry

Profile: Questionnaire

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LinkIDTextCardinalityTypeDescription & Constraints\"doco\"
\".\"\".\" **For analysis purposes only - not an active or planned project.**\n\n**Ask At Order Entry Questions** for a **distributed WGS (dWGS)**\nsub-contracted order (IHE LTW `LAB-35`), used alongside the [common core\norder form](Questionnaire-GenomicTestOrder.html) - see [Order Entry\nQuestions](Questionnaire-GenomicTestOrder.html#order-entry-questions). This\nQuestionnaire carries only the fields from the [dWGS digital\nmanifest](dWGS.html#field-mapping-csv--hl7-v2--fhir) (NHS England `RGL to SGL\nSOP` Appendix 3, plus 5 local extension fields) that are **not** already\nasked by the common core - see [dWGS Sub-Order\nManifest](Questionnaire-dWGSSubOrder.html) for the full 42-field manifest\ndescription, including the fields this Questionnaire deliberately omits\nbecause the common core already asks them.Questionnairehttps://fhir.nwgenomics.nhs.uk/Questionnaire/dWGSAskAtOrderEntry#2.2.0
\".\"\".\"\".\" ReferralReferral / Sub-Order0..1groupDefinition: ServiceRequest
\".\"\".\"\".\"\".\" dWGS/referral_idOriginal Order Placer Group Number (Referral ID)1..1stringDefinition: ServiceRequest.requisition
\".\"\".\"\".\"\".\"\".\" dWGS/referral_id-designNoteNot the same field as Genomic General Ask At Order Entry's own G Number (Pedigree Number) (Observation.valueString, LOINC 74027-4) - this identifies the referral/requisition shared across every participant's sub-order, the pedigree number identifies a family/pedigree group instead. See dWGS - Outstanding Issues (resolved) for why these were previously confused, and WholeGenomicSequence.html for the pedigree number correction.0..1display
\".\"\".\"\".\"\".\" dWGS/clinical_indication_test_type_idTest Code0..1choiceDefinition: ServiceRequest.code
Value Set: Genomic Test Codes
\".\"\".\"\".\"\".\"\".\" dWGS/clinical_indication_test_type_id-designNoteThe common core's own Test Code item only appears via enableWhen branches gated on Test Category (Rare and Inherited Disease/Haemoglobinopathy/Cancer) - there is no Whole Genome Sequencing/dWGS Test Category, so none of those branches can fire for a dWGS order. This item fills that gap directly against the broader GenomicTestCodes value set rather than one of the base's narrower per-category lists.0..1display
\".\"\".\"\".\"\".\" dWGS/ordering_entity_idOriginal Ordering Facility Code0..1stringDefinition: Specimen.identifier.assigner.identifier.value
\".\"\".\"\".\"\".\"\".\" dWGS/ordering_entity_id-designNoteODS code of the original referring Trust - assigner of the Received Sample Identifier (type=PLAC) below, not the same as the Filler Order Ordering Facility Code. Conceptually related to the common core's own Referring Organisation ODS Code / Ordering Facility (HL7/ORC-21), but carried here on Specimen.identifier.assigner rather than PractitionerRole.organization, since dWGS distinguishes the original referring organisation (who provides the specimen) from the requester of this particular sub-order.0..1display
\".\"\".\"\".\"\".\" dWGS/glh_laboratory_idFiller Order Ordering Facility Code (GLH)1..1stringDefinition: ServiceRequest.requester.identifier.value
\".\"\".\"\".\"\".\"\".\" dWGS/glh_laboratory_id-designNoteA Genomic Laboratory Hub (GLH) ODS code, not the referring Trust's own ODS code - also assigns ServiceRequest.requisition and the Specimen's LIMS identifier (type=FILL). Conceptually related to the common core's own Referring Organisation ODS Code / Ordering Facility (HL7/ORC-21), but identifies the Sequencing Genomic Laboratory acting on this sub-order rather than the clinician's own referring organisation, and is carried directly on ServiceRequest.requester rather than via PractitionerRole.0..1display
\".\"\".\"\".\"\".\" dWGS/retrospective_sampleRetrospective Sample Flag0..1stringDefinition: ServiceRequest.intent
\".\"\".\"\".\"\".\"\".\" dWGS/retrospective_sample-designNoteValues: "New" (ServiceRequest.intent = filler-order) or "Retrospective"\n(ServiceRequest.intent = reflex-order - NW Genomics is reflexing further testing\noff a specimen it already holds, not a fresh sub-order).0..1display
\".\"\".\"\".\"\".\" dWGS/clinical_informationClinical Information0..1textDefinition: ServiceRequest.note
\".\"\".\"\".\"\".\"\".\" dWGS/clinical_information-designNoteSame FHIR target (ServiceRequest.note) as the common core's own Relevant clinical information and family history item (HL7/NTE-1), but sourced from a different HL7 v2 NTE field occurrence (NTE-3, not NTE-1) - both append to the same note list rather than conflicting.0..1display
\".\"\".\"\".\"\".\" dWGS/approved_byApproved By0..1string
\".\"\".\"\".\" PatientPatient0..1groupDefinition: Patient
\".\"\".\"\".\"\".\" dWGS/patient_ngis_idPatient Identifier (NGIS)1..1stringDefinition: Patient.identifier
\".\"\".\"\".\"\".\"\".\" dWGS/patient_ngis_id-designNoteNo confirmed identifier system - carried as Patient.identifier.assigner (Genomics England, ODS 8J834, who run NGIS), type=PI (v2-0203 Patient internal identifier). The common core's own Patient group (name/DOB/NHS number) is not repeated here - it is asked once by Genomic Test Order itself.0..1display
\".\"\".\"\".\" AskAtOrderEntryAsk At Order Entry Questions0..1group
\".\"\".\"\".\"\".\" NOS/FamilyStructureFamily Structure1..1stringDefinition: Observation.valueCodeableConcept
\".\"\".\"\".\"\".\"\".\" NOS/FamilyStructure-designNoteValues: "Singleton", "Duo" or "Trio" - how many people are being tested together\nas part of this referral. Text-only (no NW-GMSA-confirmed coding system exists),\ncarried as an Observation referenced from ServiceRequest.supportingInfo. See\n[dWGS - Singleton, Duo and Trio testing](dWGS.html#singleton-duo-and-trio-testing).0..1display
\".\"\".\"\".\"\".\" NOS/ParticipantTypeParticipant Type1..1stringDefinition: Observation.valueCodeableConcept
\".\"\".\"\".\"\".\"\".\" NOS/ParticipantType-designNoteValues: "Proband" or "Family Member" - this individual's role within the Family\nStructure above. Text-only, carried as an Observation referenced from\nServiceRequest.supportingInfo.0..1display
\".\"\".\"\".\" PrimarySpecimenPrimary Specimen (as received by GLH)0..1groupDefinition: Specimen
\".\"\".\"\".\"\".\" dWGS/primary_sample_received_dateSample Received Date0..1dateTimeDefinition: Specimen.receivedTime
\".\"\".\"\".\"\".\"\".\" dWGS/primary_sample_received_date-designNoteSame FHIR target (Specimen.receivedTime) as Date and time sample received in lab in NW Genomic General Ask At Order Questions (NOS/SampleReceived) - kept as its own item here since it belongs to dWGS's two-specimen model (primary vs dispatched), not because it is new content.0..1display
\".\"\".\"\".\"\".\" dWGS/primary_sample_id_as_received_by_glhReceived Sample Identifier0..1stringDefinition: Specimen.identifier
\".\"\".\"\".\"\".\"\".\" dWGS/primary_sample_id_as_received_by_glh-designNoteAssigned by the Original Ordering Facility - coded type=PLAC (Placer Identifier). The same general element as the common core's own Specimen ID Number (LN/80398-1) - this is the PLAC-typed instance of it, specific to the two-specimen (primary/dispatched) dWGS model.0..1display
\".\"\".\"\".\"\".\" dWGS/primary_sample_id_in_glh_limsLIMS Sample Identifier0..1stringDefinition: Specimen.identifier
\".\"\".\"\".\"\".\"\".\" dWGS/primary_sample_id_in_glh_lims-designNoteAssigned by the Filler Order Ordering Facility (GLH) - coded type=FILL (Filler Identifier). Conceptually the same as the common core's own Lab DNA Number (If Known) (Specimen/accessionIdentifier), which instead uses Specimen.accessionIdentifier rather than a typed Specimen.identifier - the two have not been reconciled onto a single FHIR element.0..1display
\".\"\".\"\".\"\".\" dWGS/primary_sample_typeSample Type0..1string
\".\"\".\"\".\"\".\"\".\" dWGS/primary_sample_type-designNoteGermline/tumour classifier - low confidence, no clean Specimen field identified; not currently built into any FHIR resource.0..1display
\".\"\".\"\".\"\".\" dWGS/received_sample_topographySample Topography0..1stringDefinition: Specimen.bodySite
\".\"\".\"\".\"\".\"\".\" dWGS/received_sample_topography-designNoteCancer referrals only. Conceptually overlaps with the common core's own Tissue source/organ of origin (LN/39111-0, Specimen.collection.bodySite) - kept separate pending reconciliation of the exact FHIR path.0..1display
\".\"\".\"\".\"\".\" dWGS/received_sample_morphologySample Morphology0..1string
\".\"\".\"\".\"\".\" dWGS/received_sample_tumour_content_pctTumour Content (%)0..1decimal
\".\"\".\"\".\"\".\"\".\" dWGS/received_sample_tumour_content_pct-designNoteCancer referrals only. The same underlying concept as Neoplastic cell content in WGS Local Test Order Ask At Order Entry Questions (NOS/NeoplasticCellContent-wgs) - see dWGS - Comparison with WGS Local Test Order for how the distributed (dWGS) and local paper-based WGS pathways relate.0..1display
\".\"\".\"\".\"\".\" dWGS/received_sample_commentsSample Comments0..1string
\".\"\".\"\".\" DispatchedSpecimenDispatched Specimen (extracted DNA sent onward)0..1groupDefinition: Specimen
\".\"\".\"\".\"\".\" dWGS/dispatched_sample_id_in_glh_limsDispatched Sample Identifier0..1string
\".\"\".\"\".\"\".\" dWGS/dispatched_sample_lsidSpecimen Barcode1..1stringDefinition: Specimen.container.identifier
\".\"\".\"\".\"\".\"\".\" dWGS/dispatched_sample_lsid-designNoteCarried on Specimen.container.identifier, coded type=ZCID - see NW IdentifierType.0..1display
\".\"\".\"\".\"\".\" dWGS/dispatched_sample_typeDispatched Sample Type0..1string
\".\"\".\"\".\"\".\" dWGS/dispatched_sample_stateDispatched Material Type0..1string
\".\"\".\"\".\"\".\"\".\" dWGS/dispatched_sample_state-designNoteNot currently built into any FHIR resource - the worked example's single Specimen only carries the primary specimen's Sample Material Type.0..1display
\".\"\".\"\".\"\".\" dWGS/dispatched_sample_volume_ulSample Volume (uL)0..1decimalDefinition: Specimen.collection.quantity
\".\"\".\"\".\"\".\"\".\" dWGS/dispatched_sample_volume_ul-designNoteSame FHIR target (Specimen.collection.quantity) as the common core's own Specimen Volume/number of slides or scrolls (LN/3169-0) - kept as its own item because it specifically measures the dispatched DNA volume, not the raw specimen.0..1display
\".\"\".\"\".\"\".\" dWGS/dna_extraction_protocolDNA Extraction Method0..1stringDefinition: Specimen.collection.method
\".\"\".\"\".\"\".\" dWGS/glh_sample_consignment_numberConsignment Number0..1stringDefinition: Specimen.identifier
\".\"\".\"\".\"\".\"\".\" dWGS/glh_sample_consignment_number-designNoteCarried as a Specimen identifier, coded type=STN (Shipment Tracking Number) - the same identifier type as the common core's own Tracking number (LN/97209-1, Specimen.identifier[ShipmentTrackingNumber]).0..1display
\".\"\".\"\".\" LaboratoryQCLaboratory QC and Logistics0..1group
\".\"\".\"\".\"\".\" dWGS/laboratory_remaining_volume_banked_ulRemaining Banked Volume (uL)0..1decimal
\".\"\".\"\".\"\".\" dWGS/glh_concentration_ng_ulDNA Concentration (ng/uL)0..1decimal
\".\"\".\"\".\"\".\" dWGS/glh_od260_280DNA Purity (OD260/280)0..1decimal
\".\"\".\"\".\"\".\" dWGS/glh_din_valueDNA Integrity Number0..1decimal
\".\"\".\"\".\"\".\" dWGS/glh_percentage_dna_over_23kbDNA Fragment Size (% over 23kb)0..1decimal
\".\"\".\"\".\"\".\" dWGS/glh_qc_statusQC Status0..1string
\".\"\".\"\".\"\".\" dWGS/glh_sample_dispatch_dateDispatch Date0..1date
\".\"\".\"\".\"\".\" dWGS/plating_organisationPlating Organisation0..1string
\".\"\".\"\".\"\".\" dWGS/gmc_rack_idRack Identifier0..1string
\".\"\".\"\".\"\".\" dWGS/gmc_rack_wellRack Well Position0..1string
\".\"\".\"\".\"\".\"\".\" dWGS/gmc_rack_well-designNotePattern: [A-H]01-09 or [A-H]10-12.0..1display
\".\"\".\"\".\"\".\" dWGS/prolonged_sample_storageSample Storage Method0..1string

\"doco\" Documentation for this format
" }, "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/artifact-versionAlgorithm", "valueCoding" : { "system" : "http://hl7.org/fhir/version-algorithm", "code" : "semver" } }], "url" : "https://fhir.nwgenomics.nhs.uk/Questionnaire/dWGSAskAtOrderEntry", "version" : "2.2.0", "title" : "dWGS Ask At Order Entry Questions", "derivedFrom" : ["https://fhir.nwgenomics.nhs.uk/Questionnaire/GenomicTestOrder|2.2.0"], "_derivedFrom" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-derivationType", "valueCoding" : { "system" : "http://hl7.org/fhir/questionnaire-derivationType", "code" : "extends" } }] }], "status" : "draft", "date" : "2026-09-20T05:53:36+00:00", "publisher" : "NHS North West Genomics", "contact" : [{ "telecom" : [{ "system" : "url", "value" : "https://www.nwgenomics.nhs.uk/contact-us" }] }], "description" : "**For analysis purposes only - not an active or planned project.**\n\n**Ask At Order Entry Questions** for a **distributed WGS (dWGS)**\nsub-contracted order (IHE LTW `LAB-35`), used alongside the [common core\norder form](Questionnaire-GenomicTestOrder.html) - see [Order Entry\nQuestions](Questionnaire-GenomicTestOrder.html#order-entry-questions). This\nQuestionnaire carries only the fields from the [dWGS digital\nmanifest](dWGS.html#field-mapping-csv--hl7-v2--fhir) (NHS England `RGL to SGL\nSOP` Appendix 3, plus 5 local extension fields) that are **not** already\nasked by the common core - see [dWGS Sub-Order\nManifest](Questionnaire-dWGSSubOrder.html) for the full 42-field manifest\ndescription, including the fields this Questionnaire deliberately omits\nbecause the common core already asks them.", "jurisdiction" : [{ "coding" : [{ "system" : "urn:iso:std:iso:3166", "code" : "GB", "display" : "United Kingdom of Great Britain and Northern Ireland" }] }], "item" : [{ "linkId" : "Referral", "definition" : "http://hl7.org/fhir/StructureDefinition/ServiceRequest#ServiceRequest", "text" : "Referral / Sub-Order", "type" : "group", "item" : [{ "linkId" : "dWGS/referral_id", "definition" : "http://hl7.org/fhir/StructureDefinition/ServiceRequest#ServiceRequest.requisition", "text" : "Original Order Placer Group Number (Referral ID)", "type" : "string", "required" : true, "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "dWGS/referral_id-designNote", "text" : "Not the same field as Genomic General Ask At Order Entry's own G Number (Pedigree Number) (Observation.valueString, LOINC 74027-4) - this identifies the referral/requisition shared across every participant's sub-order, the pedigree number identifies a family/pedigree group instead. See dWGS - Outstanding Issues (resolved) for why these were previously confused, and WholeGenomicSequence.html for the pedigree number correction.", "type" : "display" }] }, { "linkId" : "dWGS/clinical_indication_test_type_id", "definition" : "http://hl7.org/fhir/StructureDefinition/ServiceRequest#ServiceRequest.code", "text" : "Test Code", "type" : "choice", "required" : false, "answerValueSet" : "https://fhir.nwgenomics.nhs.uk/ValueSet/GenomicTestCodes", "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "dWGS/clinical_indication_test_type_id-designNote", "text" : "The common core's own Test Code item only appears via enableWhen branches gated on Test Category (Rare and Inherited Disease/Haemoglobinopathy/Cancer) - there is no Whole Genome Sequencing/dWGS Test Category, so none of those branches can fire for a dWGS order. This item fills that gap directly against the broader GenomicTestCodes value set rather than one of the base's narrower per-category lists.", "type" : "display" }] }, { "linkId" : "dWGS/ordering_entity_id", "definition" : "http://hl7.org/fhir/StructureDefinition/Specimen#Specimen.identifier.assigner.identifier.value", "text" : "Original Ordering Facility Code", "type" : "string", "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "dWGS/ordering_entity_id-designNote", "text" : "ODS code of the original referring Trust - assigner of the Received Sample Identifier (type=PLAC) below, not the same as the Filler Order Ordering Facility Code. Conceptually related to the common core's own Referring Organisation ODS Code / Ordering Facility (HL7/ORC-21), but carried here on Specimen.identifier.assigner rather than PractitionerRole.organization, since dWGS distinguishes the original referring organisation (who provides the specimen) from the requester of this particular sub-order.", "type" : "display" }] }, { "linkId" : "dWGS/glh_laboratory_id", "definition" : "http://hl7.org/fhir/StructureDefinition/ServiceRequest#ServiceRequest.requester.identifier.value", "text" : "Filler Order Ordering Facility Code (GLH)", "type" : "string", "required" : true, "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "dWGS/glh_laboratory_id-designNote", "text" : "A Genomic Laboratory Hub (GLH) ODS code, not the referring Trust's own ODS code - also assigns ServiceRequest.requisition and the Specimen's LIMS identifier (type=FILL). Conceptually related to the common core's own Referring Organisation ODS Code / Ordering Facility (HL7/ORC-21), but identifies the Sequencing Genomic Laboratory acting on this sub-order rather than the clinician's own referring organisation, and is carried directly on ServiceRequest.requester rather than via PractitionerRole.", "type" : "display" }] }, { "linkId" : "dWGS/retrospective_sample", "definition" : "http://hl7.org/fhir/StructureDefinition/ServiceRequest#ServiceRequest.intent", "text" : "Retrospective Sample Flag", "type" : "string", "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "dWGS/retrospective_sample-designNote", "text" : "Values: \"New\" (ServiceRequest.intent = filler-order) or \"Retrospective\"\n(ServiceRequest.intent = reflex-order - NW Genomics is reflexing further testing\noff a specimen it already holds, not a fresh sub-order).", "type" : "display" }] }, { "linkId" : "dWGS/clinical_information", "definition" : "http://hl7.org/fhir/StructureDefinition/ServiceRequest#ServiceRequest.note", "text" : "Clinical Information", "type" : "text", "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "dWGS/clinical_information-designNote", "text" : "Same FHIR target (ServiceRequest.note) as the common core's own Relevant clinical information and family history item (HL7/NTE-1), but sourced from a different HL7 v2 NTE field occurrence (NTE-3, not NTE-1) - both append to the same note list rather than conflicting.", "type" : "display" }] }, { "linkId" : "dWGS/approved_by", "text" : "Approved By", "type" : "string" }] }, { "linkId" : "Patient", "definition" : "http://hl7.org/fhir/StructureDefinition/Patient#Patient", "text" : "Patient", "type" : "group", "item" : [{ "linkId" : "dWGS/patient_ngis_id", "definition" : "http://hl7.org/fhir/StructureDefinition/Patient#Patient.identifier", "text" : "Patient Identifier (NGIS)", "type" : "string", "required" : true, "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "dWGS/patient_ngis_id-designNote", "text" : "No confirmed identifier system - carried as Patient.identifier.assigner (Genomics England, ODS 8J834, who run NGIS), type=PI (v2-0203 Patient internal identifier). The common core's own Patient group (name/DOB/NHS number) is not repeated here - it is asked once by Genomic Test Order itself.", "type" : "display" }] }] }, { "linkId" : "AskAtOrderEntry", "text" : "Ask At Order Entry Questions", "type" : "group", "item" : [{ "linkId" : "NOS/FamilyStructure", "definition" : "http://hl7.org/fhir/StructureDefinition/Observation#Observation.valueCodeableConcept", "code" : [{ "system" : "https://fhir.nwgenomics.nhs.uk/CodeSystem/NWGMSA", "code" : "FamilyStructure" }], "text" : "Family Structure", "type" : "string", "required" : true, "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "NOS/FamilyStructure-designNote", "text" : "Values: \"Singleton\", \"Duo\" or \"Trio\" - how many people are being tested together\nas part of this referral. Text-only (no NW-GMSA-confirmed coding system exists),\ncarried as an Observation referenced from ServiceRequest.supportingInfo. See\n[dWGS - Singleton, Duo and Trio testing](dWGS.html#singleton-duo-and-trio-testing).", "type" : "display" }] }, { "linkId" : "NOS/ParticipantType", "definition" : "http://hl7.org/fhir/StructureDefinition/Observation#Observation.valueCodeableConcept", "code" : [{ "system" : "https://fhir.nwgenomics.nhs.uk/CodeSystem/NWGMSA", "code" : "ParticipantType" }], "text" : "Participant Type", "type" : "string", "required" : true, "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "NOS/ParticipantType-designNote", "text" : "Values: \"Proband\" or \"Family Member\" - this individual's role within the Family\nStructure above. Text-only, carried as an Observation referenced from\nServiceRequest.supportingInfo.", "type" : "display" }] }] }, { "linkId" : "PrimarySpecimen", "definition" : "http://hl7.org/fhir/StructureDefinition/Specimen#Specimen", "text" : "Primary Specimen (as received by GLH)", "type" : "group", "item" : [{ "linkId" : "dWGS/primary_sample_received_date", "definition" : "http://hl7.org/fhir/StructureDefinition/Specimen#Specimen.receivedTime", "text" : "Sample Received Date", "type" : "dateTime", "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "dWGS/primary_sample_received_date-designNote", "text" : "Same FHIR target (Specimen.receivedTime) as Date and time sample received in lab in NW Genomic General Ask At Order Questions (NOS/SampleReceived) - kept as its own item here since it belongs to dWGS's two-specimen model (primary vs dispatched), not because it is new content.", "type" : "display" }] }, { "linkId" : "dWGS/primary_sample_id_as_received_by_glh", "definition" : "http://hl7.org/fhir/StructureDefinition/Specimen#Specimen.identifier", "text" : "Received Sample Identifier", "type" : "string", "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "dWGS/primary_sample_id_as_received_by_glh-designNote", "text" : "Assigned by the Original Ordering Facility - coded type=PLAC (Placer Identifier). The same general element as the common core's own Specimen ID Number (LN/80398-1) - this is the PLAC-typed instance of it, specific to the two-specimen (primary/dispatched) dWGS model.", "type" : "display" }] }, { "linkId" : "dWGS/primary_sample_id_in_glh_lims", "definition" : "http://hl7.org/fhir/StructureDefinition/Specimen#Specimen.identifier", "text" : "LIMS Sample Identifier", "type" : "string", "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "dWGS/primary_sample_id_in_glh_lims-designNote", "text" : "Assigned by the Filler Order Ordering Facility (GLH) - coded type=FILL (Filler Identifier). Conceptually the same as the common core's own Lab DNA Number (If Known) (Specimen/accessionIdentifier), which instead uses Specimen.accessionIdentifier rather than a typed Specimen.identifier - the two have not been reconciled onto a single FHIR element.", "type" : "display" }] }, { "linkId" : "dWGS/primary_sample_type", "text" : "Sample Type", "type" : "string", "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "dWGS/primary_sample_type-designNote", "text" : "Germline/tumour classifier - low confidence, no clean Specimen field identified; not currently built into any FHIR resource.", "type" : "display" }] }, { "linkId" : "dWGS/received_sample_topography", "definition" : "http://hl7.org/fhir/StructureDefinition/Specimen#Specimen.bodySite", "text" : "Sample Topography", "type" : "string", "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "dWGS/received_sample_topography-designNote", "text" : "Cancer referrals only. Conceptually overlaps with the common core's own Tissue source/organ of origin (LN/39111-0, Specimen.collection.bodySite) - kept separate pending reconciliation of the exact FHIR path.", "type" : "display" }] }, { "linkId" : "dWGS/received_sample_morphology", "text" : "Sample Morphology", "type" : "string" }, { "linkId" : "dWGS/received_sample_tumour_content_pct", "text" : "Tumour Content (%)", "type" : "decimal", "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "dWGS/received_sample_tumour_content_pct-designNote", "text" : "Cancer referrals only. The same underlying concept as Neoplastic cell content in WGS Local Test Order Ask At Order Entry Questions (NOS/NeoplasticCellContent-wgs) - see dWGS - Comparison with WGS Local Test Order for how the distributed (dWGS) and local paper-based WGS pathways relate.", "type" : "display" }] }, { "linkId" : "dWGS/received_sample_comments", "text" : "Sample Comments", "type" : "string" }] }, { "linkId" : "DispatchedSpecimen", "definition" : "http://hl7.org/fhir/StructureDefinition/Specimen#Specimen", "text" : "Dispatched Specimen (extracted DNA sent onward)", "type" : "group", "item" : [{ "linkId" : "dWGS/dispatched_sample_id_in_glh_lims", "text" : "Dispatched Sample Identifier", "type" : "string" }, { "linkId" : "dWGS/dispatched_sample_lsid", "definition" : "http://hl7.org/fhir/StructureDefinition/Specimen#Specimen.container.identifier", "text" : "Specimen Barcode", "type" : "string", "required" : true, "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "dWGS/dispatched_sample_lsid-designNote", "text" : "Carried on Specimen.container.identifier, coded type=ZCID - see NW IdentifierType.", "type" : "display" }] }, { "linkId" : "dWGS/dispatched_sample_type", "text" : "Dispatched Sample Type", "type" : "string" }, { "linkId" : "dWGS/dispatched_sample_state", "text" : "Dispatched Material Type", "type" : "string", "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "dWGS/dispatched_sample_state-designNote", "text" : "Not currently built into any FHIR resource - the worked example's single Specimen only carries the primary specimen's Sample Material Type.", "type" : "display" }] }, { "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-unit", "valueCoding" : { "system" : "http://unitsofmeasure.org", "code" : "uL", "display" : "uL" } }], "linkId" : "dWGS/dispatched_sample_volume_ul", "definition" : "http://hl7.org/fhir/StructureDefinition/Specimen#Specimen.collection.quantity", "text" : "Sample Volume (uL)", "type" : "decimal", "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "dWGS/dispatched_sample_volume_ul-designNote", "text" : "Same FHIR target (Specimen.collection.quantity) as the common core's own Specimen Volume/number of slides or scrolls (LN/3169-0) - kept as its own item because it specifically measures the dispatched DNA volume, not the raw specimen.", "type" : "display" }] }, { "linkId" : "dWGS/dna_extraction_protocol", "definition" : "http://hl7.org/fhir/StructureDefinition/Specimen#Specimen.collection.method", "text" : "DNA Extraction Method", "type" : "string" }, { "linkId" : "dWGS/glh_sample_consignment_number", "definition" : "http://hl7.org/fhir/StructureDefinition/Specimen#Specimen.identifier", "text" : "Consignment Number", "type" : "string", "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "dWGS/glh_sample_consignment_number-designNote", "text" : "Carried as a Specimen identifier, coded type=STN (Shipment Tracking Number) - the same identifier type as the common core's own Tracking number (LN/97209-1, Specimen.identifier[ShipmentTrackingNumber]).", "type" : "display" }] }] }, { "linkId" : "LaboratoryQC", "text" : "Laboratory QC and Logistics", "type" : "group", "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-unit", "valueCoding" : { "system" : "http://unitsofmeasure.org", "code" : "uL", "display" : "uL" } }], "linkId" : "dWGS/laboratory_remaining_volume_banked_ul", "text" : "Remaining Banked Volume (uL)", "type" : "decimal" }, { "linkId" : "dWGS/glh_concentration_ng_ul", "text" : "DNA Concentration (ng/uL)", "type" : "decimal" }, { "linkId" : "dWGS/glh_od260_280", "text" : "DNA Purity (OD260/280)", "type" : "decimal" }, { "linkId" : "dWGS/glh_din_value", "text" : "DNA Integrity Number", "type" : "decimal" }, { "linkId" : "dWGS/glh_percentage_dna_over_23kb", "text" : "DNA Fragment Size (% over 23kb)", "type" : "decimal" }, { "linkId" : "dWGS/glh_qc_status", "text" : "QC Status", "type" : "string" }, { "linkId" : "dWGS/glh_sample_dispatch_date", "text" : "Dispatch Date", "type" : "date" }, { "linkId" : "dWGS/plating_organisation", "text" : "Plating Organisation", "type" : "string" }, { "linkId" : "dWGS/gmc_rack_id", "text" : "Rack Identifier", "type" : "string" }, { "linkId" : "dWGS/gmc_rack_well", "text" : "Rack Well Position", "type" : "string", "item" : [{ "extension" : [{ "url" : "http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl", "valueCodeableConcept" : { "coding" : [{ "system" : "http://hl7.org/fhir/questionnaire-item-control", "code" : "help" }] } }], "linkId" : "dWGS/gmc_rack_well-designNote", "text" : "Pattern: [A-H]01-09 or [A-H]10-12.", "type" : "display" }] }, { "linkId" : "dWGS/prolonged_sample_storage", "text" : "Sample Storage Method", "type" : "string" }] }] }