FHIR IG analytics| Package | fhir.nwgenomics.nhs.uk |
| Resource Type | Questionnaire |
| Id | Questionnaire-dWGSAskAtOrderEntry.json |
| FHIR Version | R4 |
| Source | https://build.fhir.org/ig/nw-gmsa/nw-gmsa.github.com/Questionnaire-dWGSAskAtOrderEntry.html |
| URL | https://fhir.nwgenomics.nhs.uk/Questionnaire/dWGSAskAtOrderEntry |
| Version | 2.2.0 |
| Status | draft |
| Date | 2026-09-27T08:17:18+00:00 |
| Title | dWGS Ask At Order Entry Questions |
| Realm | us |
| Authority | hl7 |
| Description | **For analysis purposes only - not an active or planned project.** **Ask At Order Entry Questions** for a **distributed WGS (dWGS)** sub-contracted order (IHE LTW `LAB-35`), used alongside the [common core order form](Questionnaire-GenomicTestOrder.html) - see [Order Entry Questions](Questionnaire-GenomicTestOrder.html#order-entry-questions). This Questionnaire carries only the fields from the [dWGS digital manifest](dWGS.html#field-mapping-csv--hl7-v2--fhir) (NHS England `RGL to SGL SOP` Appendix 3, plus 5 local extension fields) that are **not** already asked by the common core - see [dWGS Sub-Order Manifest](Questionnaire-dWGSSubOrder.html) for the full 42-field manifest description, including the fields this Questionnaire deliberately omits because the common core already asks them. |
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Note: links and images are rebased to the (stated) source
Generated Narrative: Questionnaire dWGSAskAtOrderEntry
Profile: Questionnaire
| LinkID | Text | Cardinality | Type | Description & Constraints |
|---|---|---|---|---|
  | **For analysis purposes only - not an active or planned project.** **Ask At Order Entry Questions** for a **distributed WGS (dWGS)** sub-contracted order (IHE LTW `LAB-35`), used alongside the [common core order form](Questionnaire-GenomicTestOrder.html) - see [Order Entry Questions](Questionnaire-GenomicTestOrder.html#order-entry-questions). This Questionnaire carries only the fields from the [dWGS digital manifest](dWGS.html#field-mapping-csv--hl7-v2--fhir) (NHS England `RGL to SGL SOP` Appendix 3, plus 5 local extension fields) that are **not** already asked by the common core - see [dWGS Sub-Order Manifest](Questionnaire-dWGSSubOrder.html) for the full 42-field manifest description, including the fields this Questionnaire deliberately omits because the common core already asks them. | Questionnaire | https://fhir.nwgenomics.nhs.uk/Questionnaire/dWGSAskAtOrderEntry#2.2.0 | |
  Referral | Referral / Sub-Order | 0..1 | group | Definition: ServiceRequest |
  dWGS/referral_id | Original Order Placer Group Number (Referral ID) | 1..1 | string | Definition: ServiceRequest.requisition |
  dWGS/referral_id-designNote | 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. | 0..1 | display | |
 dWGS/clinical_indication_test_type_id | Test Code | 0..1 | choice | Definition: ServiceRequest.code Value Set: Genomic Test Codes |
| dWGS/clinical_indication_test_type_id-designNote | 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. | 0..1 | display | |
| dWGS/ordering_entity_id | Original Ordering Facility Code | 0..1 | string | Definition: Specimen.identifier.assigner.identifier.value |
| dWGS/ordering_entity_id-designNote | 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. | 0..1 | display | |
| dWGS/glh_laboratory_id | Filler Order Ordering Facility Code (GLH) | 1..1 | string | Definition: ServiceRequest.requester.identifier.value |
| dWGS/glh_laboratory_id-designNote | 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. | 0..1 | display | |
| dWGS/retrospective_sample | Retrospective Sample Flag | 0..1 | string | Definition: ServiceRequest.intent |
| dWGS/retrospective_sample-designNote | Values: "New" (ServiceRequest.intent = filler-order) or "Retrospective" (ServiceRequest.intent = reflex-order - NW Genomics is reflexing further testing off a specimen it already holds, not a fresh sub-order). | 0..1 | display | |
 dWGS/clinical_information | Clinical Information | 0..1 | text | Definition: ServiceRequest.note |
| dWGS/clinical_information-designNote | 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. | 0..1 | display | |
| dWGS/approved_by | Approved By | 0..1 | string | |
| Patient | Patient | 0..1 | group | Definition: Patient |
| dWGS/patient_ngis_id | Patient Identifier (NGIS) | 1..1 | string | Definition: Patient.identifier |
 dWGS/patient_ngis_id-designNote | 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. | 0..1 | display | |
| AskAtOrderEntry | Ask At Order Entry Questions | 0..1 | group | |
| NOS/FamilyStructure | Family Structure | 1..1 | string | Definition: Observation.valueCodeableConcept |
| NOS/FamilyStructure-designNote | Values: "Singleton", "Duo" or "Trio" - how many people are being tested together as part of this referral. Text-only (no NW-GMSA-confirmed coding system exists), carried as an Observation referenced from ServiceRequest.supportingInfo. See [dWGS - Singleton, Duo and Trio testing](dWGS.html#singleton-duo-and-trio-testing). | 0..1 | display | |
| NOS/ParticipantType | Participant Type | 1..1 | string | Definition: Observation.valueCodeableConcept |
| NOS/ParticipantType-designNote | Values: "Proband" or "Family Member" - this individual's role within the Family Structure above. Text-only, carried as an Observation referenced from ServiceRequest.supportingInfo. | 0..1 | display | |
| PrimarySpecimen | Primary Specimen (as received by GLH) | 0..1 | group | Definition: Specimen |
 dWGS/primary_sample_received_date | Sample Received Date | 0..1 | dateTime | Definition: Specimen.receivedTime |
| dWGS/primary_sample_received_date-designNote | 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. | 0..1 | display | |
| dWGS/primary_sample_id_as_received_by_glh | Received Sample Identifier | 0..1 | string | Definition: Specimen.identifier |
| dWGS/primary_sample_id_as_received_by_glh-designNote | 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. | 0..1 | display | |
| dWGS/primary_sample_id_in_glh_lims | LIMS Sample Identifier | 0..1 | string | Definition: Specimen.identifier |
| dWGS/primary_sample_id_in_glh_lims-designNote | 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. | 0..1 | display | |
| dWGS/primary_sample_type | Sample Type | 0..1 | string | |
| dWGS/primary_sample_type-designNote | Germline/tumour classifier - low confidence, no clean Specimen field identified; not currently built into any FHIR resource. | 0..1 | display | |
| dWGS/received_sample_topography | Sample Topography | 0..1 | string | Definition: Specimen.bodySite |
| dWGS/received_sample_topography-designNote | 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. | 0..1 | display | |
| dWGS/received_sample_morphology | Sample Morphology | 0..1 | string | |
 dWGS/received_sample_tumour_content_pct | Tumour Content (%) | 0..1 | decimal | |
| dWGS/received_sample_tumour_content_pct-designNote | 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. | 0..1 | display | |
| dWGS/received_sample_comments | Sample Comments | 0..1 | string | |
| DispatchedSpecimen | Dispatched Specimen (extracted DNA sent onward) | 0..1 | group | Definition: Specimen |
| dWGS/dispatched_sample_id_in_glh_lims | Dispatched Sample Identifier | 0..1 | string | |
| dWGS/dispatched_sample_lsid | Specimen Barcode | 1..1 | string | Definition: Specimen.container.identifier |
| dWGS/dispatched_sample_lsid-designNote | Carried on Specimen.container.identifier, coded type=ZCID - see NW IdentifierType. | 0..1 | display | |
| dWGS/dispatched_sample_type | Dispatched Sample Type | 0..1 | string | |
| dWGS/dispatched_sample_state | Dispatched Material Type | 0..1 | string | |
| dWGS/dispatched_sample_state-designNote | Not currently built into any FHIR resource - the worked example's single Specimen only carries the primary specimen's Sample Material Type. | 0..1 | display | |
| dWGS/dispatched_sample_volume_ul | Sample Volume (uL) | 0..1 | decimal | Definition: Specimen.collection.quantity |
| dWGS/dispatched_sample_volume_ul-designNote | 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. | 0..1 | display | |
| dWGS/dna_extraction_protocol | DNA Extraction Method | 0..1 | string | Definition: Specimen.collection.method |
| dWGS/glh_sample_consignment_number | Consignment Number | 0..1 | string | Definition: Specimen.identifier |
| dWGS/glh_sample_consignment_number-designNote | 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]). | 0..1 | display | |
| LaboratoryQC | Laboratory QC and Logistics | 0..1 | group | |
| dWGS/laboratory_remaining_volume_banked_ul | Remaining Banked Volume (uL) | 0..1 | decimal | |
| dWGS/glh_concentration_ng_ul | DNA Concentration (ng/uL) | 0..1 | decimal | |
| dWGS/glh_od260_280 | DNA Purity (OD260/280) | 0..1 | decimal | |
| dWGS/glh_din_value | DNA Integrity Number | 0..1 | decimal | |
| dWGS/glh_percentage_dna_over_23kb | DNA Fragment Size (% over 23kb) | 0..1 | decimal | |
| dWGS/glh_qc_status | QC Status | 0..1 | string | |
 dWGS/glh_sample_dispatch_date | Dispatch Date | 0..1 | date | |
| dWGS/plating_organisation | Plating Organisation | 0..1 | string | |
| dWGS/gmc_rack_id | Rack Identifier | 0..1 | string | |
| dWGS/gmc_rack_well | Rack Well Position | 0..1 | string | |
| dWGS/gmc_rack_well-designNote | Pattern: [A-H]01-09 or [A-H]10-12. | 0..1 | display | |
| dWGS/prolonged_sample_storage | Sample Storage Method | 0..1 | string | |
| Documentation for this format | ||||
FHIR
FHIRsmith{
"resourceType": "Questionnaire",
"id": "dWGSAskAtOrderEntry",
"meta": {
"profile": [
"https://fhir.nwgenomics.nhs.uk/StructureDefinition/NWQuestionnaire"
]
},
"text": {
"status": "extensions",
"div": "<!-- snip (see above) -->"
},
"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": "2026-09-27T08:17:18+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"
}
]
}
]
}