FHIR Genomics Implementation Guide

Notice

Important: This guidance is under active development by NHS England and content may be added or updated on a regular basis.
This Implementation Guide is currently in Draft and SHOULD NOT be used for development or active implementation without express direction from the NHS England Genomics Unit.

Specimen-MichaelJonesBloodWithCollectoinDetails-Example

Example of a specimen resource with additional collection information.

Specimen

id : Specimen-MichaelJonesBloodWithCollectoinDetails-Example

identifier

system : https://www.christie.nhs.uk/path

value : Spec123456

accessionIdentifier

system : https://www.christie.nhs.uk/path

value : Spec123456

status : available

type

coding

system : http://snomed.info/sct

code : 87612001

display : Blood (substance)

subject

reference : Patient?identifier=https://fhir.nhs.uk/Id/nhs-number|9999999999

receivedTime : 2022-07-13T09:00:00Z

request

reference : ServiceRequest?identifier=https://www.christie.nhs.uk/ehr|LabOrder123456

collection

collector

reference : Practitioner?identifier=https://fhir.nhs.uk/Id/sds-user-id|999999

collected : 2022-07-11T09:00:00Z

quantity

system : http://unitsofmeasure.org

code : mL

value : 2.5

method

coding

system : http://snomed.info/sct

code : 129300006

display : Puncture - action

bodySite

coding

system : http://snomed.info/sct

code : 14975008

display : Forearm structure (body structure)

container

identifier

use : official

type

coding

system : http://terminology.hl7.org/CodeSystem/v2-0203

code : ACSN

display : Accession ID

system : https://www.christie.nhs.uk/path

value : ASCN123456

assigner

reference : Organization?identifier=https://fhir.nhs.uk/Id/ods-organization-code|RBV

type

coding

system : http://snomed.info/sct

code : 706067003

display : Blood collection/transfer device (physical object)

specimenQuantity

system : http://unitsofmeasure.org

code : mL

value : 2.5

condition

coding

system : http://terminology.hl7.org/CodeSystem/v2-0493

code : SNR

display : Sample not received

{
    "resourceType": "Specimen",
    "id": "Specimen-MichaelJonesBloodWithCollectoinDetails-Example",
    "identifier":  [
        {
            "system": "https://www.christie.nhs.uk/path",
            "value": "Spec123456"
        }
    ],
    "accessionIdentifier": {
        "system": "https://www.christie.nhs.uk/path",
        "value": "Spec123456"
    },
    "status": "available",
    "type": {
        "coding":  [
            {
                "system": "http://snomed.info/sct",
                "code": "87612001",
                "display": "Blood (substance)"
            }
        ]
    },
    "subject": {
        "reference": "Patient?identifier=https://fhir.nhs.uk/Id/nhs-number|9999999999"
    },
    "receivedTime": "2022-07-13T09:00:00Z",
    "request":  [
        {
            "reference": "ServiceRequest?identifier=https://www.christie.nhs.uk/ehr|LabOrder123456"
        }
    ],
    "collection": {
        "collector": {
            "reference": "Practitioner?identifier=https://fhir.nhs.uk/Id/sds-user-id|999999"
        },
        "collectedDateTime": "2022-07-11T09:00:00Z",
        "quantity": {
            "system": "http://unitsofmeasure.org",
            "code": "mL",
            "value": 2.5
        },
        "method": {
            "coding":  [
                {
                    "system": "http://snomed.info/sct",
                    "code": "129300006",
                    "display": "Puncture - action"
                }
            ]
        },
        "bodySite": {
            "coding":  [
                {
                    "system": "http://snomed.info/sct",
                    "code": "14975008",
                    "display": "Forearm structure (body structure)"
                }
            ]
        }
    },
    "container":  [
        {
            "identifier":  [
                {
                    "use": "official",
                    "type": {
                        "coding":  [
                            {
                                "system": "http://terminology.hl7.org/CodeSystem/v2-0203",
                                "code": "ACSN",
                                "display": "Accession ID"
                            }
                        ]
                    },
                    "system": "https://www.christie.nhs.uk/path",
                    "value": "ASCN123456",
                    "assigner": {
                        "reference": "Organization?identifier=https://fhir.nhs.uk/Id/ods-organization-code|RBV"
                    }
                }
            ],
            "type": {
                "coding":  [
                    {
                        "system": "http://snomed.info/sct",
                        "code": "706067003",
                        "display": "Blood collection/transfer device (physical object)"
                    }
                ]
            },
            "specimenQuantity": {
                "system": "http://unitsofmeasure.org",
                "code": "mL",
                "value": 2.5
            }
        }
    ],
    "condition":  [
        {
            "coding":  [
                {
                    "system": "http://terminology.hl7.org/CodeSystem/v2-0493",
                    "code": "SNR",
                    "display": "Sample not received"
                }
            ]
        }
    ]
}

<Specimen xmlns="http://hl7.org/fhir">
    <id value="Specimen-MichaelJonesBloodWithCollectoinDetails-Example" />
    <identifier>
        <system value="https://www.christie.nhs.uk/path" />
        <value value="Spec123456" />
    </identifier>
    <accessionIdentifier>
        <system value="https://www.christie.nhs.uk/path" />
        <value value="Spec123456" />
    </accessionIdentifier>
    <status value="available" />
    <type>
        <coding>
            <system value="http://snomed.info/sct" />
            <code value="87612001" />
            <display value="Blood (substance)" />
        </coding>
    </type>
    <subject>
        <reference value="Patient?identifier=https://fhir.nhs.uk/Id/nhs-number|9999999999" />
    </subject>
    <receivedTime value="2022-07-13T09:00:00Z" />
    <request>
        <reference value="ServiceRequest?identifier=https://www.christie.nhs.uk/ehr|LabOrder123456" />
    </request>
    <collection>
        <collector>
            <reference value="Practitioner?identifier=https://fhir.nhs.uk/Id/sds-user-id|999999" />
        </collector>
        <collectedDateTime value="2022-07-11T09:00:00Z" />
        <quantity>
            <value value="2.5" />
            <system value="http://unitsofmeasure.org" />
            <code value="mL" />
        </quantity>
        <method>
            <coding>
                <system value="http://snomed.info/sct" />
                <code value="129300006" />
                <display value="Puncture - action" />
            </coding>
        </method>
        <bodySite>
            <coding>
                <system value="http://snomed.info/sct" />
                <code value="14975008" />
                <display value="Forearm structure (body structure)" />
            </coding>
        </bodySite>
    </collection>
    <container>
        <identifier>
            <use value="official" />
            <type>
                <coding>
                    <system value="http://terminology.hl7.org/CodeSystem/v2-0203" />
                    <code value="ACSN" />
                    <display value="Accession ID" />
                </coding>
            </type>
            <system value="https://www.christie.nhs.uk/path" />
            <value value="ASCN123456" />
            <assigner>
                <reference value="Organization?identifier=https://fhir.nhs.uk/Id/ods-organization-code|RBV" />
            </assigner>
        </identifier>
        <type>
            <coding>
                <system value="http://snomed.info/sct" />
                <code value="706067003" />
                <display value="Blood collection/transfer device (physical object)" />
            </coding>
        </type>
        <specimenQuantity>
            <value value="2.5" />
            <system value="http://unitsofmeasure.org" />
            <code value="mL" />
        </specimenQuantity>
    </container>
    <condition>
        <coding>
            <system value="http://terminology.hl7.org/CodeSystem/v2-0493" />
            <code value="SNR" />
            <display value="Sample not received" />
        </coding>
    </condition>
</Specimen>

Notice

Specimen-MichaelJonesBloodWithCollectoinDetails-Example

Propose a change to Specimen-MichaelJonesBloodWithCollectoinDetails-Example