HL7 FHIR Implementation Guide: minimal Common Oncology Data Elements (mCODE) Release 1 - US Realm | STU Ballot 1

This page is part of the HL7 FHIR Implementation Guide: minimal Common Oncology Data Elements (mCODE) Release 1 - US Realm | STU1 (v0.9.1: STU 1 Ballot 1) based on FHIR (HL7® FHIR® Standard) R4. The current version which supersedes this version is 4.0.0. For a full list of available versions, see the Directory of published versions

VariantTested

Definitions for onco-core-VariantTested-extension.

1. Extension
Definition

The specific genetic variant that is targeted by this test.

Control0..* This element is affected by the following invariants: ele-1
InvariantsDefined on this element
ele-1: All FHIR elements must have a @value or children (: hasValue() or (children().count() > id.count()))
ext-1: Must have either extensions or value[x], not both (: extension.exists() != value.exists())
2. Extension.id
Definition

Unique id for the element within a resource (for internal references). This may be any string value that does not contain spaces.

Control0..1
Typestring
3. Extension.extension
Definition

May be used to represent additional information that is not part of the basic definition of the element. To make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension.

Control0..*
TypeExtension
Alternate Namesextensions, user content
Comments

There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone.

4. Extension.extension:variantidentifier
Definition

The variation ID assigned by HGVS, for example, 360448 is the identifier for NM_005228.4(EGFR):c.-237A>G (single nucleotide variant in EGFR).

Control0..1
TypeExtension(VariantIdentifier) (Extension Type: CodeableConcept)
5. Extension.extension:varianthgvsname
Definition

Symbolic representation of the variant used in HGVS, for example, NM_005228.4(EGFR):c.-237A>G for HVGS variation ID 360448.

Control0..*
TypeExtension(VariantHGVSName) (Extension Type: string)
6. Extension.extension:variantdescription
Definition

A clinician-friendly description for the variant. This could be, but not limited to, the protein change associated with the variation. For example, the protein change associated with Clinvar 3236 is G482V.

Control0..1
TypeExtension(VariantDescription) (Extension Type: string)
7. Extension.url
Definition

Source of the definition for the extension code - a logical name or a URL.

Control1..1
Typeuri
Comments

The definition may point directly to a computable or human-readable definition of the extensibility codes, or it may be a logical URI as declared in some other specification. The definition SHALL be a URI for the Structure Definition defining the extension.

Fixed Valuehttp://hl7.org/fhir/us/mcode/StructureDefinition/onco-core-VariantTested-extension
8. Extension.value[x]
Definition

Value of extension - must be one of a constrained set of the data types (see Extensibility for a list).

Control0..0
TypeChoice of: base64Binary, boolean, canonical, code, date, dateTime, decimal, id, instant, integer, markdown, oid, positiveInt, string, time, unsignedInt, uri, url, uuid, Address, Age, Annotation, Attachment, CodeableConcept, Coding, ContactPoint, Count, Distance, Duration, HumanName, Identifier, Money, Period, Quantity, Range, Ratio, Reference, SampledData, Signature, Timing, ContactDetail, Contributor, DataRequirement, Expression, ParameterDefinition, RelatedArtifact, TriggerDefinition, UsageContext, Dosage
[x] NoteSee Choice of Data Types for further information about how to use [x]