minimal Common Oncology Data Elements (mCODE) Implementation Guide
2.1.0 - STU 2.1 United States of America flag

This page is part of the HL7 FHIR Implementation Guide: minimal Common Oncology Data Elements (mCODE) Release 1 - US Realm | STU1 (v2.1.0: STU 2) based on FHIR R4. This is the current published version in its permanent home (it will always be available at this URL). For a full list of available versions, see the Directory of published versions

ValueSet: Genomic Specimen Type Value Set

Official URL: http://hl7.org/fhir/us/mcode/ValueSet/mcode-genomic-specimen-type-vs Version: 2.1.0
Active as of 2023-03-21 Computable Name: GenomicSpecimenTypeVS

The type of specimen analyzed in a genomic test. The values include the subset of codes in the HL7 Specimen Type code system (https://terminology.hl7.org/2.1.0/CodeSystem-v2-0487.html) representing body sites and body fluids likely to be used in genomic testing. The most specific term available should be used.

References

Logical Definition (CLD)

  • Include these codes as defined in http://terminology.hl7.org/CodeSystem/v2-0487
    CodeDisplayDefinition
    AMNAmniotic fluidAmniotic fluid
    BIFLBile FluidBile Fluid
    BLDWhole bloodWhole blood
    BLDABlood arterialBlood arterial
    BLDCOCord bloodCord blood
    BLDVBlood venousBlood venous
    BONBoneBone
    CSERUSerum, ConvalescentSerum, Convalescent
    CSFCerebral spinal fluidCerebral spinal fluid
    CVMCervical MucusCervical Mucus
    DUFLDuodenal fluidDuodenal fluid
    FBLOODBlood, FetalBlood, Fetal
    FGAFluid, AbdomenFluid, Abdomen
    GENVGenital vaginalGenital vaginal
    HYDCFluid, HydroceleFluid, Hydrocele
    JNTFLDFluid, JointFluid, Joint
    KIDFLDFluid, KidneyFluid, Kidney
    LSACFluid, Lumbar SacFluid, Lumbar Sac
    MARMarrowMarrow
    PAFLPancreatic fluidPancreatic fluid
    PCFLFluid, PericardialFluid, Pericardial
    PLCPlacentaPlacenta
    PLRPleural fluid (thoracentesis fluid)Pleural fluid (thoracentesis fluid)
    SALSalivaSaliva
    SKNSkinSkin
    SMNSeminal fluidSeminal fluid
    SNVFluid, synovial (Joint fluid)Fluid, synovial (Joint fluid)
    SPTSputumSputum
    TISSTissueTissue
    TUMORTumorTumor
    VITFVitreous FluidVitreous Fluid
    WNDWoundWound
    URUrineUrine
    STLStool = FecalStool = Fecal

 

Expansion

This value set contains 34 concepts

Expansion based on specimenType v2.3.0 (CodeSystem)

CodeSystemDisplayDefinition
  AMNhttp://terminology.hl7.org/CodeSystem/v2-0487Amniotic fluid

Amniotic fluid

  BIFLhttp://terminology.hl7.org/CodeSystem/v2-0487Bile Fluid

Bile Fluid

  BLDhttp://terminology.hl7.org/CodeSystem/v2-0487Whole blood

Whole blood

  BLDAhttp://terminology.hl7.org/CodeSystem/v2-0487Blood arterial

Blood arterial

  BLDCOhttp://terminology.hl7.org/CodeSystem/v2-0487Cord blood

Cord blood

  BLDVhttp://terminology.hl7.org/CodeSystem/v2-0487Blood venous

Blood venous

  BONhttp://terminology.hl7.org/CodeSystem/v2-0487Bone

Bone

  CSERUhttp://terminology.hl7.org/CodeSystem/v2-0487Serum, Convalescent

Serum, Convalescent

  CSFhttp://terminology.hl7.org/CodeSystem/v2-0487Cerebral spinal fluid

Cerebral spinal fluid

  CVMhttp://terminology.hl7.org/CodeSystem/v2-0487Cervical Mucus

Cervical Mucus

  DUFLhttp://terminology.hl7.org/CodeSystem/v2-0487Duodenal fluid

Duodenal fluid

  FBLOODhttp://terminology.hl7.org/CodeSystem/v2-0487Blood, Fetal

Blood, Fetal

  FGAhttp://terminology.hl7.org/CodeSystem/v2-0487Fluid, Abdomen

Fluid, Abdomen

  GENVhttp://terminology.hl7.org/CodeSystem/v2-0487Genital vaginal

Genital vaginal

  HYDChttp://terminology.hl7.org/CodeSystem/v2-0487Fluid, Hydrocele

Fluid, Hydrocele

  JNTFLDhttp://terminology.hl7.org/CodeSystem/v2-0487Fluid, Joint

Fluid, Joint

  KIDFLDhttp://terminology.hl7.org/CodeSystem/v2-0487Fluid, Kidney

Fluid, Kidney

  LSAChttp://terminology.hl7.org/CodeSystem/v2-0487Fluid, Lumbar Sac

Fluid, Lumbar Sac

  MARhttp://terminology.hl7.org/CodeSystem/v2-0487Marrow

Marrow

  PAFLhttp://terminology.hl7.org/CodeSystem/v2-0487Pancreatic fluid

Pancreatic fluid

  PCFLhttp://terminology.hl7.org/CodeSystem/v2-0487Fluid, Pericardial

Fluid, Pericardial

  PLChttp://terminology.hl7.org/CodeSystem/v2-0487Placenta

Placenta

  PLRhttp://terminology.hl7.org/CodeSystem/v2-0487Pleural fluid (thoracentesis fluid)

Pleural fluid (thoracentesis fluid)

  SALhttp://terminology.hl7.org/CodeSystem/v2-0487Saliva

Saliva

  SKNhttp://terminology.hl7.org/CodeSystem/v2-0487Skin

Skin

  SMNhttp://terminology.hl7.org/CodeSystem/v2-0487Seminal fluid

Seminal fluid

  SNVhttp://terminology.hl7.org/CodeSystem/v2-0487Fluid, synovial (Joint fluid)

Fluid, synovial (Joint fluid)

  SPThttp://terminology.hl7.org/CodeSystem/v2-0487Sputum

Sputum

  TISShttp://terminology.hl7.org/CodeSystem/v2-0487Tissue

Tissue

  TUMORhttp://terminology.hl7.org/CodeSystem/v2-0487Tumor

Tumor

  VITFhttp://terminology.hl7.org/CodeSystem/v2-0487Vitreous Fluid

Vitreous Fluid

  WNDhttp://terminology.hl7.org/CodeSystem/v2-0487Wound

Wound

  URhttp://terminology.hl7.org/CodeSystem/v2-0487Urine

Urine

  STLhttp://terminology.hl7.org/CodeSystem/v2-0487Stool = Fecal

Stool = Fecal

Explanation of the columns that may appear on this page:

Level A few code lists that FHIR defines are hierarchical - each code is assigned a level. In this scheme, some codes are under other codes, and imply that the code they are under also applies
System The source of the definition of the code (when the value set draws in codes defined elsewhere)
Code The code (used as the code in the resource instance)
Display The display (used in the display element of a Coding). If there is no display, implementers should not simply display the code, but map the concept into their application
Definition An explanation of the meaning of the concept
Comments Additional notes about how to use the code