minimal Common Oncology Data Elements (mCODE) Implementation Guide
2.0.0 - STU 2

This page is part of the HL7 FHIR Implementation Guide: minimal Common Oncology Data Elements (mCODE) Release 1 - US Realm | STU1 (v2.0.0: 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

Summary

Defining URL:http://hl7.org/fhir/us/mcode/ValueSet/mcode-genomic-specimen-type-vs
Version:2.0.0
Name:GenomicSpecimenTypeVS
Title:Genomic Specimen Type Value Set
Status:Active as of 1/18/22 3:17 AM
Definition:

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.

Publisher:HL7 International Clinical Interoperability Council
Source Resource:XML / JSON / Turtle

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)

All codes in this table are from the system 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

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