2023-07-27 LabMCoP Meeting notes

 X

Nancy Cornish

CDC

 X

Manjula Gama-Ralalage

CDC

 X

Riki Merrick

APHL

 X

Christina Gallegos

APHL

 X

Amy Liu

Inductive Health / APHL

 regrets

Raj Dash

Duke / CAP

 X

John Snyder

National Library of Medicine (SNOMED CT)

Andrea Pitkus

UW

 X

Kathy Walsh

Labcorp

 X

Rob Hausam

Hausam Consulting

 X

Doug Franklin

APHL

Pam Banning

3M

Upcoming OOO

Nancy’s item

Y

• copy in Nancy’s email

• CAP summit

  • Speakers are from NIH - one covers cancer registry data in research, PH and treatment

  • Cancer institute representation

  • Nancy to reach out to Helena Duncan to follow up

• CAP statement about lobbying ONC to include all CLIA requirements for pre-analytical data elements and those were accepted- see published verison 4: https://www.healthit.gov/isa/taxonomy/term/2481/uscdi-v4

Previous Action Items

 y

Riki’s SCT submissions - will work with John to get this done next week Mon or Wed

Nancy researched adverse events with incorrect specimen collection - online guidance for collecting nasal swabs were incorrect in about 50% of the time 😞 - <ADD LINK TO THE PAPER>

Riki to reach out to OpenELIS about implementing SpecimenCMT - no answer yet

Follow up (with John and Jim) around how to model exposure (bite wound / animal) - suggestion from Jim was to use SPM-5 and either use the event or organism hierarchy <COPY EMAIL IN HERE>

Reporting Biomarkers to Cancer registries

 CHECK WHAT NEEDS TO BE DONE HERE _ who owns it?

Lab Test Naming Conventions

Andrea planning this

• SHIELD call topic (maybe for September)

  • TRUU Lab

  • LOINC

Specimen CMT - review of terms with questions

 y

•  Terms for Nancy to follow up on :

  • Postpone talking about wound

  • Defnition from Nancy

    • bloody liquid stool

    • Bronchial aspirate

    • BodyFluid

    • BronchusDonorSwab

  • BronchusDonorSwab

    • submit for new term for specimen from donor bronchus - Riki

      • John to review editorial guidance around that – so far have 4 other terms – need to decide how to model those (specimen source identity attribute that can be used)

      • Follow up email with Jim Case decided we submit for more terms

• Fluid_JacksonPrattDrainage

  • SPM-4 mapped to 309051001^body fluid sample (specimen)^SCT and suggestion of submitting a new term for SPM-7 (this is where we would indicate drainage via Jackson Pratt drain (a physical object))

  • 16210251000119108^Body fluid specimen obtained via Jackson-Pratt drain (specimen)^SCT is replacement for SPM-4

  • 705084002^Collection of fluid specimen via closed suction drain (procedure)^SCT (Syn: is Jackson Pratt Drain) for SPM-7

• BodyFluid_PenroseDrain
  o SNOMED has a physical object but not for specimen type
  o We would need to submit a term for this
  o Should not collect cultures from the penrose drain
  o Usage for the term is changed to “Do not use” to the database

• Blood_PotassiumEDTA

  • Need more info on the special stopper to submit for a new term – ask Riki for table on different tops (SPM-6)

• PericardialFluid
  o Nancy to review

• FungalIsolate
  o Partial-special or derived? – specimen coming from patient vs. specimen coming from plate in microbiology –
  o Full coordination

• Tissue_VascularGraftSitePopliteal → will review next meeting
  o Should it be mapped to Tissue_GraftSitePopliteal?
  o No specimen type listed

  • if you use a graft that you buy will come sterile vs. removing a vein to use as a graft (vein graft or man-made graft) -Want to take the tissue from graft site

  • May need a term for one for person’s vein and another term for the man-made graft and handle them the same way

  • some people may want to culture the sterile graft in case there is bacteria

Specimen CMT - Hosting Options

• How can we publish the content in the dB?

  • Allow access somehow to query the dB

  • as access or excel

  • Using FHIR conceptMap similar to https://build.fhir.org/conceptmap-example-specimen-type.html - based on this profile: https://build.fhir.org/conceptmap.html

  • riki.merrick to ask Eric if he still has that or how he built it:

  • ANSWER FROM ERIC:

    • if you look in the xml source https://build.fhir.org/conceptmap-example-specimen-type.xml.html . you can see how it is mapped. 

    • I am not sure if you mean the table rendering or creating the concept map from a spreadsheet or CSV file.  The FHIR build tool did the table rendering for that mapping, I think I entered the data by hand, or Grahame did it. It would not be hard to create a script to create a concept map from an excel or csv file if needed.  The table needs to be large enough to make it worthwhile though. you could even create formula cells in the spreadsheet to generate the XML or json for each item. and then copy to a text editor and append to the Metadata fields.

Specimen CMT - education

Specimen CMT - potential pilot sites

• Goal is to have some implementers lined up by April - so who to reach out to?

  • Review where we are: Vendor Connections - updated some notes there

Specimen CMT - tracking implementation impact

• Setting baseline

• Define metrics

• Setting baseline

Specimen CMT - Compare to NHS Medical Terminology testing

Future projects for this call after CMT

• In general the call is intended as a forum for ANY messaging related issues to work out.

• In the past we have

  • reviewed containers re-vive that - and how does that interact with devices (UDI identification?)

  • review code systems around additives (HL70371 and SCT substance and product hierarchies)

  • started work on cross-mapping between HL7 method codes and SNOMED CT procedure / technique concepts

    • American College of Surgeons is working on procedure protocol and synoptic data elements / surgical synoptic reports - we could work with them together on that