1/3/23 CA TB LWP Weekly Meeting Notes

• Anne Gaynor

• Angela Starks

• Zenda Berrada

• Sarah Buss

• Lauren Cowan

• Varvara Kozyreva

• Gretl Glick

• Joan Mangan

• Mathew Sylvester

• Laura Carlton

• Stephanie Johnston

• Steven Yu

• Shawnte George

• Katelyn Chen

• Allison Stewart

• Amy Tieku

• Catherine Evans

• Olga Yayloyan

• Esita Harper

OOOs

TB LWP: Issue Log

Published Link: https://app.smartsheet.com/b/publish?EQBCT=1136271a8d2e4fa184ebc0833df46742

Smartsheet: https://app.smartsheet.com/sheets/8q4pGFcfXc4mmgCw5Q4CQ43j93G6ChHCjxQ5pGm1

1. Issue 165: Incorrect mapping of comments and culture type OPEN

   1. 12/27: Updates submitted on smartsheet, will need to follow up with ICC

2. Issue 168: TRF Update; Submitter Requested test OPEN

   1. 12/20: update that the field has been correct

   2. 12/27: Issue reopened because this is sometimes not working for Seq DST Code, can’t seem to figure out the pattern

3. Issue 170: Preapproval question mandatory for mixed non-viable cultures RESOLVED

4. Issue 171: User Password asking for reset every time they sign in OPEN

   1. User resetting pw everytime they sign on

5. Issue 172: TBGenotyping CDC_WGS OPEN

6. Issue 173: Bronchial washing source lower case OPEN

TB Testing Updates Target Deadlines

• CDPH: Validation schedule for expected TB Testing:

  • tNGS should be available for ordering in StarLims Production by Jan 1, 2024

    • 11/22/23: Validation in progress (placeholders in place?): Current Target: Jan 31, 2024

  • WGS: should be available for ordering in StarLims Production by October 1, 2023

    • 12/7/23: Moved to StarLims Production COMPLETE

  • PSQ: Will no longer be available for ordering as of December 31, 2023

    • 12/6: Verified that the PSQ would return, working similar to a reflex test.

  • WGS go-live--roll out to submitters/ready for ordering:

    • Webinar for submitters: Jan 2024

    • Ideal path forward: Go-Live when validation is complete, in SL production, and LWP is ready for production deployment

    • 12/6: Final package is under review with the Lab Director.

    • 12/20 Approved; Share with CDC , Sync with Vavara

    • RISK: TB Testing SHUTS DOWN if PSQ runs out--which may happen in January. Enough reagent to March

• Project Schedule: https://app.smartsheet.com/b/publish?EQBCT=ea47c05f36e245439ca44e53c66696a1

  • Targeted Testing complete 12/22/23

    • 12/20: Need an update from Katelyn on progress with testing and if we are still on track.

  • SB deployment 1/10/24

  • Production 1/16/24

    • 12/20: Discussion on if we had to push out, the latest we would like to propose is 1/23

TB LWP: WGS & tNGS TRF Updates

• TRF FINAL: Updates to the TRF complete.

  • TRF Updates: Draft completed in FB1, QC1--Available for review: https://qc1.labwebportal.com/cdph/#/auth/login

  • Discussion on the timing of web page updates concerning the availability of PSQ and TN for submitters. Consideration of a tiered approach for whole genome sequencing versus TN NGS rollout.

Outstanding Questions

Next Steps & Action Items

Round trip testing

Kathelyn/Steve

December 22, 2023

User Guide Updates

Ann/ APHL

TBD- before Production Deployment

Website update

Varvara/APHL

TBD- before Production Deployment