Project Meeting -- 05/07/2019 @ 13:00

[callahantiff]

Meeting Date: 05/07/2019 @ 13:00 Topic: Code Set Analysis + Expert/Student verification Attendees: @mgkahn

Proposed Agenda: I'd like to follow-up on the subjects discussed last week including discussing the criteria for student review of source concepts.

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UPDATE:

• [x] Update information on code sets, and our motivation for doing this work here.

I have been working on building each of the code sets for the phenotypes that contain input source strings (click on each phenotype to see a results dashboard):

• ADHD (Dashboard; Code Sets)

  • [x] Drug

  • Appendicitis (Dashboard; Code Sets)

  • [x] Condition

  • [x] Drug

  • [x] Observation

  • Crohn's Disease (Dashboard; Code Sets)

  • [x] Condition

  • [x] Drug

  • Hypothyroidism (Dashboard; Code Sets)

  • [x] Condition

  • [x] Drug

  • [x] Measurement

  • [x] Observation

  • [x] Procedure

  • Peanut Allergy (Dashboard; Code Sets)

  • [x] Condition

  • [x] Drug

  • [x] Measurement

  • [x] Observation

  • [x] Procedure

  • Steroid-Induced Osteonecrosis (Dashboard; Code Sets)

  • [x] Condition

  • [x] Drug

  • [x] Measurement

  • [x] Observation

  • [x] Procedure

  • Systemic Lupus Erythematosus (Dashboard; Code Sets)

  • [x] Condition

  • [x] Drug

  • [x] Measurement

Specific Questions related to code sets:

• [x] Do we want to reduce the spreadsheets so that only the rows with at least 1 occurrence in either CHCO or OMOP-MIMICIII? NO, we will include all rows that have a source to standard code mapping.

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OTHER THINGS TO DISCUSS

• Develop more formal plan for verifying the code sets

  • Student Evaluators
    • [x] Number and type of pharmacy students (n=2)
    • [x] Number and type of medical students (n=2 third year student past STEP)
  • Expert review
  • Formalize Both Tasks
    • [x] Develop checklist with workflow and example, draft started here
    • [ ] Time line

• Verifying code sets

  • Resolving uncertainties and discrepancies
    • [x] Set-up Github-based system for verification, comments/questions and expert review. See Project Board.

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TODO:

• [ ] Verify checklist with Katy
• [ ] Add Katy to GitHub repo
• [ ] Finalize students and add to GitHub

[callahantiff]

I am going to close this issue now. A meeting has been scheduled with Katy Trinkley for latter this week. The remaining un-checked issues above will be re-opened within that meeting issue.