Observational Health Data Sciences and Informatics

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Meeting Notes June 19, 2019

Topics

Attendees: Rimma, Dmytry, Christian, Michael

We went over the backlog of milestone items to prepare us for beta testing. See here:

We discussed scoping NAACCR items to schemas. This is the requirement that all the necessary NAACCR items to diagnose a site/histology combination are linked and represented within the OMOP vocabulary. Example: Gleason Score for Prostate Cancer; HER2 for Breast Cancer. And so on. Rimma argued that this is a feature that all oncology information models need to suport. Dmytry confirmed that this is not currently done in the staging NAACCR ingestion. Michael argued that it is important but expectational and not necessary for ETLing, so it can be done in the next version. Dmytry agreed to try to accomplish this for version one of ingestion but will defer it to the next version if is too much work. See here: https://github.com/OHDSI/OncologyWG/issues/54
We discussed how the fundamental site/histology data points, NAACCR item 400 'Primary Site' and NAACCR 522 'HISTOLOGIC TYPE ICD-O-3' are represented within the OMOP vocabulary. Dmytry and Michael confirmed that these NAACCR items had been curated into the 'Observation' domain and marked as non-standard. The ETL documentation will need to specify how to handle these “special” NAACCR items.