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Curate NAACCR Items/Item Codes and OMOP domains. #26

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mgurley opened this issue Mar 4, 2019 · 2 comments
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Curate NAACCR Items/Item Codes and OMOP domains. #26

mgurley opened this issue Mar 4, 2019 · 2 comments
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@mgurley mgurley commented Mar 4, 2019

Dmytry's ingestion script needs to be frontloaded with a curated list of NAACCR items/NAACCR item codes. The curated list should be maintained in the OncologyWG repository. The curated NAACCR list should identify the following:

  • NAACCR items/NAACCR item codes to be ingested.
  • Numeic NAACCR items.
  • Date NAACCR items .
  • The OMOP vocabulary domain of each NAACCR item/NAACCR item code.
@mgurley mgurley added the NAACCR label Mar 4, 2019
@mgurley mgurley added this to the Active Sprint milestone Mar 4, 2019
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@mgurley mgurley commented Mar 4, 2019

I made a request to the SEER API folks about getting NAACCR sections into the SEER API of NAACCR items. They agreed to do it and will be making the change. See here:

imsweb/seerapi-client-java#18

This will allow our curation to concentrate solely on the sections 'Treatment-1st Course', 'Cancer Identification' and 'Stage/Prognostic Factors' and let the NAACCR ingestion script filter based on section and then the curated NAACCR list.

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@mgurley mgurley commented Mar 13, 2019

At the 3/12/2019 Oncology Workgroup meeting we decided that @mgurley and @rimusia would submit to @dimshitc a seed list of domain mappings/curated NAACCR items but that going forward the mappings would be maintained by the vocabulary team as part of the NAACCR ingestion script.

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