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Several hundred treats edges missing from DrugCentral ingest #261

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marcello-deluca opened this issue Sep 20, 2024 · 0 comments
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@marcello-deluca
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Hi guys,

The drugcentral ingest (https://github.com/RobokopU24/ORION/blob/master/parsers/drugcentral/src/loaddrugcentral.py) contains the following prompt for treats edge extraction:

self.chemical_phenotype_query = 'select struct_id, relationship_name, umls_cui from public.omop_relationship ' \ 'where umls_cui is not null'

However, after discussing with Tudor on Wednesday, there are around 600 treats edges that do not adequately map to a UMLS CUI. If we do not omit those and find a decent way to ontologically map them, we can increase our unique disease treats edges from this resource by almost 40% in one shot.

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