Knowledge-Graph-Hub / kg-covid-19

An instance of KG Hub to produce a knowledge graph for COVID-19 response.
https://github.com/Knowledge-Graph-Hub/kg-covid-19/wiki
BSD 3-Clause "New" or "Revised" License
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Normalizing drug prefixes to DrugCentral #438

Closed caufieldjh closed 2 years ago

caufieldjh commented 2 years ago

Drugs with the following prefixes need to be mapped to their corresponding DrugCentral CURIEs:

Of these, PharmGKB and TTD do not provide direct maps to DrugCentral or vice-versa; maps will be curated based on shared mappings and exact string matching.

caufieldjh commented 2 years ago

Drugs ingested through PharmGKB and assigned CHEBI ids still get biolink:Drug so these should be normalized too

caufieldjh commented 2 years ago

CHEBI ids loaded from the ontology aren't normalized to DrugCentral, but each of them with a mapping to DrugCentral gets a new biolink:exact_match relation added to the chebi_edges.tsv to capture the mapping anyway.

caufieldjh commented 2 years ago

Realized that the CHEBI transform should also add the mapped DrugCentral nodes to the chebi_nodes.tsv, so that's next

sonarcloud[bot] commented 2 years ago

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Bug A 0 Bugs
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