cancervariants / cancervariants/therapy-normalization

Capture EPCs for Drug Concepts

Open
#436 5 comments 0 reactions 0 assignees View on GitHub
Dominant language
Python
Stars
15
Forks
3
PR merge metrics
No merged PRs in 30d

Description

We should consider grabbing [established pharmacologic classes (EPC)](https://www.fda.gov/industry/structured-product-labeling-resources/pharmacologic-class#:~:text=An%20FDA%20%E2%80%9CEstablished%20Pharmacologic%20Class,scientifically%20valid%20and%20clinically%20meaningful.) when available for drug concept groups. This information would have clinical benefits for downstream applications of Thera-py, such as in DGIdb where this EPC could help inform clinical relevance of interaction data.

This is available from sources like DailyMed. An example from https://rxnav.nlm.nih.gov/REST/rxclass/class/byDrugName.json?drugName=imatinib&relaSource=DAILYMED&relas=has_epc ->

```
{
"rxclassDrugInfoList": {
"rxclassDrugInfo": [
{
"minConcept": {
"rxcui": "282388",
"name": "imatinib",
"tty": "IN"
},
"rxclassMinConceptItem": {
"classId": "N0000175605",
"className": "Kinase Inhibitor",
"classType": "EPC"
},
"rela": "has_epc",
"relaSource": "DAILYMED"
}
]
}
}
```

Contributor guide

No contributing guide indexed for this repository

Research direction

Use the RxNav/DailyMed response in the issue as the reference input. Trace the repository’s existing drug concept-group normalization path, then determine how available EPC data should be captured for downstream consumers. Done means EPC information is represented for applicable drug concept groups and verified against the provided example.

Written by the indexing model from the issue text.

Assessment

Tech stack
python
Domain
bioinformatics, data
Issue type
Feature
Difficulty
4/5
Estimated time
3-5 days
Activity status
Stale
Clarity
Mostly clear
Newbie friendliness
35/100

Get new issues in your inbox

A short digest of beginner-friendly GitHub issues.