Individual skill

drugbank-database

Programmatic access to DrugBank drug and target data; use when you need to download, parse, and analyze DrugBank XML for properties, interactions, pathways, and pharmacology.

scientific-skills/Evidence Insight/drugbank-database/SKILL.md

Read pinned source

Source commit 686e09dfdb45d9fa1a08664f06bb93769b3c9d91

What was checked

Matches the observed repository HEAD: Yes
Scanner rules are current: Yes
Repository scan complete: No
Skill scan complete: Yes
Observed behavior: Local scripts
Last checked: Nov 9, 2026

These are observations at the recorded commit, not a guarantee of safety. Review the source before running it.

Install this skill

Choose an agent in your Stack or copy a command below. Commands fetch the pinned commit and copy only this skill directory. Existing destinations are refused. Copying a command does not install anything.

An install command is unavailable: current rules, complete repository and skill scans, an eligible behavior level and a permitted license are required.

Repository context

Repository stars (not skill ratings): 2,037
Repository last updated: Sep 17, 2026
License: MIT

Observed agent integration: No specific integration evidence. Standard SKILL.md installation does not imply verified compatibility.

bioinformatics Repository topic
computational-biology Repository topic
data-analysis Repository topic
ai Repository topic
biology Repository topic
cancer-genomics Repository topic
data-visualization Repository topic
differential-expression Repository topic
genomics Repository topic
medical Repository topic
data Derived category
data-databases Derived category

Files and excerpt

File metadata and permitted, redacted excerpts come from the recorded scan. Source links are pinned to that commit.

Browse files

SKILL.mdcore · 6,422 bytes
drugbank-database_audit_result_v1.jsonasset · 12,134 bytes
references/data-access.mddoc · 183 bytes
references/drug-queries.mddoc · 131 bytes
references/interactions.mddoc · 175 bytes
scripts/analyze_interactions.pyruns · 421 bytes
scripts/download_drugbank.pyruns · 568 bytes
scripts/parse_xml.pyruns · 997 bytes

Read excerpt

> **Source**: [https://github.com/aipoch/medical-research-skills](https://github.com/aipoch/medical-research-skills)

## When to Use

- You need to extract structured drug properties (e.g., identifiers, synonyms, ATC codes) from DrugBank XML for downstream analysis.
- You want to build and analyze drug–drug interaction (DDI) networks from DrugBank interaction records.
- You are mapping drugs to targets (proteins/genes) to support target discovery, mechanism-of-action analysis, or enrichment workflows.
- You need to connect drugs to pathways and pharmacology annotations for systems pharmacology or knowledge graph construction.
- You want to generate tabular datasets (CSV/Parquet) from DrugBank for use in notebooks, dashboards, or ML pipelines.

## Key Features

- Programmatic download of DrugBank releases via `drugbank-downloader` (requires DrugBank access).
- XML parsing and traversal using `lxml` for reliable extraction of nested DrugBank entities.
- Data wrangling into `pandas` DataFrames for filtering, joining, and export.