kegg-database
KEGG REST API (academic only). Pathways, genes, compounds, enzymes, diseases, drugs via 7 ops (info/list/find/get/conv/link/ddi). ID conversion (NCBI/UniProt/PubChem). Use bioservices for multi-DB Python.
npx skills add BioTender-max/awesome-bio-agent-skills --skill kegg-database --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
# KEGG Database — Biological Pathway & Molecular Network Queries ## Overview KEGG (Kyoto Encyclopedia of Genes and Genomes) is a comprehensive bioinformatics resource for biological pathway analysis, molecular interaction networks, and cross-database ID conversion. Access is via a direct REST API with no authentication — all operations use simple HTTP GET requests returning tab-delimited text. ## When to Use - Mapping genes to biological pathways (e.g., "which pathways involve TP53?") - Retrieving metabolic pathway details, gene lists, or compound structures - Converting identifiers between KEGG, NCBI Gene, UniProt, and PubChem - Checking drug-drug interactions from KEGG's pharmacological database - Building pathway enrichment context (all genes per pathway for an organism) - Cross-referencing compounds, reactions, enzymes, and pathways - For **Python-native multi-database queries** (KEGG + UniProt + Ensembl in one script), prefer `bioservices` instead - For **pathway visualization**, use KEGG Mapper (https://www.kegg.jp/kegg/mapper/) directly ## Prerequisites ```bash pip install requests ``` **API constraints**: - **Academic use only** — commercial use requires a separate KEGG lic
- Overview
- When to Use
- Prerequisites
- Quick Start
- Core API
- 1. Database Information — kegginfo
- 2. Listing Entries — kegglist
- 3. Keyword Search — keggfind
- 4. Entry Retrieval — keggget
- 5. ID Conversion — keggconv
- 6. Cross-Referencing — kegglink
- 7. Drug-Drug Interactions — keggddi
- Key Concepts
- Identifier Formats
pip install requests
What does the kegg-database skill do?
KEGG REST API (academic only). Pathways, genes, compounds, enzymes, diseases, drugs via 7 ops (info/list/find/get/conv/link/ddi). ID conversion (NCBI/UniProt/PubChem). Use bioservices for multi-DB Python.
How do I install it?
Run `npx skills add BioTender-max/awesome-bio-agent-skills --skill kegg-database --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From BioTender-max/awesome-bio-agent-skills, a repository with 135 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.