reactome-database
Query Reactome REST API for pathway analysis, enrichment, gene-pathway mapping, disease pathways, molecular interactions, expression analysis, for systems biology studies.
npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill reactome-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.
# Reactome Database ## Overview Reactome is a free, open-source, curated pathway database with 2,825+ human pathways. Query biological pathways, perform overrepresentation and expression analysis, map genes to pathways, explore molecular interactions via REST API and Python client for systems biology research. ## When to Use This Skill This skill should be used when: - Performing pathway enrichment analysis on gene or protein lists - Analyzing gene expression data to identify relevant biological pathways - Querying specific pathway information, reactions, or molecular interactions - Mapping genes or proteins to biological pathways and processes - Exploring disease-related pathways and mechanisms - Visualizing analysis results in the Reactome Pathway Browser - Conducting comparative pathway analysis across species ## Core Capabilities Reactome provides two main API services and a Python client library: ### 1. Content Service - Data Retrieval Query and retrieve biological pathway data, molecular interactions, and entity information. **Common operations:** - Retrieve pathway information and hierarchies - Query specific entities (proteins, reactions, complexes) - Get participating mole
- Overview
- When to Use This Skill
- Core Capabilities
- 1. Content Service - Data Retrieval
- 2. Analysis Service - Pathway Analysis
- 3. reactome2py Python Package
- Querying Pathway Data
- Using Content Service REST API
- Using reactome2py Package
- Performing Pathway Analysis
- Overrepresentation Analysis
- Expression Data Analysis
- Species Projection
- Visualizing Results
uv pip install reactome2py Query pathway information python scripts/reactome_query.py query R-HSA-69278 Perform overrepresentation analysis python scripts/reactome_query.py analyze gene_list.txt Get database version python scripts/reactome_query.py version
What does the reactome-database skill do?
Query Reactome REST API for pathway analysis, enrichment, gene-pathway mapping, disease pathways, molecular interactions, expression analysis, for systems biology studies.
How do I install it?
Run `npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill reactome-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 FreedomIntelligence/OpenClaw-Medical-Skills, a repository with 2,909 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.