Individual skill
reactome-skill
Query the Reactome REST API for pathway content and enrichment analyses; use when you need curated pathway data, reaction details, or overrepresentation results for a gene list.
scientific-skills/Evidence Insight/reactome-skill/SKILL.md
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- bioinformatics Repository topic
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SKILL.mdcore · 2,723 bytesSKILL.mdcore · 2,723 bytesSKILL.mdcore · 2,723 bytesSKILL.mdcore · 2,723 bytesreactome-skill_audit_result_v1.jsonasset · 11,818 bytesreferences/api_reference.mddoc · 255 bytesscripts/reactome_tool.pyruns · 2,173 bytesskill_spec.yamlasset · 1,219 bytes
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> **Source**: [https://github.com/aipoch/medical-research-skills](https://github.com/aipoch/medical-research-skills)
## When to Use
- You have a list of genes/proteins and want to run pathway overrepresentation (enrichment) analysis against Reactome.
- You need to retrieve curated pathway content (hierarchy, reactions, participants) by Reactome stable IDs (e.g., `R-HSA-69278`).
- You want to map expression values onto pathways to support pathway-level interpretation.
- You need to project pathways across species/organisms using Reactome’s species projection capabilities.
- You are building a systems biology workflow that requires programmatic access to Reactome via its REST API.
## Key Features
- **Pathway enrichment (overrepresentation)** for identifier lists.
- **Expression analysis** by mapping expression data to Reactome pathways.
- **Content retrieval** for pathways, reactions, and participating molecules.