MCP Server for Enrichr gene set enrichment analysis with multi-library support
Enrichr becomes available to MCP clients through the enrichr mcp server. MCP Server for Enrichr gene set enrichment analysis with multi-library support.
A Model Context Protocol (MCP) server that provides gene set enrichment analysis using the Enrichr API. This server supports all available gene set libraries from Enrichr and returns only statistically significant results (corrected-$p$ < 0.05) for LLM tools to interpret.
Once connected, the assistant can call these 6 tools directly:
Enrichment — https://maayanlab.cloud/Enrichr/enrichBackground — corrected enrichment**: https://maayanlab.cloud/speedrichr/api/{addList,addbackground,backgroundenrich}Smithery — The Smithery tool exposed by this serversuggest_libraries — Discover the most relevant Enrichr libraries for a research question. Use this before enrichr_analysis to pick the best libraries for your specific topicenrichr_analysis — Perform enrichment analysis across multiple Enrichr libraries in parallelenrichment_analysis — Guided workflow for gene set enrichment analysis. Accepts a gene list and optional research context, then walks through library selection, analysis, andThe server is distributed via npm as enrichr-mcp-server, so most clients can run it without a manual build step. Add it to your MCP client's configuration and restart the client to pick it up — the copy-paste configs for Claude Desktop, Claude Code and Cursor are on this page.
Database servers turn schema archaeology and ad-hoc reporting into conversation, which is why they tend to be the second or third server people install. Enrichr sits in that group, and the shape of its toolset — Enrichment, Background, Smithery among others — tells you what it is really for. Worth comparing against the other databases servers in this directory before you commit to one, since several overlap in scope but differ sharply in setup cost and permissions.
| Tool | What it does |
|---|---|
| Enrichment | https://maayanlab.cloud/Enrichr/enrich |
| Background | corrected enrichment**: https://maayanlab.cloud/speedrichr/api/{addList,addbackground,backgroundenrich} |
| Smithery | The Smithery tool exposed by this server. |
| suggest_libraries | Discover the most relevant Enrichr libraries for a research question. Use this before enrichr_analysis to pick the best libraries for your specific topic. Searches Enrichr's **live** library catalog, so it never recommen |
| enrichr_analysis | Perform enrichment analysis across multiple Enrichr libraries in parallel. |
| enrichment_analysis | Guided workflow for gene set enrichment analysis. Accepts a gene list and optional research context, then walks through library selection, analysis, and interpretation. |
{
"mcpServers": {
"enrichr-pathways": {
"command": "npx",
"args": ["-y", "enrichr-mcp-server", "-l", "GO_Biological_Process_2025,KEGG_2021_Human,Reactome_2022"]
},
"enrichr-disease": {
"command": "npx",
"args": ["-y", "enrichr-mcp-server", "-l", "Human_Phenotype_Ontology,OMIM_Disease,ClinVar_2019"]
}
}
}Configuration as documented by the project. Restart the client after saving.
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