Expression Atlas
FreeNot checkedEnables querying the EBI Expression Atlas for gene expression data across species and conditions. Part of the Pipeworx gateway, it provides access to baseline a
About
Enables querying the EBI Expression Atlas for gene expression data across species and conditions. Part of the Pipeworx gateway, it provides access to baseline and differential expression studies.
README
EBI Expression Atlas MCP.
Part of Pipeworx — an MCP gateway connecting AI agents to 815+ live data sources.
Tools
| Tool | Description |
|---|
Quick Start
Add to your MCP client (Claude Desktop, Cursor, Windsurf, etc.):
{
"mcpServers": {
"expression-atlas": {
"url": "https://gateway.pipeworx.io/expression-atlas/mcp"
}
}
}
Or connect to the full Pipeworx gateway for access to all 815+ data sources:
{
"mcpServers": {
"pipeworx": {
"url": "https://gateway.pipeworx.io/mcp"
}
}
}
Using with ask_pipeworx
Instead of calling tools directly, you can ask questions in plain English:
ask_pipeworx({ question: "your question about Expression Atlas data" })
The gateway picks the right tool and fills the arguments automatically.
More
License
MIT
Installing Expression Atlas
This server has no published package — it is built from source. Open the repository and follow its README.
▸ github.com/pipeworx-io/mcp-expression-atlasFAQ
Is Expression Atlas MCP free?
Yes, Expression Atlas MCP is free — one-click install via Unyly at no cost.
Does Expression Atlas need an API key?
No, Expression Atlas runs without API keys or environment variables.
Is Expression Atlas hosted or self-hosted?
A hosted option is available: Unyly runs the server in the cloud, no local setup required.
How do I install Expression Atlas in Claude Desktop, Claude Code or Cursor?
Open Expression Atlas on unyly.org, pick your client tab (Claude Desktop, Claude Code, Cursor) and press Install — the config is generated automatically, no JSON editing.
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