EBI BioStudies MCP.
EBI BioStudies MCP. The mcp mcp server wraps that behind the Model Context Protocol, so an assistant can use it through 2 defined tools rather than through you.
Part of Pipeworx — an MCP gateway connecting AI agents to 1394+ live data sources.
Setup follows the usual MCP pattern — install or clone the server, register it in your client's configuration file, restart the client. The configuration blocks on this page cover the common clients.
Everything the assistant can do here goes through one of these:
search_studies — Search EBI BioStudies — a keyless database of biological study descriptions that links across EBI archives (ArrayExpress, PRIDE, etc.). Find studiesget_study — Get the metadata for a single EBI BioStudies study by accession (e.g. "S-EPMC6010251"). Returns the title, flattened attributes (abstract, releaseAmong the database access options, the useful question is rarely "what can it do" but "what does it cost you to run" — permissions, credentials, and how much of your context its toolset consumes. MCP's toolset — search_studies, get_study — is a fair guide to whether it matches your workflow. It is maintained by mojibake-ai; worth a glance at recent repository activity before you build anything load-bearing on it.
This entry was verified against MCP's own documentation before publication; SyncDev keeps the directory reviewed rather than auto-generated.
| Tool | What it does |
|---|---|
| search_studies | Search EBI BioStudies — a keyless database of biological study descriptions that links across EBI archives (ArrayExpress, PRIDE, etc.). Find studies by keyword and get accession, title, authors, type, release date, and l |
| get_study | Get the metadata for a single EBI BioStudies study by accession (e.g. "S-EPMC6010251"). Returns the title, flattened attributes (abstract, release date, data source, etc.), and counts of links and subsections. EBI BioStu |
{
"mcpServers": {
"biostudies": {
"url": "https://gateway.pipeworx.io/biostudies/mcp"
}
}
}Configuration as documented by the project. Restart the client after saving.
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