Biostudies MCP

The Biostudies MCP server allows AI agents to search and retrieve metadata for biological study descriptions from the EBI BioStudies database. It links across EBI archives such as ArrayExpress and PRIDE, enabling users to find studies by keyword or retrieve detailed metadata for a specific study accession.

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Package and access

Local package with source-attributed installation metadata. Koskamo does not execute packages during review.

Community listingLocal stdioSource reviewed; not executedPublished by Pipeworx

Vendor documentation

What you can do with it

Search EBI BioStudies for biological studies by keyword
Retrieve metadata for a single study by accession
Link biological study descriptions across EBI archives

Source and maintenance

Community listingRegistry 0.2.1

mcp-registry: io.github.pipeworx-io/biostudies@0.2.1 Source repository Project website

Maintenance checked: Oct 31, 2026, 10:59 PM UTC

Packages and installation

Source-provided package data. Koskamo has not executed or live-probed this package.

@pipeworx/mcp-biostudies 0.2.1

npm

@pipeworx/mcp-biostudies package definition

{
  "version": "0.2.1",
  "transport": "stdio",
  "identifier": "@pipeworx/mcp-biostudies",
  "registryType": "npm",
  "environmentVariables": [
    {
      "name": "PIPEWORX_API_KEY",
      "description": "Optional Pipeworx API key. Without it calls are anonymous and capped daily; a free key raises the cap."
    }
  ]
}

Tools

Reported by the attributed source; not independently observed by Koskamo.

No tool definitions available.

Connect from your client

Each snippet configures the same source-provided package; replace placeholders before use.

This server is operated by the named third party. Listing and endpoint checks are not an endorsement or a security audit. Review the operator's permissions, terms, and data handling before connecting. How listings are checked and corrected.

Cursor

Merge this local stdio configuration, replace every placeholder environment value, and restart Cursor. Koskamo has not executed this package.

Cursor configuration

{
  "mcpServers": {
    "biostudies-mcp-pipeworx-mcp-biostudies": {
      "command": "npx",
      "args": [
        "-y",
        "@pipeworx/mcp-biostudies@0.2.1"
      ],
      "env": {
        "PIPEWORX_API_KEY": "<YOUR_PIPEWORX_API_KEY>"
      }
    }
  }
}

Cline

Merge this local stdio configuration, replace every placeholder environment value, and restart Cline. Koskamo has not executed this package.

Cline configuration

{
  "mcpServers": {
    "biostudies-mcp-pipeworx-mcp-biostudies": {
      "command": "npx",
      "args": [
        "-y",
        "@pipeworx/mcp-biostudies@0.2.1"
      ],
      "env": {
        "PIPEWORX_API_KEY": "<YOUR_PIPEWORX_API_KEY>"
      }
    }
  }
}

VS Code

Merge this local stdio configuration, replace every placeholder environment value, and restart VS Code. Koskamo has not executed this package.

VS Code configuration

{
  "servers": {
    "biostudies-mcp-pipeworx-mcp-biostudies": {
      "type": "stdio",
      "command": "npx",
      "args": [
        "-y",
        "@pipeworx/mcp-biostudies@0.2.1"
      ],
      "env": {
        "PIPEWORX_API_KEY": "<YOUR_PIPEWORX_API_KEY>"
      }
    }
  }
}

Claude Desktop

Merge this local stdio configuration, replace every placeholder environment value, and restart Claude Desktop. Koskamo has not executed this package.

Claude Desktop configuration

{
  "mcpServers": {
    "biostudies-mcp-pipeworx-mcp-biostudies": {
      "command": "npx",
      "args": [
        "-y",
        "@pipeworx/mcp-biostudies@0.2.1"
      ],
      "env": {
        "PIPEWORX_API_KEY": "<YOUR_PIPEWORX_API_KEY>"
      }
    }
  }
}

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