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PubTator MCP Server

🔍 A biomedical literature annotation and relationship mining server based on PubTator3, providing convenient access through the MCP interface.

Local serverstdioPython

What is the PubTator MCP Server?

🔍 A biomedical literature annotation and relationship mining server based on PubTator3, providing convenient access through the MCP interface.

Configuration and credentials

  • Python 3.10+ - FastMCP library

More MCP options

Compare MCP servers by category, or browse hosted MCP servers if you prefer an endpoint over a local process.

Maintainer setup documentation.

How to install the PubTator MCP Server

{
  "mcpServers": {
    "pubtator": {
      "command": "python",
      "args": [
        "-m",
        "pubtator-mcp-server"
      ]
    }
  }
}

From the project documentation. Replace placeholders and example paths before connecting.

Configuration

  • Python 3.10+ - FastMCP library

Example prompts to try

  • “Use PubTator to Requirements.”
  • “Use PubTator to Installation.”
  • “Use PubTator to Troubleshooting.”

Frequently asked questions

🔍 A biomedical literature annotation and relationship mining server based on PubTator3, providing convenient access through the MCP interface. Confirm the tools offered by your installed version in the connected client. Tool availability and permissions depend on the server and account configuration.

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