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PubMed MCP

@grll

Repository

About PubMed MCP

A MCP server for PubMed data

#pubmed#mcp#biomedical#data-fetching

Config

Add this server to your MCP-compatible client using the configuration below.

{
  "mcpServers": {
    "pubmedmcp": {
      "command": "uvx",
      "args": [
        "pubmedmcp@latest"
      ],
      "env": {
        "UV_PRERELEASE": "allow",
        "UV_PYTHON": "3.12"
      }
    }
  }
}

Tools

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Overview

What is PubMed MCP?

PubMed MCP is a server that allows searching and fetching articles from PubMed, a database of over 35 million citations for biomedical literature from MEDLINE, life science journals, and online books.

How to use PubMed MCP?

Add the configuration to your claude_desktop_config.json file using the uvx command with the pubmedmcp@latest package. Ensure uv and uvx are installed and available in your system PATH, and that Python 3.12 is used.

Key features of PubMed MCP

  • Search PubMed for biomedical citations
  • Fetch article metadata and details
  • Leverages the pubmedclient Python package
  • Integrates with Claude Desktop via MCP
  • Uses uv for installation and execution

Use cases of PubMed MCP

  • Searching PubMed for relevant biomedical literature citations
  • Retrieving detailed information about specific PubMed articles

FAQ from PubMed MCP

How do I configure PubMed MCP?

Add the provided JSON snippet to your claude_desktop_config.json file, specifying the command uvx and arguments ["pubmedmcp@latest"].

What are the prerequisites?

You need uv installed with uvx available in your PATH, and Python 3.12 must be used (set via the UV_PYTHON environment variable).

Why might uv not be found by Claude?

Claude's PATH may differ from your system PATH. You can add a PATH key in your claude_desktop_config.json file to ensure uvx is available.

What Python version does PubMed MCP require?

It requires Python 3.12, which is enforced by setting UV_PYTHON: "3.12" in the configuration environment.

Frequently asked questions

How do I configure PubMed MCP?

Add the provided JSON snippet to your `claude_desktop_config.json` file, specifying the command `uvx` and arguments `["pubmedmcp@latest"]`.

What are the prerequisites?

You need `uv` installed with `uvx` available in your PATH, and Python 3.12 must be used (set via the `UV_PYTHON` environment variable).

Why might uv not be found by Claude?

Claude's PATH may differ from your system PATH. You can add a `PATH` key in your `claude_desktop_config.json` file to ensure `uvx` is available.

What Python version does PubMed MCP require?

It requires Python 3.12, which is enforced by setting `UV_PYTHON: "3.12"` in the configuration environment.

Comments

Basic information

Category

Data & Analytics

Transports

stdio

Author

grll

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