PubMed MCP Server

@pipethedev

About PubMed MCP Server

No overview available yet

Config

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

{
  "mcpServers": {
    "pubmed-mcp-server-pipethedev": {
      "command": "npx",
      "args": [
        "-y",
        "@smithery/cli",
        "install",
        "@JackKuo666/pubmed-mcp-server",
        "--client",
        "claude"
      ]
    }
  }
}

Tools

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Overview

What is PubMed MCP Server?

The PubMed MCP Server provides a bridge between AI assistants and PubMed's vast repository of biomedical literature through the Model Context Protocol (MCP). It allows AI models to search for scientific articles, access their metadata, and perform deep analysis in a programmatic way.

How to use PubMed MCP Server?

Install Python 3.10+ and dependencies, then start the server with python pubmed_server.py. Configure the client (e.g., Claude Desktop, Cursor, Windsurf, or CLine) by adding the server's details to the appropriate configuration file.

Key features of PubMed MCP Server

Paper search using keywords or advanced query
Fast retrieval of article metadata
Access detailed metadata for specific papers
Attempts to download full-text PDFs
Performs comprehensive deep analysis of papers
Provides specialized research prompts for analysis

Use cases of PubMed MCP Server

Searching for recent literature on a biomedical topic
Retrieving metadata for a specific PubMed article
Downloading full-text PDFs for offline reading
Performing comprehensive analysis of research papers
Supporting biomedical research with programmatic tool access

FAQ from PubMed MCP Server

What dependencies are required to run PubMed MCP Server?

Python 3.10 or higher and the FastMCP library, plus asyncio, logging, requests, and beautifulsoup4.

Does PubMed MCP Server require an API key or authentication?

No, the server uses PubMed's public API and does not require any authentication or API key.

Can I download the full text of any PubMed article?

The server attempts to download full-text PDFs, but availability depends on the publisher and access rights.

Is PubMed MCP Server free to use?

Yes, it is open-source under the MIT License and accesses PubMed's free public data, but you must respect PubMed's terms of service.

What are the known limitations of PubMed MCP Server?

PDF downloads are attempted but not guaranteed; the tool is intended for research purposes only.

Frequently asked questions

What dependencies are required to run PubMed MCP Server?

Python 3.10 or higher and the FastMCP library, plus asyncio, logging, requests, and beautifulsoup4.

Does PubMed MCP Server require an API key or authentication?

No, the server uses PubMed's public API and does not require any authentication or API key.

Can I download the full text of any PubMed article?

The server attempts to download full-text PDFs, but availability depends on the publisher and access rights.

Is PubMed MCP Server free to use?

Yes, it is open-source under the MIT License and accesses PubMed's free public data, but you must respect PubMed's terms of service.

What are the known limitations of PubMed MCP Server?

PDF downloads are attempted but not guaranteed; the tool is intended for research purposes only.

Comments

Basic information

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