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pubmed_search MCP server

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MCP PubMed Search Server

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Overview

pubmed_search is an MCP PubMed Search Server designed to facilitate searching PubMed articles and managing notes related to them.

To use pubmed_search, set up the server according to the installation instructions, and utilize the provided tools to add notes and summarize them.

  • Simple note storage system for keeping track of research notes - Custom URI scheme to access individual notes - Ability to summarize notes in different detail levels - Tool to add new notes easily
  1. Researching specific medical topics by searching PubMed articles
  2. Organizing and summarizing research notes for academic purposes
  3. Keeping a curated list of PubMed articles relevant to a project or study

Add to your AI client

Use these steps to connect pubmed_search MCP server in Cursor, Claude, VS Code, and other MCP-compatible apps. The same JSON appears in the Use with menu above for one-click copy.

Cursor

Add this to your .cursor/mcp.json file in your project root, then restart Cursor.

.cursor/mcp.json

{
  "mcpServers": {
    "pubmed-search-wavelovey": {
      "command": "npx",
      "args": [
        "-y",
        "@modelcontextprotocol/server-pubmed-search-wavelovey"
      ]
    }
  }
}

Claude Desktop

Add this server entry to the mcpServers object in your Claude Desktop config, then restart the app.

~/Library/Application Support/Claude/claude_desktop_config.json (macOS) or %APPDATA%\Claude\claude_desktop_config.json (Windows)

{
  "mcpServers": {
    "pubmed-search-wavelovey": {
      "command": "npx",
      "args": [
        "-y",
        "@modelcontextprotocol/server-pubmed-search-wavelovey"
      ]
    }
  }
}

Claude Code

Add this to your project's .mcp.json file. Claude Code will detect it automatically.

.mcp.json (project root)

{
  "mcpServers": {
    "pubmed-search-wavelovey": {
      "command": "npx",
      "args": [
        "-y",
        "@modelcontextprotocol/server-pubmed-search-wavelovey"
      ]
    }
  }
}

VS Code (Copilot)

Add this to your .vscode/mcp.json file. Requires the GitHub Copilot extension with MCP support enabled.

.vscode/mcp.json

{
  "servers": {
    "pubmed-search-wavelovey": {
      "type": "stdio",
      "command": "npx",
      "args": [
        "-y",
        "@modelcontextprotocol/server-pubmed-search-wavelovey"
      ]
    }
  }
}

Windsurf

Add this to your Windsurf MCP config file, then restart Windsurf.

~/.codeium/windsurf/mcp_config.json

{
  "mcpServers": {
    "pubmed-search-wavelovey": {
      "command": "npx",
      "args": [
        "-y",
        "@modelcontextprotocol/server-pubmed-search-wavelovey"
      ]
    }
  }
}

Cline

Open Cline settings, navigate to MCP Servers, and add this server configuration.

Cline MCP Settings (via UI)

{
  "mcpServers": {
    "pubmed-search-wavelovey": {
      "command": "npx",
      "args": [
        "-y",
        "@modelcontextprotocol/server-pubmed-search-wavelovey"
      ]
    }
  }
}

FAQ

What is the purpose of the pubmed_search server?

It enables streamlined access to PubMed articles while allowing users to manage their own notes effectively.

Is there a graphical interface for managing notes?

Currently, the server focuses on command-line interfaces and MCP interaction, but users can integrate it with other tools for graphical management.

How do I deploy the pubmed_search server?

Follow the provided installation instructions, which include configurations for different operating systems and environments.7:["$","div",null,{"className":"container mx-auto flex flex-col gap-4","children":["$L26","$L27",["$","$L28",null,{"currentProject":{"id":258,"uuid":"787961ed-aa5c-46c1-8e99-9a07721e36ef","name":"pubmed_search","title":"pubmed_search MCP server","description":"MCP PubMed Search Server","avatar_url":"https://avatars.githubusercontent.com/u/186965749?v=4","created_at":"2024-12-13T10:43:55.888Z","updated_at":"2024-12-13T12:28:10.707Z","status":"created","author_name":"wavelovey","author_avatar_url":"https://avatars.githubusercontent.com/u/186965749?v=4","tags":"[]","category":"research-and-data","is_featured":false,"sort":1,"url":"https://github.com/wavelovey/pubmed_search","target":"_self","content":"$29","summary":"$2a","img_url":null,"type":null,"metadata":null,"user_uuid":null,"tools":null,"sse_url":null,"sse_provider":null,"sse_params":null,"is_official":false,"server_command":null,"server_params":null,"server_config":null,"allow_call":false,"is_innovation":false,"is_dxt":false,"dxt_manifest":null,"dxt_file_url":null,"is_audit":false},"randomProjects":[],"currentServerKey":"$undefined"}]]}]

Research and data