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ncbi-mcp

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2025-04-14

A Model Control Protocol (MCP) adapter for NCBI databases

3 years

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NCBI MCP for Cursor

A Model Control Protocol (MCP) adapter for NCBI Entrez databases that can be used with Cursor.

Features

  • Query NCBI databases (PubMed, Gene, Protein, etc.)
  • Retrieve gene information and summaries
  • Analyze gene lists and relationships
  • Access NCBI Datasets API

Installation

Using npm/npx

# Install globally
npm install -g ncbi-mcp

# Or use directly with npx
npx ncbi-mcp

Manual Installation

  1. Clone this repository
  2. Install dependencies: 
    pip install -r requirements.txt
  3. Make the Python script executable: 
    chmod +x ncbi-mcp.py

Usage

In Cursor

  1. Open Cursor
  2. Go to Settings > Extensions
  3. Add the MCP with the command: ncbi-mcp

Command Line

# Using npx
npx ncbi-mcp

# Or if installed globally
ncbi-mcp

Configuration

Create a .env file in the project root with your NCBI API key:

NCBI_API_KEY=your_api_key_here

License

MIT

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    Reviews

    2.8 (4)
    Avatar
    user_NwBeilwv
    2025-04-24

    As a dedicated user of ncbi-mcp, I find it to be an incredibly useful and efficient tool for managing my computational biology projects. Developed by Noah Zeidenberg, this application stands out with its intuitive interface and robust performance. It seamlessly integrates various resources, significantly streamlining my workflow. Highly recommend it to anyone in the bioinformatics field!

    Avatar
    user_rLvk2nnC
    2025-04-24

    I've been using ncbi-mcp for a while now, and it has exceeded my expectations. Developed by noahzeidenberg, this tool offers an efficient and user-friendly experience. The interface is intuitive, making it easy to navigate and utilize its features. Highly recommended for anyone looking for reliable MCP applications.

    Avatar
    user_9pmJyded
    2025-04-24

    As a dedicated user of ncbi-mcp, I am consistently impressed by its seamless performance and reliable features. noahzeidenberg has developed an exceptional application, perfectly catering to the needs of users who require efficient data management and retrieval. The interface is user-friendly and intuitive, making it an indispensable tool for professionals in the field. Overall, I highly recommend ncbi-mcp for anyone looking for a dependable and high-quality application.

    Avatar
    user_QFSQwMoM
    2025-04-24

    As a dedicated user of the ncbi-mcp application by Noah Zeidenberg, I have found it to be an invaluable tool for accessing comprehensive biological data from NCBI. The user interface is intuitive, making it easy to navigate through vast information seamlessly. Additionally, the frequent updates and reliable functionality reinforce my trust in this application. Highly recommended for researchers and enthusiasts in the field!