Ensembl

Verified Integration

Author: @the•Category: ServerApplication

GitHub Repository

JSON-RPC 2.0

Protocol Standard

Sub-second

Execution Latency

Active

Operational Status

Client Configuration

— Connect Ensembl to Claude Desktop or Cursor in seconds

{
  "mcpServers": {
    "ensembl-1": {
      "command": "npx",
      "args": [
        "-y",
        "@modelcontextprotocol/server-ensembl-1"
      ],
      "env": {}
    }
  }
}

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

Architecture & Capabilities

System Overview

Provides seamless access to the Ensembl REST API for genomic data, comparative genomics, and biological annotations.

Indexed Date

7/22/2026

License

Open Source

Protocol Layer

stdio / SSE RPC

Frequently Asked Questions

Architecture and operational details for Ensembl

You can access detailed gene and transcript information, diverse sequence data (genomic DNA, CDS), perform comparative genomics for homolog detection and gene family trees, analyze genetic variants, retrieve regulatory features, and get cross-references to external databases.

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