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DeepMap MCP

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by saurabhsing21

High-performance functional genomics analysis using Broad Institute's DepMap CRISPR datasets for cancer research.

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Works in:claude

Exposes:Tools

What it does\nProvides LLMs with structured access to the Broad Institute's DepMap (Cancer Dependency Map) data. It acts as a low-latency bridge to perform functional genomics analysis across 1,000+ cancer cell lines, specifically optimized for therapeutic target evidence collection.\n\n## Tools\n- `search_depmap_gene`: Search for valid HGNC gene symbols within the dataset.\n- `get_depmap_gene_dependency_summary`: Retrieve global statistical metrics (average gene effect, confidence scores) for a specific gene.\n- `get_depmap_top_cell_line_dependencies`: Identify the cancer models most sensitive to the loss of a target gene.\n- `get_depmap_dataset_metadata`: Access provenance data about the local CRISPR cache.\n\n## Installation\nAdd the following to your `claude_desktop_config.json`:\n\n`json\n{\n "mcpServers": {\n "deepmap-mcp": {\n "command": "deepmap-mcp",\n "args": ["--transport", "stdio"],\n "env": {\n "DEEPMAP_MCP_DATASET_PATH": "/YOUR/ABSOLUTE/PATH/TO/CRISPRGeneEffect.csv"\n }\n }\n }\n}\n`\n\n## Supported hosts\nClaude Desktop

Quick install

pip install deepmap-mcp

Information

Pricing: free
Published: 4/28/2026
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Choose your AI client and follow the steps below.

Claude Desktop

{\n  "mcpServers": {\n    "deepmap-mcp": {\n      "command": "deepmap-mcp",\n      "args": ["--transport", "stdio"],\n      "env": {\n        "DEEPMAP_MCP_DATASET_PATH": "/YOUR/ABSOLUTE/PATH/TO/CRISPRGeneEffect.csv"\n      }\n    }\n  }\n}