A remote connection to gnomAD, a Broad Institute database of human genetic variants. It provides access through GraphQL, a way for software to request specific data fields.

Use it to query gnomAD for genomic variant information through its GraphQL service.

It lets an agent retrieve genetic-variant information from the connected database instead of treating unfamiliar genomic data as local knowledge.

gnomad — MCP server for Claude Code and Codex by pipeworx-io

Install

Getting it into your agent

One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.

Clone the repo

git clone --depth 1 https://github.com/pipeworx-io/mcp-gnomad

Made for: Claude Code, Codex, Cursor, Gemini CLI, OpenCode.

Wrote this? Show the measurements

A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.

README.md

[![agentmods](https://agentmods.dev/badge/mcp/pipeworx-io/mcp-gnomad/gnomad/github.svg)](https://agentmods.dev/mcp/pipeworx-io/mcp-gnomad/gnomad)

Your own site

<a href="https://agentmods.dev/mcp/pipeworx-io/mcp-gnomad/gnomad"><img src="https://agentmods.dev/badge/mcp/pipeworx-io/mcp-gnomad/gnomad/github.svg" alt="Measured on agentmods" height="20"></a>

Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.

Your own site · 80×15

<a href="https://agentmods.dev/mcp/pipeworx-io/mcp-gnomad/gnomad"><img src="https://agentmods.dev/badge/mcp/pipeworx-io/mcp-gnomad/gnomad.svg" alt="Reviewed on agentmods" width="80" height="20"></a>

Per session not measured What this adds to a session before it is invoked.

When invoked not measured Not applicable: nothing here is loaded into a session.

Security scan A 0 findings. A grade says what 26 rules found in the file — not that it is safe.

Origin 73% copy Near-identical to another mod in the catalogue.

Security

Grade A, and why

gnomad scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 10d ago.

A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.

Nothing flagged

None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.

Origin

This is a copy

73% identical to owid — 4 lines differ, which has more behind it and is treated as the original. This page carries a canonical link to it rather than competing with it.

server.json · 6 lines

What it actually says

{
  "gnomad": {
    "url": "https://gateway.pipeworx.io/gnomad/mcp",
    "type": "streamable-http"
  }
}

Changes

What this file has done since we first saw it

Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.

10d ago First seen · 6 lines scan A b06248113e48

Subscribe to this mod's changes

gnomad is an MCP server published in the GitHub repository pipeworx-io/mcp-gnomad (0 stars, last pushed 15d ago), licensed MIT. Its token cost is not measured: an MCP server costs its tool schemas, not its config file. A static security scan graded it A with 0 findings. It is 73% identical to owid, differing in 4 lines, and is treated as a copy.

Scientific gnomad mcp mcp-server model-context-protocol pipeworx

gnomad

Getting it into your agent

Wrote this? Show the measurements

Grade A, and why

Nothing flagged

This is a copy

What it actually says

What this file has done since we first saw it

Other mcp servers, from other repositories

arcgis-charlotte

owid

stat-ee

emdb

arcgis-hub

bioregistry