# Gtex (npm · @pipeworx/mcp-gtex)

GTEx MCP.

- Trust score: 83/100 (high trust)
- Change this week: +3
- Registry status: active
- Liveness: live
- Owner verified: no
- Last scored: 2026-11-05

## Components

- remote · `gateway.pipeworx.io`: 63/100, [markdown](https://verifymcp.io/servers/pipeworx-io-gtex/gtex-mcp.md), [page](https://verifymcp.io/servers/pipeworx-io-gtex/gtex-mcp)
- npm · `@pipeworx/mcp-gtex`: 83/100 (this document), [markdown](https://verifymcp.io/servers/pipeworx-io-gtex/pipeworx-mcp-gtex.md), [page](https://verifymcp.io/servers/pipeworx-io-gtex/pipeworx-mcp-gtex)

## Channel facts

- Registry: `npm`
- Package: `@pipeworx/mcp-gtex`
- Version: `0.2.1`
- Transport: `stdio`

## Trust breakdown

How this component scores in each security and reliability category. Every signal is checked automatically from public evidence about the published package, including repeated runs of it in an isolated sandbox, and we only credit what we can confirm. Scores are 0–100 per category. Scoring method: https://verifymcp.io/docs/scoring (what has changed: https://verifymcp.io/docs/scoring/changelog)

Scored 2026-11-05.

- **Supply Chain Security**: 100/100
  - No malware found by supply-chain analysis.
  - No known CVEs affecting this package version or its production dependencies.
  - No install/post-install scripts declared.
  - No production dependencies, so there is no dependency health to assess.
- **Provenance & Transparency**: 97/100
  - Source repository is publicly reachable at the declared URL.
  - Cryptographically verified build provenance (signed, bound to pipeworx-io/mcp-gtex).
  - Clear OSI-approved license (MIT).
  - Actively maintained (last published 3 days ago).
  - Disclosure check failed: no security disclosure policy was found in the source repository.
- **Schema Quality & AI Usability**: 74/100
  - AI-judged instruction clarity (good).
  - Tool/resource definitions use about 469 tokens (~93/item across 5 items; 5 tools + 0 resources), lean.
  - Usage-examples check failed: none of the tools include examples.
- **Stability & Change Management**: 23/100
  - Stability observed for 7 of 30 days with no destabilising changes; credit accrues until the full window elapses.
- **Tool Coverage**: 89/100
  - 100% of tools have a non-trivial description (not blank, and not just the tool's name).
  - 67% of tool parameters carry a description.
- **Tool Safety**: 100/100
  - No prompt-injection markers were found in the server instructions, tool names or descriptions we captured.
  - We read all 5 captured tool definition(s), and no name or description among them implies an irreversible operation.
  - An AI judge read all 6 captured unit(s) of tool text and found none that tries to manipulate the model reading it.
- **Capabilities**: 100/100
  - Implements a supported MCP spec version (2025-11-25); the latest is 2026-07-28.

## Install

### How do I install the Gtex MCP server?

Gtex runs locally as an npm package, launched with npx -y @pipeworx/mcp-gtex. Ready-made configuration for Claude, Cursor, VS Code, Codex and 5 more is on this page, copied from each client's own documentation.

### Claude

```bash
claude mcp add pipeworx-io-gtex -- npx -y @pipeworx/mcp-gtex
```

### Cursor

```json
{
  "mcpServers": {
    "pipeworx-io-gtex": {
      "command": "npx",
      "args": [
        "-y",
        "@pipeworx/mcp-gtex"
      ]
    }
  }
}
```

### VS Code

```json
{
  "servers": {
    "pipeworx-io-gtex": {
      "command": "npx",
      "args": [
        "-y",
        "@pipeworx/mcp-gtex"
      ]
    }
  }
}
```

### Codex

```bash
codex mcp add pipeworx-io-gtex -- npx -y @pipeworx/mcp-gtex
```

### opencode

```json
{
  "$schema": "https://opencode.ai/config.json",
  "mcp": {
    "pipeworx-io-gtex": {
      "type": "local",
      "command": [
        "npx",
        "-y",
        "@pipeworx/mcp-gtex"
      ],
      "enabled": true
    }
  }
}
```

### OpenClaw

```bash
openclaw mcp add pipeworx-io-gtex --command npx --arg -y --arg @pipeworx/mcp-gtex
```

### Hermes

```yaml
mcp_servers:
  pipeworx-io-gtex:
    command: "npx"
    args: ["-y", "@pipeworx/mcp-gtex"]
```

### Netclaw

```json
{
  "McpServers": {
    "pipeworx-io-gtex": {
      "Transport": "stdio",
      "Command": "npx",
      "Arguments": [
        "-y",
        "@pipeworx/mcp-gtex"
      ]
    }
  }
}
```

### Vellum

```bash
assistant mcp add pipeworx-io-gtex -t stdio -c npx -a -y @pipeworx/mcp-gtex
```

### Other

```json
{
  "mcpServers": {
    "pipeworx-io-gtex": {
      "command": "npx",
      "args": [
        "-y",
        "@pipeworx/mcp-gtex"
      ]
    }
  }
}
```

## Changelog

Every change recorded for this component, newest first. Days that predate change tracking, or that we cannot explain, say so: "we were watching and nothing happened" and "we were not watching" are different claims.

### 2026-11-05 (score 83, 0)

- [functional regression] Security disclosure: unverified → fail

### 2026-11-04 (score 83, +1)

No change was recorded against any check on this day. Stability & Change Management went from 17 to 20. That category is still filling its 30-day observation window: 5 days of observed history at the previous scan, 6 at this one. The score rises as the window fills, whether or not the server changes.

### 2026-11-03 (score 82, +15)

- [security improvement] Malware scan: unverified → pass

### 2026-11-02 (score 67, −13)

- [security regression] Malware scan: pass → unverified
- [functional regression] Security disclosure: fail → unverified
- [functional improvement] Stability: unverified → 0.13
- [functional] Package version: 0.2.0 → 0.2.1

### 2026-10-31 (score 80, 0)

- [functional regression] Security disclosure: unverified → fail

### 2026-10-29 (score 80)

First indexed and scored.

## MCP tools (5)

### `gene` (~27 tokens)

Gene metadata by Gencode id or symbol.

Input parameters:

- `gencode_id_or_symbol` (string, required)

### `median_expression` (~80 tokens)

Median expression across tissues for a gene (TPM).

Input parameters:

- `datasetId` (string): gtex_v8 (default) | gtex_v10
- `gene` (string, required): Gene symbol (e.g. "TP53") or versioned Gencode id (e.g. "ENSG00000141510.16"). Symbols are resolved automatically.

### `top_expressed_genes` (~171 tokens)

GTEx Portal (Genotype-Tissue Expression project) — the genes with the highest median expression in one human tissue, given a GTEx tissueSiteDetailId such as Liver or Whole_Blood. Returns ranked genes with Gencode id, gene symbol and median TPM, with a settable result count and an optional mitochondrial-gene filter. Answers which genes are most highly expressed in human liver, brain or blood.

Input parameters:

- `datasetId` (string): gtex_v8 (default) | gtex_v10
- `filter_mt_gene` (boolean): Exclude mitochondrial genes (default true).
- `num` (number): 1-1000 (default 50).
- `tissue` (string, required): GTEx tissueSiteDetailId (e.g. "Liver", "Whole_Blood")

### `single_tissue_eqtls` (~39 tokens)

Significant single-tissue eQTLs for a gene.

Input parameters:

- `gencode_id` (string, required)
- `tissue` (string)

### `tissues` (~100 tokens)

GTEx Portal (Genotype-Tissue Expression project) — the catalogue of human tissue sites GTEx sampled, such as Liver, Whole_Blood and Brain_Cortex. Returns each tissue's tissueSiteDetailId, display name, parent tissue site, RNA-seq and genotype sample counts and colour code; that id is the spelling every other GTEx expression and eQTL tool expects. Answers which human tissues GTEx covers and how a tissue id is spelled.

## Diagnostics

Captured diagnostic sections: Provenance, Dependencies. The full working is on the page: https://verifymcp.io/servers/pipeworx-io-gtex/pipeworx-mcp-gtex#diagnostics

## Score history

- 2026-11-05: 83
- 2026-11-04: 83
- 2026-11-03: 82
- 2026-11-02: 67
- 2026-11-01: 80
- 2026-10-31: 80
- 2026-10-30: 80
- 2026-10-29: 80

## Common questions

### What is the Gtex MCP server?

Gtex is an MCP server listed in the public MCP registry as io.github.pipeworx-io/gtex. GTEx MCP. This page covers its npm package (@pipeworx/mcp-gtex).

### Is the Gtex MCP server safe to use?

Gtex scores 83 out of 100 on VerifyMCP. We found no known CVEs affecting it as of 5 November 2026. It declares no install or post-install scripts. Its build provenance is signed and verified. That is a record of what we were able to check automatically, not an endorsement. The category breakdown on this page shows every signal behind the number, including the ones we could not confirm.

### What tools does the Gtex MCP server expose?

Gtex exposes 5 tools: gene, median_expression, top_expressed_genes, single_tissue_eqtls, tissues. Their descriptions and schemas cost roughly 417 tokens of context every time the server is loaded.

### Is the Gtex MCP server still maintained?

Gtex is still listed as active in the MCP registry. We last reached this channel on 5 November 2026. Those dates come from our own scans of the registry and the channel itself, not from anything the publisher announced.

### What licence is the Gtex MCP server under?

Gtex declares the MIT licence, which is OSI-approved. That covers the source only, and says nothing about the cost of any service it calls.

## Links

- npm package: https://www.npmjs.com/package/@pipeworx/mcp-gtex
- Socket report: https://socket.dev/npm/package/@pipeworx/mcp-gtex
- Repository: https://github.com/pipeworx-io/mcp-gtex
- Website: https://pipeworx.io/packs/gtex
- Changelog RSS feed: https://verifymcp.io/servers/pipeworx-io-gtex/pipeworx-mcp-gtex.xml
- Changelog JSON feed: https://verifymcp.io/servers/pipeworx-io-gtex/pipeworx-mcp-gtex.json
- HTML version of this page: https://verifymcp.io/servers/pipeworx-io-gtex/pipeworx-mcp-gtex