# mcp-ncbi-datasets

> mcp-ncbi-datasets — pipeworx-io-mcp-ncbi-datasets. Use this tool when you need to access comprehensive genome, gene, and taxonomy data from the US National Library of Medicine. It provides information on genome assemblies, gene locations, and taxonomy trees, solving problems related to genomic research and data integration. The tool accepts queries and returns detailed datasets, making it ideal for use cases involving bioinformatics, genomics, and taxonomy analysis.

Canonical page: https://skillsregistry.net/skills/pipeworx-io-mcp-ncbi-datasets  
JSON: https://api.skillsregistry.net/v1/skills/pipeworx-io-mcp-ncbi-datasets

## Description

NCBI Datasets — the US National Library of Medicine's genome, gene and taxonomy reference service: which assemblies exist for an organism and how good they are, where a gene sits on the genome and what it is called everywhere else, and the NCBI taxonomy tree with per-node assembly and gene counts.

## Trust

- **Trust score (0–1):** 0.97
- **Verification tier:** verified
- **Last scanned:** 2026-09-28

## Facts

- **Version:** 1.0.0
- **Skill type:** atomic
- **Execution layer:** container
- **Runtime environment:** vm
- **License:** MIT
- **Updated:** 2026-09-28

## Source

- **Source listing:** [GitHub](https://github.com/pipeworx-io/mcp-ncbi-datasets)

## Use it

Resolve this record through the SkillsRegistry MCP server (no auth, read-only):

```
claude mcp add --transport http --scope user skillsregistry https://api.skillsregistry.net/mcp
```

```json
{
  "jsonrpc": "2.0",
  "id": 1,
  "method": "tools/call",
  "params": {
    "name": "get_skill",
    "arguments": {
      "slug": "pipeworx-io-mcp-ncbi-datasets"
    }
  }
}
```

REST: `GET https://api.skillsregistry.net/v1/skills/pipeworx-io-mcp-ncbi-datasets` · pull for local use: `GET https://api.skillsregistry.net/v1/skills/pipeworx-io-mcp-ncbi-datasets/pull`

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SkillsRegistry indexes agent skills from public registries and GitHub. Skills we have analysed are scanned with Circle-IR and scored on six dimensions; each listing states its scan coverage. More: https://skillsregistry.net/llms.txt