MCP server

Biosamples

io.github.pipeworx-io/biosamples

Checked 26 Oct 2026, 08:29 UTC · Connected to it and listed its tools

EBI BioSamples MCP.

From the maker's README Part of Pipeworx — an MCP gateway connecting AI agents to 1875+ live data sources. This is an independent, unofficial integration — not affiliated with, endorsed by, or published by the upstream provider. Source

Working at last checkOfficial: pipeworx.io's GitHub account (pipeworx-io)About 26,671 tokens per request once connected44 tools

Website Source

https://gateway.pipeworx.io/biosamples/mcp

At a glance

Type: MCP server
Publisher: pipeworx.io (verified by the MCP Registry)
Status: Working at last check
Tools: 44
Token cost: About 26,671 tokens per request
Sets up in: Claude Code, Claude Desktop, Codex, Gemini CLI, Cursor, VS Code, Antigravity, ChatGPT, OpenAI API, Grok
Last checked: 26 Oct 2026, 08:29 UTC

Connect it to your agent

Add to Cursor Add to VS Code VS Code Insiders

Opens the app, which shows the server and asks you to confirm. For other apps, copy the setup below.

Claude Code

claude mcp add --transport http biosamples https://gateway.pipeworx.io/biosamples/mcp

Claude Desktop

Settings → Connectors → Add custom connector, and paste the URL.

Codex (config.toml)

[mcp_servers.biosamples]
url = "https://gateway.pipeworx.io/biosamples/mcp"

Gemini CLI

{"mcpServers":{"biosamples":{"httpUrl":"https://gateway.pipeworx.io/biosamples/mcp"}}}

Cursor

{"mcpServers":{"biosamples":{"url":"https://gateway.pipeworx.io/biosamples/mcp"}}}

VS Code

{"servers":{"biosamples":{"type":"http","url":"https://gateway.pipeworx.io/biosamples/mcp"}}}

Antigravity

agy mcp add biosamples https://gateway.pipeworx.io/biosamples/mcp

ChatGPT

Settings → Apps & Connectors → Advanced settings: turn on Developer mode, then Create a connector and paste the URL. Which plans can do this varies.

OpenAI API (Responses tools)

{"type":"mcp","server_label":"biosamples","server_url":"https://gateway.pipeworx.io/biosamples/mcp","require_approval":"always"}

Grok (xAI API tools)

{"type":"mcp","server_label":"biosamples","server_url":"https://gateway.pipeworx.io/biosamples/mcp"}

Tools

get_sample ~144 tokens
Fetch a single EBI BioSamples record by accession. Returns the sample name, dates, taxId, organism, and a flattened map of its characteristics (organism, tissue, sex, cell type, etc.). Keyless.
search_samples ~224 tokens
Search EBI BioSamples — metadata for biological samples (cell lines, tissues, organisms) referenced across EBI archives. Free-text search by organism, tissue, or keyword; returns matching samples with accession, name, organism, and release date. Keyless.

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