Skip to main content

Documentation Index

Fetch the complete documentation index at: https://docs.synthesize.bio/llms.txt

Use this file to discover all available pages before exploring further.

​
Synthesize Bio MCP

Synthesize Bio MCP is a connection that lets AI tools like Claude use Synthesize Bio directly inside a chat. It can start and monitor gene expression analyses from a natural-language request. Use this guide to:
  • Set up the Claude Connector
  • Understand what kinds of analyses it supports
  • Write better prompts
  • Troubleshoot sign-in or long-running jobs

​
Server URL

https://app.synthesize.bio/api/mcp

​
What you can do with it

  • Compare gene expression between two sample groups such as heart vs liver or tumor vs normal tissue.
  • Run analyses in bulk or single-cell mode.
  • Let your AI assistant wait on the long-running workflow and return the completed report when it is ready.

​
Before you begin

  • You need a Synthesize Bio account on app.synthesize.bio.
  • You need access to Claude connectors.
  • The Synthesize Bio Claude Connector uses OAuth to authenticate your account to the MCP.
  • Most analyses take several minutes to complete, so expect an asynchronous workflow rather than an instant result.
Continue with Overview for a quick product summary, or go straight to Set up the Claude Connector.