Synthesize Bio for AI agents

Synthesize Bio runs bulk and single-cell gene-expression analyses from plain-language experiment descriptions, aimed at computational biologists and research teams who want results without hand-building an analysis pipeline. Connect it once through Arc0, and your agent, or Claude, ChatGPT and Cursor, can use it through one MCP endpoint, limited to what each user approved.

Connect Synthesize Bio See the 5 actions ↓

AI and modelsOAuth 2.0 (MCP)MCP + RESTsynthesize.bio

AUDIT LOG · SYNTHESIZE BIOPOLICY: acme-support

09:41:07 · claude · u_8f2read

synthesize_bio.get_counts_data_url

Get counts data url✓ allowed · 212ms

09:41:08 · claude · u_8f2read

synthesize_bio.get_metadata_schema

Get metadata schema✓ allowed · 164ms

EVERY SYNTHESIZE BIO CALL, ON THE RECORD

01 · USE CASES

What agents do in Synthesize Bio.

Launch a gene-expression analysis

Start a bulk or single-cell expression analysis from a written description of the experiment and its samples.

Check whether a run finished

Poll analysis status before pulling results, so nothing downstream reads from an incomplete run.

Pull counts and metadata

Retrieve the counts data URL and sample metadata schema for a completed analysis to use in a report.

02 · ACTIONS

5 Synthesize Bio actions, graded by risk.

Every Synthesize Bio action is tagged read, write or destructive, so one policy covers the whole app and new actions inherit the right default.

read

Look things up. Allowed by default.

synthesize_bio.get_counts_data_url
Get counts data url
synthesize_bio.get_metadata_schema
Get metadata schema
synthesize_bio.get_analysis_results
Get analysis results
synthesize_bio.analyze_gene_expression
Analyze gene expression
synthesize_bio.resolve_sample_metadata
Resolve sample metadata

write

Create and change things. Allow, or ask the user first.

No write actions.

destructive

Delete, cancel or archive. Ask first, or deny outright.

No destructive actions.

03 · HOW IT WORKS

Synthesize Bio in three steps.

01Your users connect Synthesize BioThey sign in to Synthesize Bio on Arc0 Connect, under your brand, and approve the access you ask for.
02You set the rulesReads run, and writes like “updates” can wait for the user to approve.
03Any agent can actYour agent calls Synthesize Bio through the Arc0 SDK or MCP, and so can Claude, ChatGPT and Cursor. Every call lands on the audit log.

POLICY.TS

await arc0.policies.set('synthesize_bio', {
  read: 'allow',
  write: 'ask',        
  destructive: 'deny',  
})

# Claude Code: the same connection, one URL
$ claude mcp add --transport http arc0 \
    https://mcp.arc0.ai/u/u_8f2

04 · AUTH AND DATA

How Synthesize Bio connects.

Synthesize Bio runs its own MCP server behind OAuth. Arc0 registers the client, users approve access on Arc0 Connect, and your agent reaches Synthesize Bio through the same endpoint, policies and audit log as every other app.

The same Synthesize Bio connection serves your agent over MCP and your own backend over REST and the proxy, so a user connects once. How Arc0 handles credentials →

AUTH: OAuth 2.0 (MCP)
CREDENTIALS: Per-tenant encrypted vault
MODEL SEES: Results only, never credentials
AUDIT LOG: Every call, on every plan

05 · WORKS WITH

Use Synthesize Bio from any agent.

Claude

ChatGPT

Cursor

Codex

VS Code

OpenAI Agents SDK

Claude Agent SDK

Vercel AI SDK

Mastra

LangGraph

06 · RELATED

More ai and models apps.

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07 · FAQ

Synthesize Bio and Arc0, answered.

Q01

Can I use Synthesize Bio with Claude, ChatGPT or Cursor?

Yes. Connect Synthesize Bio to Arc0 once, then add your Arc0 MCP URL to Claude, ChatGPT, Cursor, Claude Code or any other remote-MCP client. Each assistant only gets the Synthesize Bio actions you allow.

Q02

How do users connect Synthesize Bio?

Q03

Which Synthesize Bio actions can my agent take?

5 in total: 5 read, 0 write and 0 destructive. Your policies decide which of them each agent may call.

Q04

Can I make my agent read-only in Synthesize Bio?

Yes. Allow read actions and deny writes in the Synthesize Bio policy. Your agent can still look things up, and any write it attempts is blocked and logged.

Q05

Can my own backend call Synthesize Bio too?

Yes. The same Synthesize Bio connection is available over REST and through the Arc0 proxy, so your product and your agent share one connection per user.

Get started

Plug Synthesize Bio into your agent.

Your users connect Synthesize Bio once, under your brand. Your agent gets 5 actions behind your policies, with every call on the record.

Connect Synthesize Bio Browse all apps →

Free to build · MCP + REST · Audit log on every plan