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Companies that love quilt

The Data Governance Layer for Benchling Labs

Benchling runs your lab. Quilt governs the data Benchling generates.

Bi-directional sync, full versioning, and downstream analytics — all in your AWS, alongside your LIMS.
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Built for R&D IT
Maintain full control over data while providing self-service data access • Deploys in Customer AWS Accounts with Infrastructure as Code (CloudFormation or Terraform)Governance built on IAM & SSOReplace expensive data stores with Amazon S3
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Connected Lab
Put instrument data into the hands of your scientific teams quickly.
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Talk to a Quilt engineer about your data stack
30 minutes. No slides. Just your architecture and next steps.
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Computational Biology

Build repeatability into next-generation sequencing and omics pipelines, quickly.

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Connected Lab

Put instrument data into the hands of your scientific teams quickly.

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aws partner

Quilt is an Advanced AWS Technology Partner

Quilt Data is an AWS Advanced Technology Partner. Quilt brings seamless collaboration to Amazon S3 by connecting people, pipelines, and machines using visual, verifiable, versioned data packages. Amazon Web Services provides secure, cost-effective, and scalable big data services that can help you build a Data Lake to collect, store, and analyze massive volumes of heterogeneous data.

Computational Biology
Build repeatability into next-generation sequencing and omics pipelines, quickly.
Learn More
Connected Lab
Put instrument data into the hands of your scientific teams quickly.
Learn More
Talk to a Quilt engineer about your data stack
30 minutes. No slides. Just your architecture and next steps.
Book a 30-min intro call
Computational Biology

Build repeatability into next-generation sequencing and omics pipelines, quickly.

Explore Further >
Connected Lab

Put instrument data into the hands of your scientific teams quickly.

Explore Further >

Trusted by Leading Organizations

Security & Compliance

  • AWS Advanced Technology Partner
  • HIPAA-eligible
  • SOC 2 Type II
  • GxP-ready


Benchling captures experiments. Quilt governs the data.


Quilt connects Benchling entities to their raw data in S3 — versioned, governed, and ready for downstream analytics. Query by entity ID. Get back every associated file.

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Bi-directional Benchling sync

Automatic ingestion of entities, results, and notebook data

  • Query by Benchling entity ID — get back every associated raw data file from S3
  • Push governed data back to Benchling workflows automatically
  • Benchling project permissions govern package access — no separate ACLs
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Governed in your AWS

Every dataset version, every access, every change — tracked

  • Deployed in your VPC alongside Benchling — no data leaves your perimeter
  • Full version history and audit trail for every Benchling-generated dataset
  • SOC 2 Type II, HIPAA-eligible, GxP-ready from day one
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Analytics-ready downstream

Connect Benchling data to Snowflake, Databricks, or custom pipelines

  • No manual exports, no CSVs — governed data flows directly to analytics
  • AI agents query Benchling metadata and S3 data in a single MCP tool call
  • Quilt indexes the relationship between Benchling entities and S3 objects
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Why Benchling labs choose Quilt

Query by Benchling entity ID

Type a study ID, sample ID, or experiment name. Quilt returns every associated raw data file from S3 — FACS data, sequencing runs, imaging output — without navigating folder trees.

Benchling permissions govern access
Quilt maps Benchling project membership to package-level access controls. When a scientist changes programs in Benchling, their Quilt data access updates automatically. No separate ACL management.
Downstream analytics-ready
Connect governed Benchling data to Snowflake, Databricks, or custom pipelines. No manual exports, no CSVs. AI agents query Benchling metadata and S3 data in a single MCP tool call.

How Quilt extends your Benchling investment

Bi-Directional Sync

Automatic ingestion of Benchling entities, results, and notebook data into governed Quilt packages. Push curated datasets back to Benchling workflows.


Sync runs on a schedule or on-demand — your choice.

Governed Data Layer
Every dataset Benchling generates gets full version history, metadata, and audit trail in Quilt.

Deployed in your VPC alongside Benchling — no data leaves your perimeter.
MCP for AI Agents

Quilt's MCP server lets Claude, Cursor, and custom AI agents query Benchling metadata and S3 data in one tool call. Scientists ask questions in natural language; agents return governed data.

Benchling labs running Quilt

Weeks to minutes on data accessResilience
Resilience, Director of Digital R&D

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3x faster NGS analysisTessera
Tessera Therapeutics

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A unified home for research dataEntact Bio
Entact Bio

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