Validated Bundled Applicaton

Nucleic Acid Cleanup Workstation

Validated Bundled Applicaton

Nucleic Acid Cleanup Workstation

Get everything you need for Size Selection Cleanup and get started right away. Easy - and affordable - automated cleanups.

The Nucleic Acid Cleanup Workstation includes the OT-2 lab robot, labware, and consumables.

Cleanup Workstation


Order Workstation


<$1 / sample

order consumables


Size selection cleanups using SPRI (solid-phase reversible immobilization) magnetic beads are one of the most common and painstaking processes done by modern molecular biology labs.

Anytime a PCR product is used in sensitive downstream processes like gene assembly or next-generation sequencing (NGS), labs must go through multiple, time- and labor-intensive bead washing steps. The Opentrons Nucleic Acid Cleanup Workstation is designed to automate your bead cleanups for you.

This bundle includes everything you need to start automating SPRI bead cleanups in your lab: the robot with magnetic module, correct labware, beads from Omega Bio-tek, and a validated protocol free to customize and download.

This workflow can be used for the following applications:

  • PCR Product Purification
  • NGS Library Clean-up
  • Any other bead-based size selection


Simply load your reagents, hit 'run,' and let the robot do your cleanups.

  • Fully automated cleanup
  • <$1 / purification
  • 96 purifications in 1.5 hours
  • <15 min hands-on prep

Closeup of beads pelleting on the OT-2 magnetic module


This application has been fully tested and scientifically verified with reagent partners Swift Biosciences and Omega Bio-tek.

View our technical note outlining the validation process here.

You can also use any SPRI beads you already have using this generic protocol.

Cost and time per sample

Purifcation of 20 µL of indexed 16S Metagenomic and ladder samples with 1X and 1.8X bead volumes to show OT-2 size selection on Agilent TapeStation High Sensitivity D1000 ScreenTape®


Step 1

Select your protocol

Input sample number and desired bead volumes, and download your validated protocol

Step 2

Calibrate & activate protocol

Put magnetic beads into 2ml tube or 96-well plates and load them on the OT-2 robot

Step 3

Activate protocol and hit "run"

Let the robot take care of your cleanups for you

Step 4

Collect purified sample

Collect your clean nucleic acids and continue your experiment



This application has been fully tested and scientifically validated in our lab with reagent partner Omega Bio-Tek. We recommend you use the Omega Bio-Tek Total-Pure NGS kit for this application. If you would like to use another kit, the OT-2 supports various kits for nucleic acid extraction.


This application has been verified with the Opentrons Cleanup Labware Bundle, which includes plates for the magnetic module, reagent reservoirs, and tubes. If you have different labware requirements, reach out to our sales team to discuss modification of this protocol to fit your needs.


This application uses the p300 single-channel or 8-channel pipettes for the OT-2 robot. If you have different volume requirements, contact our sales team to ask about protocol modification.

Customer spotlight

"I've done I don't know how many hundreds of minipreps in my life. I don't want to do another 3,000."
Nick Emery, DAMP of Boston University
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