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Benchling Bulk DNA Assembly for High-Throughput, In Silico Combinatorial Cloning

Molecular biology research in the life sciences industry has transformed in the past couple of decades. Research workflows are now more complex and diverse, often requiring several steps. Companies have embraced this challenge by building large specialized teams that have more needs for collaboration and productivity. These teams urgently need automated sequence design and analysis tools to handle high-volume research and manage the increasing complexity of molecular biology.

Benchling’s Molecular Biology application is designed with these high-throughput and automation needs in mind. With our Bulk DNA Assembly Tool, Benchling facilitates high-throughput combinatorial cloning in silico. This tool allows users to generate multiple complex plasmid maps from DNA backbones and inserts with just a few clicks.

Please register for our webinar, High-Throughput DNA Sequence Design for Modern Molecular Biology Research, on July 12. This webinar will showcase how Benchling’s Bulk DNA Assembly tool and unified R&D platform help solve common molecular biology pain points faced by many of our clients.

Register Now


Key features of Bulk DNA Assembly include:

  • Batch assemble plasmids with several cloning options including homology and restriction digest
  • Specify multiple backbones and inserts across several “slots”
  • Select fragment size and direction
  • Validate sequence integrity in real-time during assembly
  • Receive automatic error notification when adding enzyme / homology sites
  • Generate multiple plasmids from the backbone and fragment combinations selected


Bulk DNA Assembly is a powerful combinatorial cloning tool with unparalleled benefits:

  • Speed and throughput
    Generate hundreds or thousands of complex plasmid maps in a single workflow without the need for excel or repetitive manual steps
  • Quality output
    Minimize erroneousoutput with real-time error checks and visual cues during assembly
  • Ease of use
    Get your team up and running in a matter of minutes with the simple intuitive wizard


Bulk DNA Assembly is useful for a multitude of R&D applications, some of which are listed here:

Bulk assembly applications

To learn more about Bulk DNA Assembly, check out our product tutorial. To see the feature in action and get your questions answered, join us on July 12 (11am PST/2pm EST) for our webinar: High-Throughput DNA Sequence Design for Modern Molecular Biology Research.

Register Now

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