Scholarlink

<p>Crisscross polymerization enables the assembly of hundreds of unique DNA origami ‘slats’ into micron-sized structures with nanoscale precision. To design these megastructures, thousands of handle sequences from a fixed library must be assigned to individual slats to encode the desired binding architecture. This complexity presents two major challenges: handles must be selected to minimize parasitic interactions that compete with desired assembly, and the fabrication of hundreds of unique slats creates a substantial logistical burden. Here, we develop a unified framework that standardizes the design and fabrication of crisscross megastructures. We use an evolutionary algorithm to optimize handle assignment and minimize parasitic binding between slats. Together with an expanded handle library, the algorithm enables the assembly of large, multi-layered megastructures that otherwise would be produced at negligible yields. We have released this framework as #-CAD, an open-source graphical application that integrates these algorithms, streamlines laboratory workflows, and makes crisscross DNA origami more broadly accessible.</p>

错误：搜索内容不能为空，请输入英文关键词
错误：关键词超出字数限制，请精简
高级检索

A computational framework for designing micron-scale crisscross DNA megastructures

  • 期刊论文

  • 出版模式：

    开放获取

  • 发表日期：

    2026年7月17日

查看全文
  • Matthew Aquilina,
  • Florian Katzmeier,
  • Minke A. D. Nijenhuis,
  • Siyuan Stella Wang,
  • Corey Becker,
  • Yichen Zhao,
  • Su Hyun Seok,
  • Julie Finkel,
  • Huangchen Cui,
  • Jaewon Lee,
  • Seungwoo Lee,
  • William M. Shih

摘要

Crisscross polymerization enables the assembly of hundreds of unique DNA origami ‘slats’ into micron-sized structures with nanoscale precision. To design these megastructures, thousands of handle sequences from a fixed library must be assigned to individual slats to encode the desired binding architecture. This complexity presents two major challenges: handles must be selected to minimize parasitic interactions that compete with desired assembly, and the fabrication of hundreds of unique slats creates a substantial logistical burden. Here, we develop a unified framework that standardizes the design and fabrication of crisscross megastructures. We use an evolutionary algorithm to optimize handle assignment and minimize parasitic binding between slats. Together with an expanded handle library, the algorithm enables the assembly of large, multi-layered megastructures that otherwise would be produced at negligible yields. We have released this framework as #-CAD, an open-source graphical application that integrates these algorithms, streamlines laboratory workflows, and makes crisscross DNA origami more broadly accessible.