Cadnano

Cadnano enables design of scaffolded DNA origami structures by routing scaffold and staple oligonucleotides to exploit base-pairing specificity for assembly of 3D honeycomb-pleated nanostructures.

Key Features:

• Honeycomb-pleated lattice design: Supports design of pleated layers of double helices constrained to a honeycomb lattice to build 3D honeycomb-pleated shapes.
• Modular rectangular-block motifs: Enables design, assembly, and analysis of rectangular-block motifs to identify well-behaved building blocks.
• Staple–scaffold routing for cross-linked helices: Routes hundreds of oligonucleotide staple strands onto a long scaffold strand to form planar antiparallel arrays of cross-linked helices.
• Megadalton-scale scaffolded DNA origami: Facilitates construction of megadalton-scale DNA nanostructures through scaffolded DNA origami methods.
• Exploitation of base-pairing specificity: Uses programmed base-pairing interactions between scaffold and staple oligonucleotides to define self-assembly.

Scientific Applications:

• DNA nanotechnology: Enables production of megadalton-scale DNA nanostructures using scaffolded DNA origami approaches.
• Custom shape assembly: Supports templating hundreds of staple oligonucleotides onto a scaffold to produce planar antiparallel arrays of cross-linked helices that can be manipulated into 3D shapes.

Methodology:

Cadnano employs a scaffolded DNA origami approach in which a long scaffold strand templates the assembly of staple strands, producing pleated layers of double helices constrained to a honeycomb lattice.