ArticleProceedings of the National Academy of Sciences of the United States of America2024
Design principles for accurate folding of DNA origami.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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Who cites it
4 citing papers in PubMed.
- Optimising DNA origami assembly by reducing off-target interactions.Nature communications · 2026Article
- Complex cooperativity in DNA origami revealed via design-dependent defectivity.Nucleic acids research · 2026Article
- Unraveling the Folding Dynamics of DNA Origami Structures.Small (Weinheim an der Bergstrasse, Germany) · 2025Article
- Recycling Materials for Sustainable DNA Origami Manufacturing.Nano letters · 2024Article
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4 authors.
Funding
Abstract
We describe design principles for accurate folding of three-dimensional DNA origami. To evaluate design rules, we reduced the problem of DNA strand routing to the known problem of shortest-path finding in a weighted graph. To score candidate DNA strand routes we used a thermodynamic model that accounts for enthalpic and entropic contributions of initial binding, hybridization, and DNA loop closure. We encoded and analyzed new and previously reported design heuristics. Using design principles emerging from this analysis, we redesigned and fabricated multiple shapes and compared their folding accuracy using electrophoretic mobility analysis and electron microscopy imaging. Redesigned shapes showed 6- to 30-fold improvements in yield compared to original designs. We demonstrate accurate folding can be achieved by optimizing staple routes using our model and provide a computational framework for applying our methodology to any design.
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