ArticleJACS Au2025
SNUPI: A Computational Framework for Rapid Mechanical Analysis of Structured DNA Assemblies.
Article in JACS Au, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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Abstract
Structural DNA nanotechnology enables the programmable construction of nano- to microscale assemblies with high resolution, yet predicting their mechanical behavior prior to synthesis remains challenging. In this paper, we introduce SNUPI, a computational framework that predicts the shape and mechanical responses of structured DNA assemblies using finite element-based analysis. SNUPI uses design files from caDNAno and performs static analysis, normal-mode analysis, and Langevin dynamics simulations to evaluate equilibrium configurations, dominant deformation modes, thermal fluctuations, and intercalator-induced effects. We demonstrate that SNUPI can offer an efficient and accessible platform for pre- and postsynthetic evaluation, facilitating rational design and analysis of complex DNA architectures.
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