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arXiv · 2308.06392

Automated rendering of multi-stranded DNA complexes with pseudoknots

Malgorzata Nowicka·Vinay K. Gautam·Pekka Orponen
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Abstract

We present a general method for rendering representations of multi-stranded DNA complexes from textual descriptions into 2D diagrams. The complexes can be arbitrarily pseudoknotted, and if a planar rendering is possible, the method will determine one in time which is essentially linear in the size of the textual description. (That is, except for a final stochastic fine-tuning step.) If a planar rendering is not possible, the method will compute a visually pleasing approximate rendering in quadratic time. Examples of diagrams produced by the method are presented in the paper.

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Malgorzata Nowicka, Vinay K. Gautam, Pekka Orponen. 2023-08-11. Automated rendering of multi-stranded DNA complexes with pseudoknots. https://arxiv.org/abs/2308.06392

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