A General Design Method for Scaffold-Free DNA Wireframe Nanostructures
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A4 Artikkeli konferenssijulkaisussa
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Date
2024
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Language
en
Pages
12
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Unconventional Computation and Natural Computation - 21st International Conference, UCNC 2024, Proceedings, pp. 178-189, Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) ; Volume 14776 LNCS
Abstract
In the area of DNA nanotechnology, approaches to composing wireframe nanostructures exclusively from short oligonucleotides, without a coordinating long scaffold strand, have been proposed by Goodman et al. (2004) and Wang et al. (2019). We present a general design method that extends these special cases to arbitrary wireframes, in the sense of graphs linearly embedded in 2D or 3D space. The method works in linear time in the size of the given wireframe model and is already available for use in the online design tool DNAforge. We also interpret the method in terms of topological graph embeddings, which opens up further research opportunities in developing this design approach.Description
Publisher Copyright: © The Author(s), under exclusive license to Springer Nature Switzerland AG 2024.
Keywords
cycle covers, DNA origami, DNA wireframes, scaffold-free nanostructure design, strong anti-parallel traces, topological graph embeddings
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Citation
Elonen, A, Mohammed, A & Orponen, P 2024, A General Design Method for Scaffold-Free DNA Wireframe Nanostructures . in D-J Cho & J Kim (eds), Unconventional Computation and Natural Computation - 21st International Conference, UCNC 2024, Proceedings . Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 14776 LNCS, Springer, pp. 178-189, International Conference on Unconventional Computation and Natural Computation, Pohang, Korea, Republic of, 17/06/2024 . https://doi.org/10.1007/978-3-031-63742-1_13