The oxDNA coarse-grained model as a tool to simulate DNA origami

Jonathan P. K. Doye; Hannah Fowler; Domen Prešern; Joakim Bohlin; Lorenzo Rovigatti; Flavio Romano; Petr Šulc; Chak Kui Wong; Ard A. Louis; John S. Schreck; Megan C. Engel; Michael Matthies; Erik Benson; Erik Poppleton; Benedict E. K. Snodin

doi:10.1007/978-1-0716-3028-0_6

The oxDNA coarse-grained model as a tool to simulate DNA origami

Soft Condensed Matter 2025-07-28 v1 Mesoscale and Nanoscale Physics

Authors: Jonathan P. K. Doye , Hannah Fowler , Domen Prešern , Joakim Bohlin , Lorenzo Rovigatti , Flavio Romano , Petr Šulc , Chak Kui Wong , Ard A. Louis , John S. Schreck , Megan C. Engel , Michael Matthies , Erik Benson , Erik Poppleton , Benedict E. K. Snodin

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Abstract

This chapter introduces how to run molecular dynamics simulations for DNA origami using the oxDNA coarse-grained model.

Keywords

oxdna coarse-grained model dna origami molecular dynamics

Cite

@article{arxiv.2004.05052,
  title  = {The oxDNA coarse-grained model as a tool to simulate DNA origami},
  author = {Jonathan P. K. Doye and Hannah Fowler and Domen Prešern and Joakim Bohlin and Lorenzo Rovigatti and Flavio Romano and Petr Šulc and Chak Kui Wong and Ard A. Louis and John S. Schreck and Megan C. Engel and Michael Matthies and Erik Benson and Erik Poppleton and Benedict E. K. Snodin},
  journal= {arXiv preprint arXiv:2004.05052},
  year   = {2025}
}

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17 pages, 5 figures

The oxDNA coarse-grained model as a tool to simulate DNA origami

Abstract

Keywords

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