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Reference: Doye, JP, Ouldridge, TE, Louis, AA et al., (2013). Coarse-graining DNA for simulations of DNA nanotechnology. Physical chemistry chemical physics : PCCP, 15 (47), 20395-20414.Citable link to this page:


Coarse-graining DNA for simulations of DNA nanotechnology.

Abstract: To simulate long time and length scale processes involving DNA it is necessary to use a coarse-grained description. Here we provide an overview of different approaches to such coarse-graining, focussing on those at the nucleotide level that allow the self-assembly processes associated with DNA nanotechnology to be studied. OxDNA, our recently-developed coarse-grained DNA model, is particularly suited to this task, and has opened up this field to systematic study by simulations. We illustrate some of the range of DNA nanotechnology systems to which the model is being applied, as well as the insights it can provide into fundamental biophysical properties of DNA.

Peer Review status:Peer reviewedPublication status:Published Funder: Engineering and Physical Sciences Research Council   Funder: German Academic Exchange Service   Funder: European Research Council   Notes:20 pages, 9 figuresNotes:This journal is © the Owner Societies 2013.

Bibliographic Details

Publisher: RSC Publishing

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Publisher Website:

Journal: Physical chemistry chemical physics : PCCPsee more from them

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Issue Date: 2013-12


Urn: uuid:21cd4a42-e25c-4d79-aed3-5f88a8c58751

Source identifier: 418298

Eissn: 1463-9084


Issn: 1463-9076 Item Description

Type: Journal article;

Language: eng Keywords: Biophysics DNA Nanobiotechnology Nucleotides OxDNA Self-assembly (Chemistry) Simulation methodsSubjects: Biophysics Nano-biotechnology Tiny URL: pubs:418298


Autor: Doye, JP - - - Ouldridge, TE - - - Louis, AA - institutionUniversity of Oxford Oxford, MPLS, Physics, Theoretical Physics - - - R



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