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Coarse-graining DNA for simulations of DNA nanotechnology.

Authors :
Doye JP
Ouldridge TE
Louis AA
Romano F
Šulc P
Matek C
Snodin BE
Rovigatti L
Schreck JS
Harrison RM
Smith WP
Source :
Physical chemistry chemical physics : PCCP [Phys Chem Chem Phys] 2013 Dec 21; Vol. 15 (47), pp. 20395-414. Date of Electronic Publication: 2013 Oct 11.
Publication Year :
2013

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.

Details

Language :
English
ISSN :
1463-9084
Volume :
15
Issue :
47
Database :
MEDLINE
Journal :
Physical chemistry chemical physics : PCCP
Publication Type :
Academic Journal
Accession number :
24121860
Full Text :
https://doi.org/10.1039/c3cp53545b