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Sequence-dependent thermodynamics of a coarse-grained DNA model.

Abstract:

We introduce a sequence-dependent parametrization for a coarse-grained DNA model [T. E. Ouldridge, A. A. Louis, and J. P. K. Doye, J. Chem. Phys. 134, 085101 (2011)] originally designed to reproduce the properties of DNA molecules with average sequences. The new parametrization introduces sequence-dependent stacking and base-pairing interaction strengths chosen to reproduce the melting temperatures of short duplexes. By developing a histogram reweighting technique, we are able to fit our para...

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Publication status:
Published

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Publisher copy:
10.1063/1.4754132

Authors


Ouldridge, TE More by this author
Rovigatti, L More by this author
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Journal:
The Journal of chemical physics
Volume:
137
Issue:
13
Pages:
135101
Publication date:
2012-10-05
DOI:
EISSN:
1089-7690
ISSN:
0021-9606
URN:
uuid:f31bea34-ac8b-4525-bf5c-7081eae4ba07
Source identifiers:
342583
Local pid:
pubs:342583

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