Abstract
Modelling DNA is useful for understanding its properties better but it is also challenging because many of these properties involve hundreds of base pairs or more, or time scales which are much longer than the time scales accessible to molecular dynamics. It is therefore necessary to develop models at a mesoscale, which include enough details to describe the properties of interest, for instance the biological sequence, while staying sufficiently simple and realistic.
We discuss here two examples: a dynamical model to study the mechanical denaturation of DNA, which probes the sequence on various scales, and a model for the self assembly of DNA which describes the formation of hairpins and allows us to study its kinetics.
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Cuesta-López, S., Errami, J., Falo, F. et al. Can We Model DNA at the Mesoscale?. J Biol Phys 31, 273–301 (2005). https://doi.org/10.1007/s10867-005-3244-3
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DOI: https://doi.org/10.1007/s10867-005-3244-3