Stochastic approach to DNA breathing dynamics

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Abstract

We propose a stochastic Gillespie scheme to describe the temporal fluctuations of local denaturation zones in double-stranded DNA as a single-molecule time series. It is demonstrated that the model recovers the equilibrium properties. We also study measurable dynamical quantities such as the bubble size autocorrelation function. This efficient computational approach will be useful to analyse in detail recent single-molecule experiments on clamped homopolymer breathing domains, to probe the parameter values of the underlying Poland-Scheraga model, as well as to design experimental conditions for similar setups.

Detaljer

Författare
Externa organisationer
  • Nordic Institute for Theoretical Atomic Physics (NORDITA)
Forskningsområden

Ämnesklassifikation (UKÄ) – OBLIGATORISK

  • Annan fysik
Originalspråkengelska
Sidor (från-till)852-858
TidskriftEurophysics Letters
Volym71
Utgåva nummer5
StatusPublished - 2005 sep 1
PublikationskategoriForskning
Peer review utfördJa
Externt publiceradJa