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Sequence sensitivity of breathing dynamics in heteropolymer DNA

Tobias Ambjornsson·Suman K. Banik·Oleg Krichevsky·Ralf Metzler
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Abstract

We study the fluctuation dynamics of localized denaturation bubbles in heteropolymer DNA with a master equation and complementary stochastic simulation based on novel DNA stability data. A significant dependence of opening probability and waiting time between bubble events on the local DNA sequence is revealed and quantified for a biological sequence of the T7 bacteriophage. Quantitative agreement with data from fluorescence correlation spectroscopy (FCS) is demonstrated.

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Tobias Ambjornsson, Suman K. Banik, Oleg Krichevsky, Ralf Metzler. 2006-08-24. Sequence sensitivity of breathing dynamics in heteropolymer DNA. https://doi.org/10.1103/physrevlett.97.128105

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