Periodically driven DNA: Theory and simulation

Abstract

We propose a generic model of driven DNA under the influence of an oscillatory force of amplitude $F$ and frequency $\nu$ and show the existence of a dynamical transition for a chain of finite length. We find that the area of the hysteresis loop, $A_{\mathrm{loop}}$, scales with the same exponents as observed in a recent study based on a much more detailed model. However, towards the true thermodynamic limit, the high-frequency scaling regime extends to lower frequencies for larger chain length $L$ and the system has only one scaling ($A_{\mathrm{loop}}\approx {\nu }^{-1}{F}^2)$. Expansion of an analytical expression for $A_{\mathrm{loop}}$ obtained for the model system in the low-force regime revealed that there is a new scaling exponent associated with force ($A_{\mathrm{loop}}\approx {\nu }^{-1}{F}^{2.5}$), which has been validated by high-precision numerical calculation. By a combination of analytical and numerical arguments, we also deduce that for large but finite $L$, the exponents are robust and independent of temperature and friction coefficient.

6 pages, 5 figures Physical Review E (2016) (R) (Accepted)

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• Hysteresis loop area scaling exponents in DNA unzipping by a periodic force: A Langevin dynamics simulation study
• Effect of grafting on the binding transition of two flexible polymers
• DNA Unzipping Transition
• Hysteresis in magnets