Critical evaluation of the computational methods used in the forced polymer translocation

Details Critical evaluation of the computational methods used in the forced polymer translocation Critical evaluation of the computational methods used in the forced polymer translocation

2008-06-19

arxiv.org/abs/0806.3178v3

Physics

Biological Physics

Scientific paper

10.1103/PhysRevE.78.061803

In forced polymer translocation, the average translocation time, $\tau$, scales with respect to pore force, $f$, and polymer length, $N$, as $\tau \sim f^{-1} N^{\beta}$. We demonstrate that an artifact in Metropolis Monte Carlo method resulting in breakage of the force scaling with large $f$ may be responsible for some of the controversies between different computationally obtained results and also between computational and experimental results. Using Langevin dynamics simulations we show that the scaling exponent $\beta \le 1 + \nu$ is not universal, but depends on $f$. Moreover, we show that forced translocation can be described by a relatively simple force balance argument and $\beta$ to arise solely from the initial polymer configuration.

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