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

Abstract

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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• Through the Eye of the Needle: Recent Advances in Understanding Biopolymer Translocation
• Polymer Translocation Dynamics in the Quasi-Static Limit
• Driven translocation of a polymer: fluctuations at work
• Driven polymer translocation through a cylindrical nanochannel: Interplay between the channel length and the chain length
• Pore-polymer interaction reveals non-universality in forced polymer translocation
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• Driven polymer translocation in good and bad solvent: effects of hydrodynamics and tension propagation
• Reducing the variance in the translocation times by pre-stretching the polymer
• Polymer ejection from strong spherical confinement
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• Free Energy Evaluation in Polymer Translocation via Jarzynski Equality
• Effects of interaction between nanopore and polymer on translocation time