Unifying model of driven polymer translocation
arXiv:1111.4782 · doi:10.1103/PhysRevE.85.051803
Abstract
We present a Brownian dynamics model of driven polymer translocation, in which non-equilibrium memory effects arising from tension propagation (TP) along the cis side subchain are incorporated as a time-dependent friction. To solve the effective friction, we develop a finite chain length TP formalism, expanding on the work of Sakaue [Sakaue, PRE 76, 021803 (2007)]. The model, solved numerically, yields results in excellent agreement with molecular dynamics simulations in a wide range of parameters. Our results show that non-equilibrium TP along the cis side subchain dominates the dynamics of driven translocation. In addition, the model explains the different scaling of translocation time w.r.t chain length observed both in experiments and simulations as a combined effect of finite chain length and pore-polymer interactions.
7 pages, 3 figures
References in corpus (10)
- Nonequilibrium dynamics of polymer translocation and straightening
- Langevin Dynamics Simulations of Polymer Translocation through Nanopores
- Driven polymer translocation through a nanopore: a manifestation of anomalous diffusion
- Dynamical Scaling Exponents for Polymer Translocation through a Nanopore
- Comment on ``Passage Times for Unbiased Polymer Translocation through a Narrow Pore''
- Pore-blockade Times for Field-Driven Polymer Translocation
- Polymer translocation through a nanopore under a pulling force
- Forced translocation of a polymer: dynamical scaling vs. MD-simulation
- Dynamics of forced biopolymer translocation
- Critical evaluation of the computational methods used in the forced polymer translocation
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- Cis-Trans Dynamical Asymmetry in Driven Polymer Translocation
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- Dynamics of end-pulled polymer translocation through a nanopore
- Ionic current inversion in pressure-driven polymer translocation through nanopores
- Chaperone-assisted translocation of flexible polymers in three dimensions
- Using a Péclet Number for the Translocation of Polymer through a Nanopore to Tune Coarse-Grained Simulations to Experimental Conditions
- Translocation of links through a pore: effects of link complexity and size
- Criteria for minimal model of driven polymer translocation
- Evaluating the Applicability of the Fokker-Planck Equation in Polymer Translocation: A Brownian Dynamics Study
- Tug-of-War in a Double-Nanopore System
- Dynamics of polymer ejection from capsid
- Quantification of tension to explain bias dependence of driven polymer translocation dynamics
- Driven polymer translocation in good and bad solvent: effects of hydrodynamics and tension propagation
- Multivalent cation induced attraction of anionic polymers by like-charged pores
- Reducing the variance in the translocation times by pre-stretching the polymer
- Polymer translocation through nanopore assisted by an environment of active rods
- Driven translocation of a semiflexible polymer through a conical channel in the presence of attractive surface interactions
- Enhanced polymer capture speed and extended translocation time in pressure-solvation traps
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- Dynamic scaling theory of the forced translocation of a semi-flexible polymer through a nanopore
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- Nonequilibrium thermodynamics of DNA nanopore unzipping
- Deconvoluting chain heterogeneities from driven translocation through a nano-pore
- Dielectric manipulation of polymer translocation dynamics in engineered membrane nanopores
- Velocity fluctuation and force scaling during driven polymer transport through a nanopore
- Ratcheting charged polymers through symmetric nanopores using pulsed fields: Designing a low pass filter for concentrating DNA
- End-pulled polymer translocation through a many-body flexible pore
- Markovian Description of Unbiased Polymer Translocation
- Electrostatics of polymer translocation events in electrolyte solutions
- Theoretical modeling of polymer translocation: From the electrohydrodynamics of short polymers to the fluctuating long polymers
- Sensing Translocating Polymers via Induced Magnetic Fields
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