611 citations · 1.2k across the 14 of their papers we have counts for
14 papers
Polymer Escape from a Metastable Kramers potential: Path Integral Hyperdynamics Study
Jaeoh Shin, Timo Ikonen, Mahendra D. Khandkar +2
We study the dynamics of flexible, semiflexible, and self-avoiding polymer chains moving under a Kramers metastable potential. Due to thermal noise, the polymers, initially placed…
Polymer translocation under time-dependent driving forces: resonant activation induced by attractive polymer-pore interactions
Timo Ikonen, Jaeoh Shin, Tapio Ala-Nissila +1
We study the driven translocation of polymers under time-dependent driving forces using -particle Langevin dynamics simulations. We consider the force to be either sinusoidally…
Influence of non-universal effects on dynamical scaling in driven polymer translocation
Timo Ikonen, Aniket Bhattacharya, Tapio Ala-Nissila +1
We study the dynamics of driven polymer translocation using both molecular dynamics (MD) simulations and a theoretical model based on the non-equilibrium tension propagation on the…
Scaling theory of driven polymer translocation
Timo Ikonen, Aniket Bhattacharya, Tapio Ala-Nissila +1
We present a theoretical argument to derive a scaling law between the mean translocation time and the chain length for driven polymer translocation. This scaling law explic…
How a single stretched polymer responds coherently to a minute oscillation in fluctuating environments: An entropic stochastic resonance
Won Kyu Kim, Wokyung Sung
Within the cell, biopolymers are often situated in constrained, fluid environments, e.g., cytoskeletal networks, stretched DNAs in chromatin. It is of paramount importance to under…
Weak temporal signals can synchronize and accelerate the transition dynamics of biopolymers under tension
Won Kyu Kim, Changbong Hyeon, Wokyung Sung
In addition to thermal noise, which is essential to promote conformational transitions in biopolymers, cellular environment is replete with a spectrum of athermal fluctuations that…
Effects of static and temporally fluctuating tensions on semiflexible polymer looping
Jaeoh Shin, Wokyung Sung
Biopolymer looping is a dynamic process that occurs ubiquitously in cells for gene regulation, protein folding, etc. In cellular environments, biopolymers are often subject to tens…
Unifying model of driven polymer translocation
Timo Ikonen, Aniket Bhattacharya, Tapio Ala-Nissila +1
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…
How dsDNA breathing enhances its flexibility and instability on short length scales
O-chul Lee, Jae-Hyung Jeon, Wokyung Sung
We study the unexpected high flexibility of short dsDNA which recently has been reported by a number of experiments. Via the Langevin dynamics simulation of our Breathing DNA model…
Stochastic Resonance of a Flexible Chain Crossing over a Barrier
Mesfin Asfaw, Wokyung Sung
We study the stochastic resonance (SR) of a flexible polymer surmounting a bistable-potential barrier. Due to the flexibility that can enhance crossing rate and change chain confor…
Statistical Mechanics of Membrane Protein Conformation: A Homopolymer Model
Pyeong Jun Park, W. Sung
The conformation and the phase diagram of a membrane protein are investigated via grand canonical ensemble approach using a homopolymer model. We discuss the nature and pathway of…
Polymer translocation induced by adsorption
Pyeong Jun Park, Wokyung Sung
We study the translocation of a flexible polymer through a pore in a membrane induced by its adsorption on \trans side of the membrane. When temperature is higher than , t…
Polymer Release out of a Spherical Vesicle through a Pore
Pyeong Jun Park, Wokyung Sung
Translocation of a polymer out of curved surface or membrane is studied via mean first passage time approach. Membrane curvature gives rise to a constraint on polymer conformation,…
Polymer Translocation througha Pore in a Membrane
W. Sung, P. J. Park
We construct a new statistical physical model of polymer translocation through a pore in a membrane treated as the diffusion process across a free energy barrier. We determine the…