Polymer translocation: the first two decades and the recent diversification

VV Palyulin, T Ala-Nissila, R Metzler - Soft matter, 2014 - pubs.rsc.org
Probably no other field of statistical physics at the borderline of soft matter and biological
physics has caused such a flurry of papers as polymer translocation since the 1994 …

Polymer translocation and nanopore sequencing: a review of advances and challenges

SL Singh, K Chauhan, AS Bharadwaj… - International Journal of …, 2023 - mdpi.com
Various biological processes involve the translocation of macromolecules across
nanopores; these pores are basically protein channels embedded in membranes …

Single-polymer dynamics under constraints: scaling theory and computer experiment

A Milchev - Journal of Physics: Condensed Matter, 2011 - iopscience.iop.org
The relaxation, diffusion and translocation dynamics of single linear polymer chains in
confinement is briefly reviewed with emphasis on the comparison between theoretical …

Influence of polymer-pore interactions on translocation

K Luo, T Ala-Nissila, SC Ying, A Bhattacharya - Physical Review Letters, 2007 - APS
We investigate the influence of polymer-pore interactions on the translocation dynamics
using Langevin dynamics simulations. An attractive interaction can greatly improve the …

Nanopore sensing: A physical-chemical approach

JWF Robertson, ML Ghimire, JE Reiner - Biochimica et Biophysica Acta …, 2021 - Elsevier
Protein nanopores have emerged as an important class of sensors for the understanding of
biophysical processes, such as molecular transport across membranes, and for the …

Unifying model of driven polymer translocation

T Ikonen, A Bhattacharya, T Ala-Nissila, W Sung - Physical Review E …, 2012 - APS
We present a Brownian dynamics model of driven polymer translocation, in which
nonequilibrium memory effects arising from tension propagation (TP) along the cis side …

Sequence dependence of DNA translocation through a nanopore

K Luo, T Ala-Nissila, SC Ying, A Bhattacharya - Physical Review Letters, 2008 - APS
We investigate the dynamics of DNA translocation through a nanopore using 2D Langevin
dynamics simulations, focusing on the dependence of the translocation dynamics on the …

Modeling the separation of macromolecules: A review of current computer simulation methods

GW Slater, C Holm, MV Chubynsky… - …, 2009 - Wiley Online Library
Abstract Theory and numerical simulations play a major role in the development of improved
and novel separation methods. In some cases, computer simulations predict counterintuitive …

Force-driven polymer translocation through a nanopore: An old problem revisited

P Rowghanian, AY Grosberg - The Journal of Physical Chemistry …, 2011 - ACS Publications
We consider DNA translocation through a pore in a planar membrane. The pore is so narrow
that only one DNA segment can fit in. Assuming that the biasing force f acts inside the pore …

Influence of non-universal effects on dynamical scaling in driven polymer translocation

T Ikonen, A Bhattacharya, T Ala-Nissila… - The Journal of chemical …, 2012 - pubs.aip.org
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 …