Langevin dynamics simulations of polymer translocation through nanopores

Langevin dynamics simulations of polymer translocation through nanopores.

We investigate the dynamics of polymer translocation through a nanopore using two-dimensional Langevin dynamics simulations. In the absence of an external driving force, we consider a polymer which is initially placed in the middle of the pore and study the escape time tau(e) required for the polymer to completely exit the pore on either side. The distribution of the escape times is wide and ha...

Dynamics of polymer translocation through nanopores: theory meets experiment.

The dynamics of translocation of polymer molecules through nanopores is investigated via molecular dynamics. We find that an off-lattice minimalist model of the system is sufficient to reproduce quantitatively all the experimentally observed trends and scaling behavior. Specifically, simulations show (i) two translocation regimes depending on the ratio of pore and polymer length, (ii) two diffe...

Simulations of DNA translocation through nanopores

Ionic current inversion in pressure-driven polymer translocation through nanopores.

We predict streaming current inversion with multivalent counterions in hydrodynamically driven polymer translocation events from a correlation-corrected charge transport theory including charge fluctuations around mean-field electrostatics. In the presence of multivalent counterions, electrostatic many-body effects result in the reversal of the DNA charge. The attraction of anions to the charge...

Dynamics of Langevin Simulations

This chapter reviews numerical simulations of quantum field theories based on stochastic quantization and the Langevin equation. The topics discussed include renormalization of finite stepsize algorithms, Fourier acceleration, and the relation of the Langevin equation to hybrid stochastic algorithms and hybrid Monte Carlo. Invited chapter to appear in the special supplement “Stochastic Quantiza...