Exploring DNA translocation through a nanopore via a multiscale Lattice-Boltzmann Molecular-Dynamics methodology

Abstract

A multiscale approach is used to simulate the translocation of DNA through a nanopore. Within this scheme, the interactions of the molecule with the surrounding fluid (solvent) are explicitly taken into account. By generating polymers of various initial configurations and lengths we map the probability distibutions of the passage times of the DNA through the nanopore. A scaling law behavior for the most probable of these times with respect to length is derived, and shown to exhibit an exponent that is in a good agreement with the experimental findings. The essential features of the DNA dynamics as it passes through the pore are explored.

5 pages, 4 figures. to appear in International Journal of Modern Physics C

References in corpus (5)

• Fast DNA translocation through a solid-state nanopore
• Polymer Translocation througha Pore in a Membrane
• Driven Polymer Translocation Through a Narrow Pore
• Anomalous Dynamics of Forced Translocation
• Multiscale coupling of molecular dynamics and hydrodynamics: application to DNA translocation through a nanopore

Cited by in corpus (4)

• Hydrodynamic correlations in the translocation of biopolymer through a nanopore: theory and multiscale simulations
• Mesoscopic simulations at the physics-chemistry-biology interface
• Folding and unfolding of a triple-branch DNA molecule with four conformational states
• Driven polymer translocation in good and bad solvent: effects of hydrodynamics and tension propagation