Translocation time of a polymer chain through an energy gradient nanopore

Abstract

The translocation time of a polymer chain through an interaction energy gradient nanopore was studied by Monte Carlo simulations and the Fokker-Planck equation with double-absorbing boundary conditions. Both the simulation and calculation revealed three different behaviors for polymer translocation. These behaviors can be explained qualitatively from free-energy landscapes obtained for polymer translocation at different parameters. Results show that the translocation time of a polymer chain through a nanopore can be tuned by suitably designing the interaction energy gradient.

Melting of confined DNA: static and dynamic properties

“…This technique also allows us to calculate the free energy of the bubble, which eventually provides the first passage time of bubble closing from the Fokker-Planck equation. 31,32 Here, the simple lattice model captures the essential physics of bubble closing.…”