Session V43: Focus Session: Translocation Through Nanopores II
8:00 AM–11:00 AM, Thursday, March 24, 2011
Room: A306/307
Sponsoring Units:
DPOLY DBP
Chair: Johan Dubbeldam, Delft University of Technology, Netherlands
Abstract ID: BAPS.2011.MAR.V43.12
Abstract: V43.00012 : Incremental Mean First Passage Analysis of Unbiased Polymer Translocation
10:36 AM–10:48 AM
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Abstract 
Authors:
Gary W. Slater
(University of Ottawa)
Hendrick W. de Haan
(University of Ottawa)
To provide a measure of how translocation progresses, we have recently developed a method of mapping the process as a series of mean first passage processes of increasing displacement. Starting with a simplified, ``quasi-static'' model of translocation, exact numerical and analytic calculations using this Incremental Mean First Passage Time (IMFPT) approach yield insight into the robustness of the scaling of the translocation time \textit{$\tau $} with polymer length $N$ given by \textit{$\tau $}$\sim N^{2}$ as predicted in early theoretical studies of translocation. This approach reveals fundamental differences in the dynamics between absorbing and reflective boundary conditions when only one monomer is in the pore - both experimentally relevant scenarios. IMFPT is also applied to Langevin Dynamics simulations of a full polymer to test the impact of including features neglected in the simplified model. While the scaling for much of the process is now $\tau \sim N^{2.2}$ due to internal degrees of freedom, the exponent as measured by only the net translocation time is shown to depend greatly on the details of the simulation setup as a result of non-equilibrium effects.
To cite this abstract, use the following reference: http://meetings.aps.org/link/BAPS.2011.MAR.V43.12