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Fluctuating bond model of DNA gel electrophoresis
Author(s) -
Schönherr Götz,
Noolandi Jaan
Publication year - 1991
Publication title -
electrophoresis
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.666
H-Index - 158
eISSN - 1522-2683
pISSN - 0173-0835
DOI - 10.1002/elps.1150120609
Subject(s) - monte carlo method , random walk , statistical physics , brownian dynamics , brownian motion , persistence length , dna , biological system , hybrid monte carlo , dynamic monte carlo method , acceleration , lattice (music) , algorithm , computer science , physics , molecule , markov chain monte carlo , biology , mathematics , genetics , classical mechanics , statistics , quantum mechanics , acoustics
We present a Monte Carlo algorithm that allows a small length scale numerical study of DNA gel electrophoresis in high electric fields, similar to the fluctuating bond model for dynamical properties of polymeric systems. This approach combines advantages of lattice Monte Carlo method with those from continuous Brownian dynamics algorithms, and also takes into account the persistence length of DNA, as well as the random nature of the gel. The initial orientation and acceleration of a random‐walk DNA conformation shows a number of features that can be related to experimental results. The detailed description of DNA motion provided by this approach may lead to a first realistic computer study of the process of DNA sequencing.