Volume 83, Number 4, August 2008
|Number of page(s)||6|
|Section||Interdisciplinary Physics and Related Areas of Science and Technology|
|Published online||19 August 2008|
A generalized Langevin formalism of complete DNA melting transition
Department of Biotechnology and Biochemical Engineering, Indian Institute of Technology - Kharagpur-721302, India
2 Department of Mechanical Engineering, Indian Institute of Technology - Kharagpur-721302, India
Corresponding author: email@example.com
Accepted: 2 July 2008
Melting transition of double-stranded oligonucleotide sequences, in contact with a Langevin fluctuation-dissipation thermal bath, is investigated. A general framework for studying stochastic phase transitions in single dimension is developed for realistic regimes of temperatures, by postulating base pair separation-dependent damping characteristics in the Langevin formalism. Close agreements are obtained between the simulation predictions and the experimental results for heterogeneous DNA sequences having a wide range of sequence lengths, without incurring any sequence-specific tuning of the conventional Peyrard-Bishop-Dauxois model. Certain universal characteristics of the free energy parameters of melting transition are also discovered, with a power law form of temperature dependence.
PACS: 87.14.gk – DNA / 05.10.Gg – Stochastic analysis methods (Fokker-Planck, Langevin, etc.) / 87.15.A- – Theory, modeling, and computer simulation
© EPLA, 2008
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