Simple Combined Model for Nonlinear Excitations in DNA

Abstract

We propose a new simple model for DNA denaturation bases on the pendulum model of Englander\cite{A1} and the microscopic model of Peyrard {\it et al.},\cite{A3} so called "combined model". The main parameters of our model are: the coupling constant $k$ along each strand, the mean stretching $y^{\ast }$ of the hydrogen bonds, the ratio of the damping constant and driven force $\gamma /F$. We show that both the length $L$ of unpaired bases and the velocity $v$ of kinks depend on not only the coupling constant $k$ but also the temperature $T$. Our results are in good agreement with previous works.

6 pages, 10 figures, submitted to Phys. Rev. E

References in corpus (11)

• Thermal denaturation of an helicoidal DNA model
• Can one predict DNA Transcription Start Sites by studying bubbles?
• Bubble Statistics and Dynamics in Double-Stranded DNA
• A composite model for DNA torsion dynamics
• Thermodynamic instabilities in one dimension: correlations, scaling and solitons
• Nonlinear structures and thermodynamic instabilities in a one-dimensional lattice system
• Lengthscales and Cooperativity in DNA Bubble Formation
• Soliton pinning by long-range order in aperiodic systems
• Nonlinear excitations in DNA: Aperiodic models vs actual genome sequences
• Comment on "Can one predict DNA Transcription Start Sites by Studying Bubbles?"
• On the discrete Peyrard-Bishop model of DNA: stationary solutions and stability

Cited by in corpus (3)

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