The Thermal Denaturation of Dna in the Peyrard–bishop Model

Abstract

The statistical mechanics of DNA denaturation is studied with the Morse potential. We point out that the results of Peyrard and Bishop do not correctly reflect the statistics relation <y2> ≥ <y>2, at the region of delocalized states, for the DNA interstrand separation y. The correct results are given.

Multi-Site H-Bridge Breathers in a DNA-shaped Double Strand

“…The linear equations corresponding to Eqs. (12)(13)(14)(15) for the homogeneous and symmetric system are given by: where ∆x n = x n,1 − x n,2 , ∆y n = y n,1 − y n,2 , δx n = x n,i − x n−1,i and δy n = y n,i − y n−1,i . In the symmetric equilibrium state it holds that L x n,2 = −L x n,1 =…”

“…The linear equations corresponding to Eqs. (12)(13)(14)(15) for the homogeneous and symmetric system are given by: ẍn,i = (−1) i 2 (d x n ∆x n + d y n ∆y)…”

“…The PB has been extensively studied and localized oscillating solutions (breathers) and moving localized excitations [12] have been found reflecting successfully some typical features of the DNA opening dynamics such as the magnitude of the amplitudes and the time scale of the breathing of the ''bubble'' occurring prior to thermal denaturation [2]. In addition, studies in the context of thermal denaturation have been based on the PB model incorporating a heat bath [14][15][16].…”