Chaotic Behaviour of Modified Hamiltonian Peyrard-Bishop-Dauxois Model on DNA System

Abstract

Abstract DNA research has involved a variety of disciplines across fields, which work complementary and supportive by using the theory, model, and experiment. Physics provides a theoretical basis that can be used for experimentation, as well as developing new physical models. This physical model can explain the nonlinear dynamics of DNA. In this study, we modified Hamiltonian Peyrard-Bishop-Dauxois (PBD) model by adding the influence of the surrounding environment namely thermal bath, in the form of time-dependent thermal friction and stochastic white noise. Both are represented through the Nosé-Hoover-Langevin (NHL) thermostat. Formulations of equation motion are obtained using analytical methods, to be solved using numerical methods. We present the numerical calculations results in phase space images to show chaotic behaviour. Furthermore, we gain an increase in chaotic patterns along with the increase in temperature. In addition, we also obtain the relationship between the distance of the base pair with temperature, especially in the denaturation process.