Nonlinear dynamics of modified peyrard-bishop DNA model in nosé-hoover thermostat

Abstract

Abstract In this study, we investigate the viscous effect by adding solvent potential into Hamiltonian Peyrard-Bishop DNA model. The dynamics of the modified Peyrard-Bishop DNA model is also considered in time-dependent thermal friction, namely Nose-Hoover Thermostat. Equation of motion formulate by using an analytical method, then solved using a numerical method. We show the pattern of phase space diagrams of the DNA dynamics in each variation of viscous and temperature, the movement of base pairs at a specific temperature, and the thermostat’s energy fluctuation that affects DNA dynamics.