Physics Department of Bu-Ali Sina University
In our research group we are working on the following subjects:
A 1D totally asymmetric exclusion process consisting of classical particles with next-nearest-neighbor interactions has been considered on a discrete lattice with a ring geometry. Using large deviation techniques, we have investigated fluctuations of particle current in the system. In the two-particle sector, we have obtained the large deviation function of the particle current. In this sector, we have also found the effective potential that the particles experience when an atypical particle current is generated. Numerical results in the three-particle sector have also been presented.
It is well established that gene expression can be modeled as a Markovian stochastic process and hence proper observables might be subjected to large fluctuations and rare events. Since dynamics is often more than statics, one can work with ensembles of trajectories for long but fixed times, instead of states or configurations, to study dynamics of these Markovian stochastic processes and glean more information. In this paper we aim to show that the concept of ensemble of trajectories can be applied to a variety of stochastic models of gene expression and hence, apart from asymptotic behavior of remote tails of probability distributions of the dynamical observables, generating functions for the cumulants of these observables can easily be obtained. We start with the simplest stochastic model of gene expression and then extend our approach to more sophisticated and yet more realistic models.
College of basic sceinces, Physics department, Shahid Mostafa Ahmadi
Roshan Street, Hamedan, Iran