Tracer dynamics in a single-file system with absorbing boundary.

The paper addresses the single-file diffusion in the presence of an absorbing boundary. The emphasis is on an interplay between the hard-core interparticle interaction and the absorption process. The resulting dynamics exhibits several qualitatively new features.

Unfolding kinetics of periodic DNA hairpins.

DNA hairpin molecules with periodic base sequences can be expected to exhibit a regular coarse-grained free energy landscape (FEL) as a function of the number of open base pairs and applied mechanical force. Using a commonly employed model, we first analyze for which types of sequences a particularly simple landscape structure is predicted, where forward and backward energy barriers between partly unfolded states are decreasing linearly with force. Stochastic unfolding trajectories for such molecules with simple FEL are subsequently generated by kinetic Monte Carlo simulations.

Survival of interacting Brownian particles in crowded one-dimensional environment.

We investigate a diffusive motion of a system of interacting Brownian particles in quasi-one-dimensional micropores. In particular, we consider a semi-infinite 1D geometry with a partially absorbing boundary and the hard-core inter-particle interaction. Due to the absorbing boundary the number of particles in the pore gradually decreases.

Single-file diffusion of externally driven particles.

We study one-dimensional diffusion of N hard-core interacting Brownian particles driven by the space- and time-dependent external force. We give the exact solution of the N-particle Smoluchowski diffusion equation. In particular, we investigate the nonequilibrium energetics of two interacting particles under the time-periodic driving.

Diffusion process with two reflecting barriers in a time-dependent potential.

We consider a Brownian particle which is driven by a harmonically oscillating force, the motion of which is restricted by two reflecting boundaries. We solve the Fokker-Planck equation using the finite-element method and focus on the dynamics of the mean position of the particle in the time-asymptotic regime. As a function of the strength of the external force, the response of the system, i.

Probability distribution of work done on a two-level system during a nonequilibrium isothermal process.

We present an exact calculation of the probability density for the work done by an external agent on a two-level system. Due to the external drive, both the transition rates between the two states and their energies depend on time. Within this setting we calculate the probability of every possible sample path of the system evolution and also the work done along any such path.

Glass transition in a simple stochastic model with back-reaction.

We formulate and solve a model of dynamical arrest in colloids. A particle is coupled to the bath of statistically identical particles. The dynamics is described by Langevin equation with stochastic external force described by telegraphic noise.

Analysis of stochastic resonances.

We investigate the one-dimensional diffusion of a particle in a piecewise linear potential superimposed with a step of a harmonically modulated height. Employing the matching conditions, we solve the corresponding Fokker-Planck equation and we analyze nonlinear features of the particle's mean position as a function of time. We present detailed results in two physically relevant cases.