No Arabic abstract
We investigate the statistics of encounters of a diffusing particle with different subsets of the boundary of a confining domain. The encounters with each subset are characterized by the boundary local time on that subset. We extend a recently proposed approach to express the joint probability density of the particle position and of its multiple boundary local times via a multi-dimensional Laplace transform of the conventional propagator satisfying the diffusion equation with mixed Robin boundary conditions. In the particular cases of an interval, a circular annulus and a spherical shell, this representation can be explicitly inverted to access the statistics of two boundary local times. We provide the exact solutions and their probabilistic interpretation for the case of an interval and sketch their derivation for two other cases. We also obtain the distributions of various associated first-passage times and discuss their applications.
We study a stochastic process $X_t$ related to the Bessel and the Rayleigh processes, with various applications in physics, chemistry, biology, economics, finance and other fields. The stochastic differential equation is $dX_t = (nD/X_t) dt + sqrt{2D} dW_t$, where $W_t$ is the Wiener process. Due to the singularity of the drift term for $X_t = 0$, different natures of boundary at the origin arise depending on the real parameter $n$: entrance, exit, and regular. For each of them we calculate analytically and numerically the probability density functions of first-passage times or first-exit times. Nontrivial behaviour is observed in the case of a regular boundary.
In noisy environments such as the cell, many processes involve target sites that are often hidden or inactive, and thus not always available for reaction with diffusing entities. To understand reaction kinetics in these situations, we study the first hitting time statistics of a Brownian particle searching for a target site that switches stochastically between visible and hidden phases. At high crypticity, an unexpected rate limited power-law regime emerges for the first hitting time density, which markedly differs from the classic $t^{-3/2}$ scaling for steady targets. Our problem admits an asymptotic mapping onto a mixed, or Robin, boundary condition. Similar results are obtained with non-Markov targets and particles diffusing anomalously.
We investigate the voltage-driven transport of hybridized DNA through membrane channels. As membrane channels are typically too narrow to accommodate hybridized DNA, the dehybridization of the DNA is the critical rate limiting step in the transport process. Using a two-dimensional stochastic model, we show that the dehybridization process proceeds by two distinct mechanisms; thermal denaturation in the limit of low driving voltage, and direct stripping in the high to moderate voltage regime. Additionally, we investigate the effects of introducing non-homologous defects into the DNA strand.
With nontrivial entropy production, first passage process is one of the most common nonequilibrium process in stochastic thermodynamics. Using one dimensional birth and death precess as a model framework, approximated expressions of mean first passage time (FPT), mean total number of jumps (TNJ), and their coefficients of variation (CV), are obtained for the case far from equilibrium. Consequently, uncertainty relations for FPT and TNJ are presented. Generally, mean FPT decreases exponentially with entropy production, while mean TNJ decreases exponentially first and then tends to a starting site dependent limit. For forward biased process, the CV of TNJ decreases exponentially with entropy production, while that of FPT decreases exponentially first and then tends to a starting site dependent limit. For backward biased process, both CVs of FPT and TNJ tend to one for large absolute values of entropy production. Related properties about the case of equilibrium are also addressed briefly for comparison.
We derive an approximate but fully explicit formula for the mean first-passage time (MFPT) to a small absorbing target of arbitrary shape in a general elongated domain in the plane. Our approximation combines conformal mapping, boundary homogenisation, and Fick-Jacobs equation to express the MFPT in terms of diffusivity and geometric parameters. A systematic comparison with a numerical solution of the original problem validates its accuracy when the starting point is not too close to the target. This is a practical tool for a rapid estimation of the MFPT for various applications in chemical physics and biology.