Related papers: A Multispecies Exclusion Model Inspired By Transcr…
In many biological systems, motile agents exhibit random motion with short-term directional persistence, together with crowding effects arising from spatial exclusion. We formulate and study a class of lattice-based models for multiple…
We use the asymmetric simple exclusion process for describing vehicular traffic flow at the intersection of two streets. No traffic lights control the traffic flow. The approaching cars to the intersection point yield to each other to avoid…
We introduce driven exclusion processes with internal states that serve as generic transport models in various contexts, ranging from molecular or vehicular traffic on parallel lanes to spintronics. The ensuing non-equilibrium steady states…
By considering the master equation of asymmetric exclusion process on a one-dimensional lattice, we obtain the most general boundary condition of the multi-species exclusion processes in which the number of particles is constant in time.…
Transport of rodlike particles in confinement environments of macromolecular networks plays crucial roles in many important biological processes and technological applications. The relevant understanding has been limited to thin rods with…
We study mixtures of self-propelled and passive rod-like particles in two dimensions using Brownian dynamics simulations. The simulations demonstrate that the two species spontaneously segregate to generate a rich array of dynamical domain…
We introduce the mathematical theory of the particle systems that interact via permutations, where the transition rates are assigned not to the jumps from a site to a site, but to the permutations themselves. This permutation processes can…
We introduce and analyze two general dynamical models for unidirectional movement of particles along a circular chain and an open chain of sites. The models include a soft version of the simple exclusion principle, that is, as the density…
We consider exclusion processes with two types of particles which compete strongly with each other. In particular, we focus on the case where one species does not diffuse at all and killing rates of two species are given by monomials with…
The dynamics of gene transcription is tightly regulated in eukaryotes. Recent experiments have revealed various kinds of transcriptional dynamics, such as RNA polymerase II pausing, that involves regulation at the transcription initiation…
We introduce a class of multispecies exclusion processes with long-range swap interactions, incorporating species-dependent interpolation between TASEP-type and drop--push-type dynamics: each species $i$ is assigned a parameter $\mu_i$…
We introduce two 2D mechanical models reproducing the evolution of two viscous tissues in contact. Their main property is to model the swirling cell motions while keeping the tissues segregated, as observed during vertebrate embryo…
We investigate the dynamics of the asymmetric exclusion process at a junction. When two input roads are initially fully occupied and a single output road is initially empty, the ensuing rarefaction wave has a rich spatial structure. The…
To survive environmental conditions, cells transcribe their response activities into encoded mRNA sequences in order to produce certain amounts of protein concentrations. The external conditions are mapped into the cell through the…
The aim of this paper is to discuss the appropriate modelling of in- and outflow boundary conditions for nonlinear drift-diffusion models for the transport of particles including size exclusion and their effect on the behaviour of…
We investigate the outflux of ions through the channels in a cell membrane. The channels undergo an open/close cycle according to a periodic schedule. Our study is based both on theoretical considerations relying on homogenization theory,…
We investigate one of the simplest multi-species generalizations of the one dimensional exclusion process with reflective boundaries. The Markov matrix governing the dynamics of the system splits into blocks (sectors) specified by the…
We introduce and study a family of cooperative exclusion processes whose microscopic dynamics is governed by selective kinetic constraints. They display, in sharp contrast to the simple symmetric exclusion process, density profiles that can…
We study a system of hard rods of finite size in one space dimension, which move by Brownian noise while avoiding overlap. We consider a scaling in which the number of particles tends to infinity while the volume fraction of the rods…
Diffusive transport is a universal phenomenon, throughout both biological and physical sciences, and models of diffusion are routinely used to interrogate diffusion-driven processes. However, most models neglect to take into account the…