相关论文: Quasi-steady uptake and bacterial community assemb…
We consider an aggregation model for two interacting species. The coupling between the species is via their velocities, that incorporate self- and cross-interactions. Our main interest is categorizing the possible steady states of the…
We construct the quasi-stationary (QS) distribution for two models of heterogeneous catalysis having two absorbing states: the ZGB model for the oxidation of CO, and a version with noninstantaneous reactions. Using a mean-field-like…
A new approach to computing the equilibria and steady-states of biomolecular systems modelled by bond graphs is presented. The approach is illustrated using a model of a biomolecular cycle representing a membrane transporter and a model of…
A novel model of biological organisms is advanced, treating an organism as a self-consistent system subject to a pathogen flux. The principal novelty of the model is that it describes not some parts, but a biological organism as a whole.…
We present a general field-theoretic strategy to analyze three connected families of continuous phase transitions which occur in nonequilibrium steady-states. We focus on transitions taking place between an active state and one absorbing…
Sessile ciliates attach to substrates and generate feeding currents to capture passing particulates and dissolved nutrients. Optimal ciliary activity that maximizes nutrient flux at the cell surface while minimizing the rate of hydrodynamic…
Cellular Potts models are broadly applied across developmental biology and cancer research. We overcome limitations of the traditional approach, which reinterprets a modified Metropolis sampling as ad hoc dynamics, by introducing a physical…
The Hamiltonian Mean Field model describes a system of N fully-coupled particles showing a second-order phase transition as a function of the energy. The dynamics of the model presents interesting features in a small energy region below the…
The effects of internal adaptation dynamics on the self-organized aggregation of chemotactic bacteria are investigated by Monte Carlo (MC) simulations based on a two-stream kinetic transport equation coupled with a reaction-diffusion…
Near-field hydrodynamic interactions between bacteria and no-slip solid surfaces are the main mechanism underlying surface entrapment of bacteria. In this study, we employ a chiral two-body model to simulate bacterial dynamics near the…
Organic material in anoxic sediment represents a globally significant carbon reservoir that acts to stabilize Earth's atmospheric composition. The dynamics by which microbes organize to consume this material remain poorly understood. Here…
The self-organised motion of vast numbers of creatures in a single direction is a spectacular example of emergent order. We recreate this phenomenon using actuated non-living components. We report here that millimetre-sized tapered rods,…
Quantitative characterization of bacterial growth has gathered substantial attention since Monod's pioneering study. Theoretical and experimental work has uncovered several laws for describing the log growth phase, in which the number of…
As the second part of a series on linear cocycles over chaotic systems, this paper establishes a "multiple covering principle" that robustly yields positive-entropy ergodic measures supported on fiberwise uniformly bounded orbits. Using…
A major hurdle in the simulation of the steady state of epidemic processes is that the system will unavoidably visit an absorbing, disease-free state at sufficiently long times due to the finite size of the networks where epidemics evolves.…
Plant-capture is a variant of classical capture-recapture methods used to estimate the size of a population. In this method, decoys referred to as "plants" are introduced into the population in order to estimate the capture probability. The…
The notion of Self-organized criticality (SOC) had been conceived to interpret the spontaneous emergence of long range correlations in nature. Since then many different models had been introduced to study SOC. All of them have few common…
The multisite phosphorylation-dephosphorylation cycle is a motif repeatedly used in cell signaling. This motif itself can generate a variety of dynamic behaviors like bistability and ultrasensitivity without direct positive feedbacks. In…
We propose and study a simple, physical model for phagocytosis, i.e. the active, actin-mediated uptake of micron-sized particles by biological cells. The cell is described by the phase field method and the driving mechanisms of uptake are…
We study a model of flocking in order to describe the transitions during the collective motion of organisms in three dimensions (e.g., birds). In this model the particles representing the organisms are self-propelled, i.e., they move with…