相关论文: Exponential equilibration of genetic circuits usin…

A class of linear kinetic Fokker-Planck equations with a non-trivial diffusion matrix and with periodic boundary conditions in the spatial variable is considered. After formulating the problem in a geometric setting, the question of the…

We study the asymptotic behavior of stationary solutions to a quantitative genetics model with trait-dependent mortality and sexual reproduction. The infinitesimal model accounts for the mixing of parental phenotypes at birth.Our asymptotic…

We study a fractional cross-diffusion system that describes the evolution of multi-species populations in the regime of large-distance interactions in a bounded domain. We prove existence and weak-strong uniqueness results for the…

In this paper we propose a Bayesian approach for inference about dependence of high throughput gene expression. Our goals are to use prior knowledge about pathways to anchor inference about dependence among genes; to account for this…

Genetic variation in a population can sometimes arise so fast as to modify ecosystem dynamics. Such phenomena have been observed in natural predator-prey systems, and characterized in the laboratory as showing unusual phase relationships in…

Temporal gene expression data (Wen, et. al.) was analyzed using the recently introduced inverse modeling technique of Embedded Complex Logistic Maps (ECLM). Preliminary results indicate scale-free structure in the gene regulatory network…

The study of generic properties of quantum states has led to an abundance of insightful results. A meaningful set of states that can be efficiently prepared in experiments are ground states of gapped local Hamiltonians, which are well…

Computing equilibrium concentrations of molecular complexes is generally analytically intractable and requires numerical approaches. In this work we focus on the polymer-monomer level, where indivisible molecules (monomers) combine to form…

We show that noise-induced oscillations in a gene circuit model display stochastic coherence, that is, a maximum in the regularity of the oscillations as a function of noise amplitude. The effect is manifest as a system-size effect in a…

Cells use genetic switches to shift between alternate stable gene expression states, e.g., to adapt to new environments or to follow a developmental pathway. Conceptually, these stable phenotypes can be considered as attractive states on an…

The determination of liquid phase equilibria plays an important role in chemical process simulation. This work presents a generalization of an approach called the convex envelope method (CEM), which constructs all liquid phase equilibria…

Biochemical processes typically involve many chemical species, some in abundance and some in low molecule numbers. Here we first identify the rate constant limits under which the concentrations of a given set of species will tend to…

We study the long-term behavior of two piecewise-deterministic Markov processes used to model stochastic gene regulatory networks with bursting dynamics. Under regularity assumptions on the jump rate, we prove the existence and uniqueness…

We show an elementary method to have (finite time and asymptotic) computer assisted explicit upper bounds on convergence to equilibrium (decay of correlations) and escape rate for systems satisfying a Lasota Yorke inequality. The bounds are…

In physics, accurately modeling large-scale phenomena such as core-collapse supernovae, (CCSN), and neutron star mergers are computationally challenging and require solving large sets of partial and ordinary differential equations.…

Using the Dominant Reaction Pathways method, we perform an ab-initio quantum-mechanical simulation of a conformational transition of a peptide chain. The method we propose makes it possible to investigate the out-of-equilibrium dynamics of…

We study abstract linear and nonlinear evolutionary systems with single or multiple delay feedbacks, illustrated by several concrete examples. In particular, we assume that the operator associated with the undelayed part of the system…

Bipartite entanglement entropy is one of the most useful characterizations of universal properties in a many-body quantum system. Far from equilibrium, there exist two highly effective theories describing its dynamics -- the quasiparticle…

Growth-fragmentation processes describe the evolution of systems of cells which grow continuously and fragment suddenly; they are used in models of cell division and protein polymerisation. Typically, we may expect that in the long run, the…

Information has an entropic character which can be analyzed within the Statistical Theory in molecular systems. R. Landauer and C.H. Bennett showed that a logical copy can be carried out in the limit of no dissipation if the computation is…