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In biological and synthetic materials, many important processes involve charges that are present in a medium with spatially varying dielectric permittivity. To accurately understand the role of electrostatic interactions in such systems, it…
The paper is devoted to a study of phase transitions in the Hermitian random matrix models with a polynomial potential. In an alternative equivalent language, we study families of equilibrium measures on the real line in a polynomial…
Living cells exhibit a complex organization comprising numerous compartments, among which are RNA- and protein-rich membraneless, liquid-like organelles known as biomolecular condensates. Energy-consuming processes regulate their formation…
Delay mass-action systems provide a model of chemical kinetics when past states influence the current dynamics. In this work, we provide a graph-theoretic condition for delay stability, i.e., linear stability independent of both rate…
The analysis on stability and bifurcations in the macroscopic dynamics exhibited by the system of two coupled large populations comprised of $N$ stochastic excitable units each is performed by studying an approximate system, obtained by…
In engineering, accurately modeling nonlinear dynamic systems from data contaminated by noise is both essential and complex. Established Sequential Monte Carlo (SMC) methods, used for the Bayesian identification of these systems, facilitate…
We study an optomechanical system in which the mechanical motion of a single trapped ion is coupled to a cavity field for the realization of a strongly quantum correlated two-mode system. We show that for large pump intensities the steady…
We introduce a general framework for biological systems, called MESSI systems, that describe Modifications of type Enzyme-Substrate or Swap with Intermediates, and we prove general results based on the network structure. Many…
The late-time phase-ordering kinetics of the O(n) model for a non-conserved order parameter are considered for the case where the O(n) symmetry is broken by the initial conditions or by an external field. An approximate theoretical…
The Duffing oscillator describes the dynamics of a mass suspended on a spring with position-dependent stiffness. The mass is assumed to experience a linear damping and a time-dependent external forcing. The model has been instrumental in…
We introduce and analyze a method of learning-informed parameter identification for partial differential equations (PDEs) in an all-at-once framework. The underlying PDE model is formulated in a rather general setting with three unknowns:…
Colloidal model systems allow studying crystallization kinetics under fairly ideal conditions with rather well characterized pair interactions and minimized external influences. In complementary approaches therefore experiment, analytic…
Multiobjective optimization problems are important in analysis and application of nonlinear dynamical systems. As a first step, this paper studies a biobjective optimization problem in a simple nonlinear switched dynamical system: a…
We study the collective behavior of binary mixture of self-propelled particles. Particles moves along their heading direction with {\it variable speed} and interact through short range alignment interaction. A variable speed parameter…
Ordinary Differential Equations are a simple but powerful framework for modeling complex systems. Parameter estimation from times series can be done by Nonlinear Least Squares (or other classical approaches), but this can give…
We study the stirring process with $N-1$ species on a generic graph $G=(V,\mathcal{E})$ with reservoirs. The multispecies stirring process generalizes the symmetric exclusion process, which is recovered in the case $N=2$. We prove the…
Morphogen transport is a biological process, occurring in the tissue of living organisms, which is a determining step in cell differentiation. We present rigorous analysis of a simple model of this process, which is a system coupling…
This paper addresses the training of Neural Ordinary Differential Equations (neural ODEs), and in particular explores the interplay between numerical integration techniques, stability regions, step size, and initialization techniques. It is…
We revisit the modeling of the diauxic growth of a pure microorganism on two distinct sugars which was first described by Monod. Most available models are deterministic and make the assumption that all cells of the microbial ecosystem…
This work investigates the emergence of oscillations in one of the simplest cellular signaling networks exhibiting oscillations, namely, the dual-site phosphorylation and dephosphorylation network (futile cycle), in which the mechanism for…