Related papers: Transition in relaxation paths in allosteric molec…
We investigate quench dynamics in a one-dimensional spin model, comparing both quantum and classical descriptions. Our primary focus is on the different timescales involved in the evolution of the observables as they approach statistical…
Motor proteins are active enzymatic molecules that drive a variety of biological processes, including transfer of genetic information, cellular transport, cell motility and muscles contraction. It is known that these biological molecular…
We numerically elucidate the microscopic mechanisms controlling the relaxation dynamics of a three-dimensional lattice glass model that has static properties compatible with the approach to a random first-order transition. At low…
Dynamic facilitation theory assumes short-ranged dynamic constraints to be the essential feature of supercooled liquids and draws much of its conclusions from the study of kinetically constrained models. While deceptively simple, these…
Allosteric regulation is often viewed as thermodynamic in nature. However protein internal motions during an enzymatic reaction cycle can be slow hopping processes over numerous potential barriers. We propose that regulating molecules may…
The concept of allostery in which macromolecules switch between two different conformations is a central theme in biological processes ranging from gene regulation to cell signaling to enzymology. Allosteric enzymes pervade metabolic…
The relaxation to equilibrium of lattice systems with long-range interactions is investigated. The timescales involved depend polynomially on the system size, potentially leading to diverging equilibration times. A kinetic equation for…
The glass phase and its quantum analog are prominent challenges of current non-equilibrium statistical mechanics and condensed matter physics. As a model system to study the transition from classical to quantum glassy dynamics, we propose a…
One of the general mechanisms that give rise to the slow cooperative relaxation characteristic of classical glasses is the presence of kinetic constraints in the dynamics. Here we show that dynamical constraints can similarly lead to slow…
Kinetically constrained spin systems play an important role in understanding key properties of the dynamics of slowly relaxing materials, such as glasses. So far kinetic constraints have been introduced in idealised models aiming to capture…
A general kind of models with hierarchically constrained dynamics is shown to exhibit logarithmic anomalous relaxation, similarly to a variety of complex strongly interacting materials. The logarithmic behavior describes most of the decay…
The nonexponential relaxation ocurring in complex dynamics manifested in a wide variety of systems is analyzed through a simple model of diffusion in phase space. It is found that the inability of the system to find its equilibrium state in…
Systems with long-range interactions often relax towards statistical equilibrium over timescales that diverge with $N$, the number of particles. A recent work [S. Gupta and D. Mukamel, J. Stat. Mech.: Theory Exp. P03015 (2011)] analyzed a…
Complex systems are often characterized by the interplay of multiple interconnected dynamical processes operating across a range of temporal scales. This phenomenon is widespread in both biological and artificial scenarios, making it…
We present Monte Carlo simulations in a modification of the north-or-east-or-front model recently investigated by Berthier and Garrahan [J. Phys. Chem. B 109, 3578 (2005)]. In this coarse-grained model for relaxation in supercooled liquids,…
Hierarchical dynamics in glass-forming systems span multiple timescales, from fast vibrations to slow structural rearrangements, appearing in both supercooled fluids and glassy states. Understanding how these diverse processes interact…
Scaling analysis exploiting timescale separation has been one of the most important techniques in the quantitative analysis of nonlinear dynamical systems in mathematical and theoretical biology. In the case of enzyme catalyzed reactions,…
A simple, non-disordered spin model has been studied in an effort to understand the origin of the precipitous slowing down of dynamics observed in supercooled liquids approaching the glass transition. A combination of Monte Carlo…
The East model has a dynamical phase transition between an active (fluid) and inactive (glass) state. We show that this phase transition generalizes to "softened" systems where constraint violations are allowed with small but finite…
We consider two systems of Ising spins with plaquette interactions. They are simple models of glasses which have dual representations as kinetically constrained systems. These models allow an explicit analysis using the mosaic, or entropic…