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Actin growth is a fundamental biophysical process and it is, at the same time, a prototypical example of diffusion-mediated surface growth. We formulate a coupled chemo-mechanical, one-dimensional growth model encompassing both material…

Soft Condensed Matter · Physics 2020-01-03 Rohan Abeyaratne , Eric Puntel , Giuseppe Tomassetti

The Bianconi-Barabasi model of a growing network is revisited. This model, defined by a preferential attachment rule involving both the degrees of the nodes and their intrinsic fitnesses, has the fundamental property to undergo a phase…

Statistical Mechanics · Physics 2015-03-17 C. Godreche , J. M. Luck

The thermodynamics of the small SH3 protein domain is studied by means of a simplified model where each bead-like amino acid interacts with the others through a contact potential controlled by a 20x20 random matrix. Good folding sequences,…

Biomolecules · Quantitative Biology 2009-11-11 A. Amatori , J. Ferkinghoff-Borg , G. Tiana , R. A. Broglia

Fragility, quantifying the rapidity of variation of relaxation times, is analysed for a series of model glass formers, which differ in the softness of their interparticle interactions. In an attempt to rationalize experimental observations…

Soft Condensed Matter · Physics 2017-05-30 Anshul D. S. Parmar , Pallabi Kundu , Srikanth Sastry

We numerically examine mixtures of circularly moving and passive disks as a function of density and active orbit radius. For low or intermediate densities and/or small orbit radii, the system can organize into a reversible partially phase…

Soft Condensed Matter · Physics 2019-09-13 C. Reichhardt , C. J. O. Reichhardt

We present extensive molecular dynamics simulations of a liquid of symmetric dumbbells, for constant packing fraction, as a function of temperature and molecular elongation. For large elongations, translational and rotational degrees of…

Soft Condensed Matter · Physics 2009-11-11 Angel J. Moreno , Song-Ho Chong , Walter Kob , Francesco Sciortino

In radiative layers of rotating stars the luminosity carried by circulation currents through a surface of constant entropy (circulation luminosity) is shown to be positive. The corresponding decrease in the temperature gradient is important…

Astrophysics · Physics 2009-11-10 H. Kaehler

We derive a simple system of equations to describe the magnetization relaxation of a molecular spin in weak interaction with a thermal bath for the whole temperature domain. Using this for the intermediate temperature domain where the…

Materials Science · Physics 2022-12-27 Le Tuan Anh Ho , Liviu Ungur , Liviu F. Chibotaru

We consider the reaction zone that grows between separated regions of diffusing species $A$ and $B$ that react according to $mA+nB\to 0$, within the framework of the mean-fieldlike reaction-diffusion equations. For distances from the centre…

Condensed Matter · Physics 2009-10-22 Stephen Cornell , Zbigniew Koza , Michel Droz

A finite temperature version of body-centered solid-on-solid growth models involving attachment and detachment of dimers is discussed in 1+1 dimensions. The dynamic exponent of the growing interface is studied numerically via the spectrum…

Statistical Mechanics · Physics 2007-09-27 M. D. Grynberg

We study the free evolution of frictional granular gases using large scale molecular dynamics simulation in three dimensions. The system cools due to solid friction among the interacting particles. At early stages of evolution, the density…

Statistical Mechanics · Physics 2017-11-17 Prasenjit Das , Moshe Schwartz , Sanjay Puri

A kinetic one-dimensional Ising model on a ring evolves according to a generalization of Glauber rates, such that spins at even (odd) lattice sites experience a temperature $T_{e}$ ($T_{o}$). Detailed balance is violated so that the spin…

Statistical Mechanics · Physics 2009-11-07 B. Schmittmann , F. Schmueser

Starting from a Huxley-type model for an agitated vibrational mode, we propose an embedding of standard active particle models in terms of two-temperature processes. One temperature refers to an ambient thermal bath, and the other…

Statistical Mechanics · Physics 2024-07-02 Faezeh Khodabandehlou , Christian Maes

The sliding friction of a dimer moving over a periodic substrate and subjected to an external force is studied in the steady state for arbitrary temperatures within a one-dimensional model. Nonlinear phenomena that emerge include dynamic…

Materials Science · Physics 2009-11-11 S. Goncalves , C. Fusco , A. Bishop , V. M. Kenkre

We study the statistics of the number of executed hops of adatoms at the surface of films grown with the Clarke-Vvedensky (CV) model in simple cubic lattices. The distributions of this number, $N$, are determined in films with average…

Statistical Mechanics · Physics 2020-07-27 Edwin E. Mozo Luis , Ismael S. S. Carrasco , Thiago A. de Assis , Fábio D. A. Aarão Reis

We present the exact solution for the full dynamics of a nonequilibrium spin chain and its dual reaction-diffusion model, for arbitrary initial conditions. The spin chain is driven out of equilibrium by coupling alternating spins to two…

Statistical Mechanics · Physics 2007-05-23 M. Mobilia , B. Schmittmann , R. K. P. Zia

Redfield master equation was applied to study the dynamics of an ensemble of interacting pairs of unlike spins at room temperature. This spin quantum system is a workbench quantum model to analyze the relaxation dynamics of a heteronuclear…

Quantum Physics · Physics 2024-08-20 A. Consuelo-Leal , Hugo D. Fernández Sare , R. Auccaise

Active matter exhibits many intriguing non-equilibrium character, \emph{e.g.}, the active Brownian particles (ABP) without any attractive and aligned interactions can occur the mobility-induced phase transition to form some dense domains…

Soft Condensed Matter · Physics 2023-05-24 Cheng Yang , Ying Zeng , Shun Xu , Xin Zhou

We study the process of relaxation back to thermal equilibrium in $(1+1)$-dimensional conformal field theory at finite temperature. When the size of the system is much larger than the inverse temperature, perturbations decay exponentially…

High Energy Physics - Theory · Physics 2009-11-07 Danny Birmingham , Ivo Sachs , Sergey N. Solodukhin

We study the dynamics of a two-level system described by a slowly varying Hamiltonian and weakly coupled to the Ohmic environment. We follow the Bloch--Redfield perturbative approach to include the effect of the environment on qubit…

Quantum Physics · Physics 2014-05-20 Canran Xu , Amrit Poudel , Maxim G. Vavilov