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The dynamics of a folded protein is studied in water and glycerol at a series of temperatures below and above their respective dynamical transition. The system is modeled in two distinct states whereby the protein is decoupled from the bulk…

Soft Condensed Matter · Physics 2008-09-23 C. Atilgan , A. O. Aykut , A. R. Atilgan

A simulation model is presented, comprising elastic spheres with a short range attraction. Besides conservative forces, radial- and shear friction, and radial noise are added. The model can be used to simulate colloids, granular solids and…

Soft Condensed Matter · Physics 2008-11-19 Robert D. Groot , Simeon D. Stoyanov

This paper presents a theory for the behaviour of isotropic-hardening/softening elastoplastic materials that do not have a preferred reference configuration. In spite of important differences, many ingredients of classical plasticity are…

Mathematical Physics · Physics 2011-01-11 José Jorge Nader

The normal modes and relaxation rates of weak colloidal gels are investigated in computations employing different models of the hydrodynamic interactions between colloids. The eigenspectrum is computed for freely draining,…

Fluid Dynamics · Physics 2018-01-17 Zsigmond Varga , James W. Swan

We study binary mixtures of small active and big passive athermal particles interacting via soft repulsive forces on a frictional substrate. Athermal self propelled particles are known to phase separate into a dense aggregate and a dilute…

Soft Condensed Matter · Physics 2018-07-05 Pritha Dolai , Aditi Simha , Shradha Mishra

Swimming cells often have to self-propel through fluids displaying non-Newtonian rheology. While past theoretical work seems to indicate that stresses arising from complex fluids should systematically hinder low-Reynolds number locomotion,…

Biological Physics · Physics 2015-06-30 Yi Man , Eric Lauga

We present a theoretical model for predicting the phase behavior of polymer solutions in which phase separation competes with oligomerization. Specifically, we consider scenarios in which the assembly of polymer chains into stoichiometric…

Soft Condensed Matter · Physics 2024-07-31 Tianhao Li , W. Benjamin Rogers , William M. Jacobs

We present the general theory of Ising transitions in isotropic elastic media with vanishing thermal expansion. By constructing a minimal model with appropriate spin-lattice couplings, we show that in two dimensions near a continuous…

Statistical Mechanics · Physics 2023-01-03 Sudip Mukherjee , Abhik Basu

We investigate the rheology, microscopic structure, and dynamics of an industrially relevant dispersion made of cationic surfactant vesicles, from dilute to concentrated conditions. We find that these suspensions exhibit a shear-thinning…

Soft Condensed Matter · Physics 2025-04-29 Nikolaos Kolezakis , Stefano Aime , Raffaele Pastore , Vincenzo Guida , Gaetano D Avino , Paolo Edera

Via computer simulations we study kinetics of pattern formation in a two-dimensional active matter system. Self-propulsion in our model is incorporated via the Vicsek-like activity, i.e., particles have the tendency of aligning their…

Soft Condensed Matter · Physics 2020-08-26 Saikat Chakraborty , Subir K. Das

Polymer microgels exhibit intriguing macroscopic flow properties arising from their unique microscopic structure. Microgel colloids usually comprise a crosslinked polymer network with a radially decaying density profile, resulting in a…

Soft Condensed Matter · Physics 2025-02-10 Maxime Bergman , Yixuan Xu , José Muñéton Díaz , Zhang Chi , Thomas G. Mason , Frank Scheffold

We study the partitioning of cosolute particles in a thin film of a semi-flexible polymer network by a combination of coarse-grained (implicit-solvent) stochastic dynamics simulations and mean-field theory. We focus on a wide range of…

Soft Condensed Matter · Physics 2017-08-22 Won Kyu Kim , Arturo Moncho-Jorda , Rafael Roa , Matej Kanduc , Joachim Dzubiella

We introduce a simple spherical model whose structural properties are similar to the ones generated by models with directional interactions, by employing a binary mixture of large and small hard spheres, with a square-well attraction acting…

Disordered Systems and Neural Networks · Physics 2009-11-13 Emanuela Zaccarelli , Francesco Sciortino , Piero Tartaglia

We investigate the behavior of colloidal suspensions with different volume fractions confined between parallel walls under a range of steady shears. We model the particles using molecular dynamics (MD) with full hydrodynamic interactions…

Soft Condensed Matter · Physics 2014-09-18 Frances E. Mackay , Kyle Pastor , Mikko Karttunen , Colin Denniston

We report a molecular dynamics simulation study of a model gel whose interaction potential is obtained by modifying the three body Stillinger-Weber model potential for silicon. The modification reduces the average coordination number, and…

Soft Condensed Matter · Physics 2015-05-14 Shibu Saw , Niels L. Ellegaard , Walter Kob , Srikanth Sastry

Dilute oil dispersions of fractal carbon black particles with attractive Van der Waals interactions display continuous shear thickening followed by shear thinning at high shear rates. The shear thickening transition occurs at…

Soft Condensed Matter · Physics 2009-11-13 Chinedum O. Osuji , Chanjoong Kim , David A. Weitz

Polymer behavior in mixed solvents often exhibits intriguing phenomena, such as cosolvency, where a polymer that collapses in two individually poor solvents becomes soluble in their mixture. In this study, we employ a combination of…

Soft Condensed Matter · Physics 2025-04-14 Xiangyu Zhang , Dong Meng

Polymer brush layers are responsive materials that swell in contact with good solvents and their vapors. We deposit drops of an almost completely wetting volatile oil onto an oleophilic polymer brush layer and follow the response of the…

Soft Condensed Matter · Physics 2023-08-11 Özlem Kap , Simon Hartmann , Harmen Hoek , Sissi de Beer , Igor Siretanu , Uwe Thiele , Frieder Mugele

Soft condensed matter structures often challenge us with complex many-body phenomena governed by collective modes spanning wide spatial and temporal domains. In order to successfully tackle such problems mesoscopic coarse-grained (CG)…

Soft Condensed Matter · Physics 2023-07-12 Vlad P Sokhan , Michael A Seaton , Ilian T Todorov

In this third and final paper of a series, elastic properties of numerically simulated isotropic packings of spherical beads assembled by different procedures and subjected to a varying confining pressure P are investigated. In addition P,…

Disordered Systems and Neural Networks · Physics 2016-09-08 Ivana Agnolin , Jean-Noël Roux
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