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Preroughening of close-packed fcc(111) surfaces, found in rare gas solids, is an interesting, but poorly characterized phase transition. We introduce a restricted solid-on-solid model, named FCSOS, which describes it. Using mostly Monte…

Condensed Matter · Physics 2009-10-28 S. Prestipino , G. Santoro , E. Tosatt

In this paper we briefly review a model that describes the diffusion-controlled aggregation exhibited by particles as they are deposited on a surface. This model allows to understand many experiments of thin film deposition. In the first…

In the present work we simulate the basic two-dimensional dynamics of swarming E. coli bacteria on the surface of a moderately soft agar plate. Individual bacteria are modelled by self-propelled ridged bodies (agents), which interact with…

Soft Condensed Matter · Physics 2016-12-31 David Hansmann , Guido Fier , Rubén Carlos Buceta

Free surfaces in glassy polymer films are known to induce surface mobile layers with enhanced dynamics. Using molecular dynamics simulations of a bead-spring model, we study a wide variety of layer-resolved structural and dynamical…

Soft Condensed Matter · Physics 2018-11-14 Chi-Hang Lam

The thickness dependences of the photocurrent quantum yield and photoenergy parameters of silicon backside contact solar cells (BC SC) are investigated theoretically and experimentally. The surface recombination rate on the irradiated…

Materials Science · Physics 2011-03-15 A. P. Gorban , V. P. Kostylyov , A. V. Sachenko , O. A. Serba , I. O. Sokolovskyi , V. V. Chernenko

The experimental literature on the motion of mesoscopic probe particles through polymer solutions is systematically reviewed. The primary focus is the study of diffusive motion of small probe particles. Comparison is made with measurements…

Soft Condensed Matter · Physics 2007-05-23 George D. J. Phillies

During batch growth on mixtures of two growth-limiting substrates, microbes consume the substrates either sequentially or simultaneously. These growth patterns are manifested in all types of bacteria and yeasts. The ubiquity of these growth…

Cell Behavior · Quantitative Biology 2008-01-09 Jason T. Noel , Atul Narang

Colloids coupled to a bath of swimming cells generically display enhanced diffusion. This transport dynamics stems from a subtle interplay between the active and passive particles that still resists our understanding despite decades of…

Soft Condensed Matter · Physics 2021-03-25 Antoine Lagarde , Noémie Dagès , Takahiro Nemoto , Vincent Démery , Denis Bartolo , Thomas Gibaud

Bacteria such as Escherichia coli (E. coli) exhibit biased motion if kept in a spatially non-uniform chemical environment. Here, we bring out unique time-dependent characteristics of bacterial chemotaxis, in response to a diffusing spatial…

Biological Physics · Physics 2018-12-05 Sibendu Samanta , Ritwik Layek , Shantimoy Kar , Sudipta Mukhopadhyay , Suman Chakraborty

We have studied by Molecular Dynamics computer simulations the dynamics of water confined in ionic surfactants phases, ranging from well ordered lamellar structures to micelles at low and high water loading, respectively. We have analysed…

Soft Condensed Matter · Physics 2016-03-23 Samuel Hanot , Sandrine Lyonnard , Stefano Mossa

Molecular dynamics simulations of SPC/E water confined in a Silica pore are presented. The simulations have been performed at different hydration levels and temperatures to study the single-particle dynamics. Due to the confinement and to…

Soft Condensed Matter · Physics 2017-08-23 Paola Gallo

Encounter-based models of diffusion provide a probabilistic framework for analyzing the effects of a partially absorbing reactive surface, in which the probability of absorption depends upon the amount of surface-particle contact time.…

Statistical Mechanics · Physics 2023-07-05 Paul C Bressloff

The phase transition of the one-dimensional, diffusive pair contact process (PCPD) is investigated by N cluster mean-field approximations and high precision simulations. The N=3,4 cluster approximations exhibit smooth transition line to…

Statistical Mechanics · Physics 2009-11-07 Geza Odor

The dynamics of cellular aggregates is driven by the interplay of mechanochemical processes and cellular activity. Although deterministic models may capture mechanical features, local chemical fluctuations trigger random cell responses,…

Soft Condensed Matter · Physics 2024-01-17 Ana Carpio , Elena Cebrian

Under dilute in vitro conditions transcription factors rapidly locate their target sequence on DNA by using the facilitated diffusion mechanism. However, whether this strategy of alternating between three-dimensional bulk diffusion and…

Subcellular Processes · Quantitative Biology 2015-06-12 Max Bauer , Ralf Metzler

In laboratory experiments, high speed videos are used to detect and track mm-size surface particle motions caused by a low velocity normal impact into sand. Outside the final crater radius and prior to the landing of the ejecta curtain,…

Earth and Planetary Astrophysics · Physics 2022-11-16 Max Neiderbach , Bingcheng Suo , Esteban Wright , A. C. Quillen , Mokin Lee , Peter Miklavcic , Hesam Askari , Paul Sánchez

This review article examines the complex dynamics of thin-film flows of granular suspensions spreading over rigid solid substrates with free air interfaces. Such systems feature an involved coupling of the free-surface dynamics with the…

Soft Condensed Matter · Physics 2025-10-14 Alice Pelosse , Elisabeth Guazzelli , Matthieu Roché

We introduce a simulation strategy to consistently couple continuum biomembrane dynamics to the motion of discrete biological macromolecules residing within or on the membrane. The methodology is used to study the diffusion of integral…

Soft Condensed Matter · Physics 2009-05-26 Ali Naji , Paul J. Atzberger , Frank L. H. Brown

We use dissipative particle dynamics (DPD) simulations to study the effect of shear on domain morphology and kinetics of microphase separating critical diblock copolymer (BCP) bulk melts. The melt is confined within two parallel solid walls…

Soft Condensed Matter · Physics 2022-09-21 Ashish Kumar Singh , Awaneesh Singh

We present the simulation of the photochemical dynamics of cyclobutanone induced by the excitation of the 3s Rydberg state. For this purpose, we apply the complete active space self-consistent field method together with spin-orbit…

Chemical Physics · Physics 2024-01-15 Xincheng Miao , Kira Diemer , Roland Mitrić
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