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We study conformational transitions of simple coarse-grained models for protein-like heteropolymers on the simple cubic lattice and off-lattice, respectively, by means of multicanonical sampling algorithms. The effective hydrophobic/polar…

Soft Condensed Matter · Physics 2015-05-13 Michael Bachmann , Wolfhard Janke

Complex colloidal fluids, such as emulsions stabilized by complex shaped particles, play an important role in many industrial applications. However, understanding their physics requires a study at sufficiently large length scales while…

Soft Condensed Matter · Physics 2012-04-27 Florian Günther , Florian Janoschek , Stefan Frijters , Jens Harting

This work studies scattering-induced elastic wave attenuation and phase velocity variation in 3D untextured cubic polycrystals with statistically equiaxed grains using the theoretical second-order approximation (SOA) and Born approximation…

Classical Physics · Physics 2022-02-17 Ming Huang , Peter Huthwaite , Stanislav I. Rokhlin , Michael J. S. Lowe

Molecular dynamics (MD) simulation is essential for various scientific domains but computationally expensive. Learning-based force fields have made significant progress in accelerating ab-initio MD simulation but are not fast enough for…

Machine Learning · Computer Science 2023-08-29 Xiang Fu , Tian Xie , Nathan J. Rebello , Bradley D. Olsen , Tommi Jaakkola

Biological systems exhibit processes on a wide range of time and length scales. This work demonstrates that models, wherein the interaction between system constituents is captured by algebraic operations, inherently allow for successive…

Molecular Networks · Quantitative Biology 2019-08-16 Dimitri Loutchko

The directed self-assembly of colloidal nanoparticles (NPs) using external fields guides the formation of sophisticated hierarchical materials but becomes less effective with decreasing particle size. As an alternative, electron-beam-driven…

Soft Condensed Matter · Physics 2024-09-13 Jonathan G. Raybin , Ethan J. Dunsworth , Veronica Guo , Naomi S. Ginsberg

The surface curvature of membranes, interfaces, and substrates plays a crucial role in shaping the self-assembly of particles adsorbed on these surfaces. However, little is known about the interplay between particle anisotropy and surface…

Soft Condensed Matter · Physics 2025-10-30 Gautam Bordia , Thomas P. Russell , Ahmad K. Omar

We demonstrate a novel route of spatially organizing the colloid arrangements on the polymer-grafted substrate by use of self-consistent field and density functional theories. We find that grafting of polymers onto a substrate can…

Soft Condensed Matter · Physics 2007-05-23 Kang Chen , Yu-qiang Ma

Scale analysis based on coarse-graining has been proposed recently as an alternative to Fourier analysis. It is now broadly used to analyze energy spectra and energy transfers in eddy-resolving ocean simulations. However, for data from…

Atmospheric and Oceanic Physics · Physics 2024-04-12 Kacper Nowak , Sergey Danilov , Vasco Müller , Caili Liu

Polymer chains undergoing a continuous adsorption-desorption transition are studied through extensive computer simulations. A three-dimensional self-avoiding walk lattice model of a polymer chain grafted onto a surface has been treated for…

Statistical Mechanics · Physics 2018-05-30 P. H. L. Martins , J. A. Plascak , M. Bachmann

Sampling equilibrium ensembles of dense polymer mixtures is a paradigmatically hard problem in computational physics, even in lattice-based models. Here, we develop a formalism based on interacting binary tensors that allows for tackling…

Soft Condensed Matter · Physics 2021-08-25 Cristian Micheletti , Philipp Hauke , Pietro Faccioli

Repeat proteins are made with tandem copies of similar amino acid stretches that fold into elongated architectures. Due to their symmetry, these proteins constitute excellent model systems to investigate how evolution relates to structure,…

Biomolecules · Quantitative Biology 2022-10-12 Ezequiel A. Galpern , Jacopo Marchi , Thierry Mora , Aleksandra M. Walczak , Diego U. Ferreiro

Understanding molecular structure, dynamics, and reactivity requires bridging processes that occur across widely separated time scales. Conventional molecular dynamics simulations provide atomistic resolution, but their femtosecond time…

Chemical Physics · Physics 2025-10-10 Juan Viguera Diez , Mathias Schreiner , Simon Olsson

Soft particles such as microgels and core-shell particles can undergo significant and anisotropic deformations when adsorbed to a liquid interface. This, in turn, leads to a complex phase behavior upon compression. Here we develop a…

Soft particles display highly versatile properties with respect to hard colloids, even more so at fluid-fluid interfaces. In particular, microgels, consisting of a cross-linked polymer network, are able to deform and flatten upon adsorption…

Bottle brushes are polymeric macromolecules made of a linear polymeric backbone grafted with side chains. The choice of the grafting density {\sigma}g, the length ns the grafted side chains and their chemical nature fully determines the…

Soft Condensed Matter · Physics 2019-08-09 P. Corsi , E. Roma , T. Gasperi , F. Bruni , B. Capone

Hypothesis: Colloidal molecules with anisotropic shapes and interactions are powerful model systems for deciphering the behavior of real molecules and building units for creating materials with designed properties. While many strategies for…

Soft Condensed Matter · Physics 2022-07-19 Yogesh Shelke , Susana Marín-Aguilar , Fabrizio Camerin , Marjolein Dijkstra , Daniela J. Kraft

The process of self-morphing in curved surfaces found in nature, such as with the growth of flowers and leaves, has generated interest in the study of self-morphing bilayers, which has been used in many soft robots or switchers. However,…

Numerical Analysis · Mathematics 2023-09-19 Junjie Song , Yixiong Feng , Zhaoxi Hong , Bingtao Hu , Jianrong Tan , Xiuju Song

Using Monte Carlo simulations, we investigate the self-assembly of model nanoparticles inside a matrix of model equilibrium polymers (or matrix of Wormlike micelles) as a function of the polymeric matrix density and the excluded volume…

Soft Condensed Matter · Physics 2018-04-03 Sk. Mubeena , Apratim Chatterji

We derive a coarse-grained description of the dynamics of a nanoparticle immersed in an isothermal simple fluid by performing a systematic coarse graining of the underlying microscopic dynamics. As coarse-grained or relevant variables we…

Mesoscale and Nanoscale Physics · Physics 2016-01-20 Pep Español , Aleksandar Donev
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