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The concept of molecular mechanics force field has been widely accepted nowadays for studying various processes in biomolecular systems. In this paper, we suggest a modification for the standard CHARMM force field that permits simulations…

The diffusion of molecules (penetrants) of variable size, shape, and chemistry through dense crosslinked polymer networks is a fundamental scientific problem that is broadly relevant in materials, polymer, physical and biological chemistry.…

Living systems contain intricate biochemical networks whose structure is closely related to their function and allows them to exhibit robust behavior in the presence of external stimuli. Such networks typically involve catalytic enzymes,…

Biological Physics · Physics 2025-10-27 Vincent Ouazan-Reboul , Ramin Golestanian , Jaime Agudo-Canalejo

At low temperatures, dynamics in amorphous silicon occurs through a sequence of discrete activated events that locally reorganize the topological network. Using the activation-relaxation technique, a data base containing over 8000 such…

Disordered Systems and Neural Networks · Physics 2009-10-31 Normand Mousseau , G. T. Barkema

Active materials take advantage of their internal sources of energy to self-organize in an automated manner. This feature provides a novel opportunity to design micron-scale machines with minimal required control. However, self-organization…

Soft Condensed Matter · Physics 2021-01-22 Zijie Qu , Jialong Jiang , Heun Jin Lee , Rob Phillips , Shahriar Shadkhoo , Matt Thomson

Ring polymers are prevalent in natural and engineered systems, including circular bacterial DNA, crown ethers for cation chelation, and mechanical nanoswitches. The morphology and dynamics of ring polymers are governed by the chemistry and…

Chemical Physics · Physics 2018-02-07 Jiang Wang , Andrew Ferguson

Adding dynamic bonds in polymer networks enables reprocessing and recycling; however the full impact of reversible bonds on dynamic network mechanics remains unclear. We build model dynamic networks and observe substantial deviations from…

Soft Condensed Matter · Physics 2026-03-20 Lucien Cousin , Pietro Miotti , Bruno Marco-Dufort , Igor V. Pivkin , Mark W. Tibbitt

In this study, a versatile methodology for initiating polymerization from monomers in highly cross-linked materials is investigated. As polymerization progresses, force-field parameters undergo continuous modification due to the formation…

Computational Engineering, Finance, and Science · Computer Science 2024-01-15 Wonseok Lee , Sanggyu Chong , Jihan Kim

Hydrogel adhesion that can be easily modulated in magnitude, space, and time is desirable in many emerging applications ranging from tissue engineering, and soft robotics, to wearable devices. In synthetic materials, these complex adhesion…

Soft Condensed Matter · Physics 2023-04-07 Zhen Yang , Guangyu Bao , Shuaibing Jiang , Xingwei Yang , Ran Huo , Xiang Ni , Luc Mongeau , Rong Long , Jianyu Li

Highly concentrated or 'dense" particle suspensions can undergo a sharp increase in viscosity, or shear thickening, under applies stress. Understanding the fundamental features leading to such rheological changes in dense suspensions is…

Understanding conformational change is crucial for programming and controlling the function of many mechanical systems such as allosteric enzymes and tunable metamaterials. Of particular interest is the relationship between the network…

Computational Physics · Physics 2019-07-24 Jason Z. Kim , Zhixin Lu , Steven H. Strogatz , Danielle S. Bassett

Topological mechanical metamaterials have enabled new ways to control stress and deformation propagation. Exemplified by Maxwell lattices, they have been studied extensively using a linearized formalism. Herein, we study a two-dimensional…

The diffusion of small molecular penetrants through polymeric materials represents an important fundamental problem, relevant to the design of materials for applications such as coatings and membranes. Polymer networks hold promise in these…

Soft Condensed Matter · Physics 2023-07-07 Tsai-Wei Lin , Baicheng Mei , Kenneth S. Schweizer , Charles E. Sing

In active materials, uncoordinated internal stresses lead to emergent long-range flows. An understanding of how the behavior of active materials depends on mesoscopic (hydrodynamic) parameters is developing, but there remains a gap in…

Deformations of amorphous polymer networks prepared with significant concentrations of liquid crystalline mesogens have been recently reported to undergo mechanotropic phase transitions. Here, we report that these mechanotropic phase…

Soft Condensed Matter · Physics 2021-06-09 Jeremy A. Koch , Jeremy A. Herman , Timothy J. White

We study the motion of dispersed nanoprobes in entangled active-passive polymer mixtures. By comparing the two architectures of linear vs. unconcatenated and unknotted circular polymers, we demonstrate that novel, rich physics emerge. For…

Soft Condensed Matter · Physics 2021-08-27 Andrea Papale , Jan Smrek , Angelo Rosa

Twisted van der Waals multilayers are widely regarded as a rich platform to access novel electronic phases, thanks to the multiple degrees of freedom such as layer thickness and twist angle that allow control of their electronic and…

Engineering synthetic materials that mimic the remarkable complexity of living organisms is a fundamental challenge in science and technology. We study the spatiotemporal patterns that emerge when an active nematicfilm of microtubules and…

The nonequilibrium dynamical behavior and structure formation of end-functionalized semiflexible polymer suspensions under flow are investigated by mesoscale hydrodynamic simulations. The hybrid simulation approach combines the…

Soft Condensed Matter · Physics 2015-11-04 Jin Suk Myung , Roland G. Winkler , Gerhard Gompper

Experiments with networks of discrete reactive bistable electrochemical elements organized in regular and nonregular tree networks are presented to confirm an alternative to the Turing mechanism for the formation of self-organized…

Pattern Formation and Solitons · Physics 2016-11-15 N. E. Kouvaris , M. Sebek , A. S. Mikhailov , I. Z. Kiss