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A coarse-grained variational model is used to investigate the polymer dynamics of barrier crossing for a diverse set of two-state folding proteins. The model gives reliable folding rate predictions provided excluded volume terms that induce…

生物大分子 · 定量生物学 2009-11-13 Xianghong Qi , John J. Portman

We present a detailed account of a recently proposed phenomenological theory for noncatenated ring polymer melts (Phys. Rev. Lett. 106, 167802 (2011)). A basic assumption lies in the implementation of the noncatenation constraint via the…

软凝聚态物质 · 物理学 2015-06-04 Takahiro Sakaue

The mechanics of single-chain stretching and rupture are central to understanding the resilience of biological polymers and designing strong and tough soft materials such as double-network gels and multi-network elastomers. In this work, we…

软凝聚态物质 · 物理学 2026-05-19 Noy Cohen , Nikolaos Bouklas , Chung-Yuen Hui

We consider a model mixture of hard colloidal spheres and non-adsorbing polymer chains in a theta solvent. The polymer component is modelled as a polydisperse mixture of effective spheres, mutually noninteracting but excluded from the…

软凝聚态物质 · 物理学 2009-11-10 A. R. Denton , M. Schmidt

The properties of semiflexible polymers tethered by one end to an impenetrable wall and exposed to oscillatory shear flow are investigated by mesoscale simulations. A polymer, confined in two dimensions, is described by a linear bead-spring…

软凝聚态物质 · 物理学 2021-12-14 Antonio Lamura , Roland G. Winkler , Gerhard Gompper

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…

软凝聚态物质 · 物理学 2017-08-22 Won Kyu Kim , Arturo Moncho-Jorda , Rafael Roa , Matej Kanduc , Joachim Dzubiella

We question the network affinity assumption in modeling chain orientations under polymer deformations, and the use of the stretch measure projected from the right Cauchy-Green deformation tensor (or non-affine micro-stretches derived from…

软凝聚态物质 · 物理学 2021-02-03 Victor Jesus Amores , Khanh Nguyen , Francisco Javier Montans

The tethered-particle method is a single-molecule technique that has been used to explore the dynamics of a variety of macromolecules of biological interest. We give a theoretical analysis of the particle motions in such experiments. Our…

生物大分子 · 定量生物学 2009-11-11 Darren E. Segall , Phillip C. Nelson , Rob Phillips

The description of elastic, nonadhesive contacts between solids with self-affine surface roughness seems to necessitate knowledge of a large number of parameters. However, few parameters suffice to determine many important interfacial…

软凝聚态物质 · 物理学 2013-12-09 Nikolay Prodanov , Wolf B. Dapp , Martin H. Müser

Many living and physical systems such as cell aggregates, tissues or bacterial colonies behave as unconventional systems of particles that are strongly constrained by volume exclusion and shape interactions. Understanding how these…

定量方法 · 定量生物学 2026-05-20 Antoine Diez , Jean Feydy

In polymer physics it is typically assumed that excluded volume interactions are effectively screened in polymer melts. Hence, chains could be described by an effective random walk without excluded volume interactions. In this letter, we…

软凝聚态物质 · 物理学 2017-10-31 Hendrik Meyer , Eric Horwath , Peter Virnau

Dynamic density functionals (DDFs) are popular tools for studying the dynamical evolution of inhomogeneous polymer systems. Here, we present a systematic evaluation of a set of diffusive DDF theories by comparing their predictions with data…

软凝聚态物质 · 物理学 2018-02-07 Shuanhu Qi , Friederike Schmid

A polymer-chain network is a collection of interconnected polymer-chains, made themselves of the repetition of a single pattern called a monomer. Our first main result establishes that, for a class of models for polymer-chain networks, the…

数学物理 · 物理学 2020-04-08 Marco Cicalese , Antoine Gloria , Matthias Ruf

The structure of polymer networks, defined by chain lengths and connectivity patterns, fundamentally influences their bulk properties. While existing polymer network models connect chain properties to emergent network behavior, they are…

软凝聚态物质 · 物理学 2026-03-17 Jason Mulderrig , Michael Buche , Matthew Grasinger

Circuit topology refers to the arrangement of interactions between objects belonging to a linearly ordered object set. Linearly ordered set of objects are common in nature and occur in a wide range of applications in economics, computer…

无序系统与神经网络 · 物理学 2015-09-02 Alireza Mashaghi , Abolfazl Ramezanpour

Using molecular dynamics simulation of a standard bead-spring model we investigate the density crossover scaling of strictly two-dimensional self-avoiding polymer chains focusing on properties related to the contact exponent set by the…

软凝聚态物质 · 物理学 2015-06-03 N. Schulmann , H. Meyer , J. P. Wittmer , A. Johner , J. Baschnagel

The field theory approach to the statistical mechanics of a system of N polymer rings linked together is generalized to the case of links that have a fixed number $2s$ of maxima and minima. Such kind of links are called plats and appear for…

统计力学 · 物理学 2018-07-11 Franco Ferrari , Jarosław Paturej , Marcin Piątek , Yani Zhao

We investigate an exactly solvable model for directional transport in 1D. The structured system, which has strong elastic interactions in its parts, explicitly demonstrates the role of volume exclusion in producing directional transport. We…

统计力学 · 物理学 2010-02-09 A. Bhattacharyay

We present an application of Flory-type self-consistent field theory of the flexible polymer chain dissolved in the binary mixture of solvents to theoretical description of co-nonsolvency. We show that our theoretical predictions are in…

软凝聚态物质 · 物理学 2017-11-10 Yu. A. Budkov , A. L. Kolesnikov

We investigate the statistical properties of a randomly branched 3--functional $N$--link polymer chain without excluded volume, whose one point is fixed at the distance $d$ from the impenetrable surface in a 3--dimensional space. Exactly…

统计力学 · 物理学 2009-11-10 M. V. Tamm , S. K. Nechaev , I. Ya. Erukhimovich