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The motion involved in barrier crossing for protein folding are investigated in terms of the chain dynamics of the polymer backbone, completing the microscopic description of protein folding presented in the previous paper. Local reaction…

Soft Condensed Matter · Physics 2009-10-31 John J. Portman , Shoji Takada , Peter G. Wolynes

Euler buckling epitomises mechanical instabilities: An inextensible straight elastic line buckles under compression when the compressive force reaches a critical value $F_\ast>0$. Here, we extend this classical, planar instability to the…

Soft Condensed Matter · Physics 2025-12-12 Shiheng Zhao , Pierre A. Haas

The BTW sandpile model is considered on three dimensional percolation lattice which is tunned with the occupation parameter $p$. Along with the three-dimensional avalanches, we study the energy propagation in two-dimensional cross-sections.…

Statistical Mechanics · Physics 2018-03-14 M. N. Najafi , H. Dashti-Naserabadi

A homogeneous elastic solid, bounded by a flat surface in its unstressed configuration, undergoes a finite strain when in frictionless contact against a rigid and rectilinear constraint, ending with a rounded or sharp corner, in a…

Soft Condensed Matter · Physics 2024-05-21 Francesco Dal Corso , Marco Amato , Davide Bigoni

We study directed rigidity percolation (equivalent to directed bootstrap percolation) on three different lattices: square, triangular, and augmented triangular. The first two of these display a first-order transition at p=1, while the…

Statistical Mechanics · Physics 2007-05-23 Marcio Argollo de Menezes , Cristian F. Moukarzel

We investigate the weakening of elastic materials through randomly distributed circles and cracks numerically and compare the results to predictions from homogenization theories. We find a good agreement for the case of randomly oriented…

Materials Science · Physics 2015-05-13 Robert Spatschek , Clemens Gugenberger , Efim Brener

We determine the dimensional dependence of the percolative exponents of the jamming transition via numerical simulations in four and five spatial dimensions. These novel results complement literature ones, and establish jamming as a mixed…

Soft Condensed Matter · Physics 2021-02-03 Antonio Piscitelli , Antonio Coniglio , Annalisa Fierro , Massimo Pica Ciamarra

This paper discusses the elastic behavior of a single polyelectrolyte chain. A simple scaling analysis as in self avoiding walk chains are not possible, because three interplaying relevant length scales are involved, i.e., the Debye…

Statistical Mechanics · Physics 2009-10-30 P. Haronska , J. Wilder , T. A. Vilgis

Tree models for rigidity percolation are introduced and solved. A probability vector describes the propagation of rigidity outward from a rigid border. All components of this ``vector order parameter'' are singular at the same rigidity…

Statistical Mechanics · Physics 2009-10-30 Cristian F. Moukarzel , Phillip M. Duxbury , Paul L. Leath

We consider biased random walks in a one-dimensional percolation model. This model goes back to Axelson-Fisk and H\"aggstr\"om and exhibits the same phase transition as biased random walk on the infinite cluster of supercritical Bernoulli…

Probability · Mathematics 2018-08-10 Jan-Erik Lübbers , Matthias Meiners

We study the porosity properties of fractal percolation sets $E\subset\mathbb{R}^d$. Among other things, for all $0<\varepsilon<\tfrac12$, we obtain dimension bounds for the set of exceptional points where the upper porosity of $E$ is less…

Probability · Mathematics 2020-10-02 Changhao Chen , Tuomo Ojala , Eino Rossi , Ville Suomala

We investigate the behaviour of the shortest path on a directed two-dimensional square lattice for bond percolation at the critical probability $p_c$ . We observe that flipping an edge lying on the shortest path has a non-local effect in…

Statistical Mechanics · Physics 2018-12-05 Fabian Hillebrand , Mirko Luković , Hans J. Herrmann

Numerical investigation of critical exponents on a hypercubic with L^d random sites with L up to $33 and d up to 7 show that above the critical dimension the phase transitions in Ising model and percolation are not alike.

Disordered Systems and Neural Networks · Physics 2009-11-10 Lotfi Zekri

We study critical bond percolation on periodic four-dimensional (4D) and five-dimensional (5D) hypercubes by Monte Carlo simulations. By classifying the occupied bonds into branches, junctions and non-bridges, we construct the whole, the…

Statistical Mechanics · Physics 2021-08-24 Zhongjin Zhang , Pengcheng Hou , Sheng Fang , Hao Hu , Youjin Deng

The sol-gel transition is studied in two purely entropic models consisting of hard spheres in continuous three-dimensional space, with a fraction $p$ of nearest neighbor spheres tethered by inextensible bonds. When all the tethers are…

Statistical Mechanics · Physics 2009-11-07 Oded Farago , Yacov Kantor

Nanoscale molecular transport plays a crucial role in regulating mass diffusion and responsiveness in condensed matter systems. In soft porous crystals, in particular, adsorption of guest molecules induces host framework deformation and…

Soft Condensed Matter · Physics 2026-01-28 Kota Mitsumoto , Kyohei Takae

A quantitative understanding of how cells interact with their extracellular matrix via molecular bonds is fundamental for many important processes in cell biology and engineering. In these interactions, the deformability of cells and matrix…

Biological Physics · Physics 2022-07-13 Qiangzeng Huang , Jizeng Wang

We identify a link between the glass transition and percolation of mobile regions in configuration space. We find that many hallmarks of glassy dynamics, for example stretched-exponential response functions and a diverging structural…

Statistical Mechanics · Physics 2009-11-13 Gregg Lois , Jerzy Blawzdziewicz , Corey S. O'Hern

We consider the bond percolation problem on a transient weighted graph induced by the excursion sets of the Gaussian free field on the corresponding cable system. Owing to the continuity of this setup and the strong Markov property of the…

Probability · Mathematics 2023-03-21 Alexander Drewitz , Alexis Prévost , Pierre-François Rodriguez

Soft solids with tunable mechanical response are at the core of new material technologies, but a crucial limit for applications is their progressive aging over time, which dramatically affects their functionalities. The generally accepted…

Soft Condensed Matter · Physics 2017-08-02 Mehdi Bouzid , Jader Colombo , Lucas Vieira Barbosa , Emanuela Del Gado