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Small single-domain proteins often exhibit only a single free-energy barrier, or transition state, between the denatured and the native state. The folding kinetics of these proteins is usually explored via mutational analysis. A central…

Biomolecules · Quantitative Biology 2009-11-13 Thomas R. Weikl

In this work, we develop a stochastic model of gene gain and loss with the aim of inferring when (if at all) in evolutionary history and association between two genes arises. The data we consider is a species tree along with information on…

Populations and Evolution · Quantitative Biology 2023-09-07 Jiahao Diao , Malgorzata M. O'Reilly , Barbara R. Holland

In a roughening process, the growth exponent $\beta$ describes how the roughness $w$ grows with the time $t$: $w\sim t^{\beta}$. We determine the exponent $\beta$ of a growth process generated by the spatiotemporal patterns of the one…

Statistical Mechanics · Physics 2015-06-24 A. P. F. Atman , J. G. Moreira

Using Monte Carlo techniques and a star-triangle transformation, Ising models with random, 'strong' and 'weak', nearest-neighbour ferromagnetic couplings on a square lattice with a (1,1) surface are studied near the phase transition. Both…

Statistical Mechanics · Physics 2009-10-30 F. Igloi , P. Lajko , W. Selke , F. Szalma

We revisit the random tree model with nearest-neighbour interaction as described in previous work, enhancing growth. When the underlying free Bienaym\'e-Galton-Watson (BGW) model is sub-critical, we show that the (non-Markov) model with…

Probability · Mathematics 2023-04-05 Pierre Collet , François Dunlop , Thierry Huillet , Arif Mardin

We propose conditions for the emergence of Turing patterns in a domain that changes in size by homogeneous growth/shrinkage. These conditions to determine the bifurcation are based on considering the geometric change of a potential function…

Pattern Formation and Solitons · Physics 2023-08-25 Aldo Ledesma-Durán

We consider two bivariate models with two-way interactions in context of risk and queueing theory. The two entities interact with each other by providing assistance but otherwise evolve independently. We focus on certain random quantities…

Probability · Mathematics 2019-11-19 Jevgenijs Ivanovs

Aging has become the paradigm to describe dynamical behavior of glassy systems, and in particular spin glasses. Trap models have been introduced as simple caricatures of effective dynamics of such systems. In this Letter we show that in a…

Disordered Systems and Neural Networks · Physics 2008-04-14 G. Ben Arous , A. Bovier , J. Cerny

We present two kinds of Bochkov-Kuzovlev work equalities in a two-level system that is described by a quantum Markovian master equation. One is based on multiple time correlation functions and the other is based on the quantum trajectory…

Statistical Mechanics · Physics 2015-06-18 Fei Liu

Crosslinked polyurethane adhesives show large deformation viscoelastic behaviour and age under the moisture influence because of their hygroscopic behaviour. The viscoelastic behaviour of the material is modelled with the micromechanical…

Materials Science · Physics 2024-06-11 S. P. Josyula , M. Brede , O. Hesebeck , K. Koschek , W. Possart , A. Wulf , B. Zimmer , S. Diebels

We consider a sparse linear regression model Y=X\beta^{*}+W where X has a Gaussian entries, W is the noise vector with mean zero Gaussian entries, and \beta^{*} is a binary vector with support size (sparsity) k. Using a novel conditional…

Machine Learning · Statistics 2019-09-26 David Gamarnik , Ilias Zadik

Although species longevity is subject to a diverse range of selective forces, the mortality curves of a wide variety of organisms are rather similar. We argue that aging and its universal characteristics may have evolved by means of a…

Populations and Evolution · Quantitative Biology 2013-02-01 Dervis Can Vural , Greg Morrison , L. Mahadevan

There are a variety of different techniques available to estimate the ages of pre-main-sequence stars. Components of physical pairs, thanks to their strict coevality and the mass difference, such as the binary system analysed in this paper,…

Solar and Stellar Astrophysics · Physics 2017-05-03 S. Messina , R. Santallo , T. G. Tan , P. Elliott , G. A. Feiden , A. Buccino , P. Mauas , R. Petrucci , E. Jofre'

Models for cross-sectional network data have become increasingly well-developed in recent decades, and are widely used. This has led to a growing interest in the connection between such cross-sectional models and the behavioral processes…

Social and Information Networks · Computer Science 2026-05-05 Carter T. Butts , Alexander Murray-Watters

Under rapid undercooling, glass forming liquids freeze in an amorphous state that can equilibrate only on enormously long time-scales, This is the characteristic sign of aging, which has been observed in a wide range of systems. Brownian…

Statistical Mechanics · Physics 2023-03-01 Karina I Mazzitello , Daniel G Zarlenga , Fereydoon Family , Constancio M Arizmendi

Considerable insight into the functional activity of proteins and enzymes can be obtained by studying the low-energy conformational distortions that the biopolymer can sustain. We carry out the characterization of these large scale…

Soft Condensed Matter · Physics 2009-11-11 M. Neri , M. Cascella , C. Micheletti

We discuss a number of essential dynamical features of the Biroli-Mezard model. We observe a dynamical slowing down which for high densities depends both on the observation time and on the age of the system. We relate this ageing behavior…

Statistical Mechanics · Physics 2009-11-11 E. Marinari , V. Van Kerrebroeck

We use large-scale Monte Carlo simulations to obtain comprehensive results for domain growth and aging in the random field XY model in dimensions $d=2,3$. After a deep quench from the paramagnetic phase, the system orders locally via…

Statistical Mechanics · Physics 2021-10-26 Ramgopal Agrawal , Manoj Kumar , Sanjay Puri

Using molecular dynamics computer simulations we investigate the aging dynamics of a gel. We start from a fractal structure generated by the DLCA-DEF algorithm, onto which we then impose an interaction potential consisting of a short-range…

Soft Condensed Matter · Physics 2008-12-19 M-A. Suarez , N. Kern , E. Pitard , W. Kob

We study the susceptible-infected model with power-law waiting time distributions $P(\tau)\sim \tau^{-\alpha}$, as a model of spreading dynamics under heterogeneous human activity patterns. We found that the average number of new infections…

Data Analysis, Statistics and Probability · Physics 2011-03-09 Byungjoon Min , K. -I. Goh , Alexei Vazquez