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We review the mathematical formalism underlying the modelling of stochasticity in biological systems. Beginning with a description of the system in terms of its basic constituents, we derive the mesoscopic equations governing the dynamics…

Populations and Evolution · Quantitative Biology 2012-11-05 Alan J. McKane , Tommaso Biancalani , Tim Rogers

Phases of matter are conventionally characterized by order parameters describing the type and degree of order in a system. For example, crystals consist of spatially ordered arrays of atoms, an order that is lost as the crystal melts. Like-…

Quantum Gases · Physics 2023-07-20 D. L. Campbell , R. M. Price , A. Putra , A. Valdés-Curiel , D. Trypogeorgos , I. B. Spielman

The constituents in a class of active matter systems change their directions of motion by being influenced by the velocities of the neighbors. Such systems may undergo phase transitions, with respect to ordering in the velocity field, as…

Statistical Mechanics · Physics 2025-02-11 Sohini Chatterjee , Sohom Das , Purnendu Pathak , Tanay Paul , Subir K. Das

Motivated by the recent ARPES measurements (Evtushinsky et. al., PRL {\bf 105}, 147201 (2010)) and evidence for the density-wave state for the charge and orbital ordering (Garc\'{i}a et al., PRL {\bf 109}, 107202 (2012)) in…

Strongly Correlated Electrons · Physics 2017-06-29 Dheeraj Kumar Singh , Tetsuya Takimoto

We derive relations between standard order parameter correlations and the noise correlations in time of flight images, which are valid for systems with long range order as well as low dimensional systems with algebraic decay of…

Other Condensed Matter · Physics 2011-05-31 L. Mathey , A. Vishwanath , E. Altman

The ordering of particles in the drying process of a colloidal suspension is crucial in determining the properties of the resulting film. For example, microscopic inhomogeneities can lead to the formation of cracks and defects that can…

Soft Condensed Matter · Physics 2021-10-04 Maarten Wouters , Othmane Aouane , Marcello Sega , Jens Harting

Order-disorder effects on equation of state (EOS) properties of substitutional binary alloys are investigated with the cluster variation method (CVM) based on ab initio effective cluster interactions (ECI). Calculations are applied to the…

Materials Science · Physics 2012-03-06 H. Y. Geng , M. H. F. Sluiter , N. X. Chen

Using numerical simulations of a model disk system, we demonstrate that a machine learning generated order parameter can detect depinning transitions and different dynamic flow phases in systems driven far from equilibrium. We specifically…

Statistical Mechanics · Physics 2024-04-23 D. McDermott , C. J. O. Reichhardt , C. Reichhardt

It was previously suggested that an odd-frequency pair amplitude exists in the vicinity of boundaries in unconventional superconductors. We develop this idea and quest for a novel superconducting order parameter with an odd-frequency…

Superconductivity · Physics 2013-03-22 Masashige Matsumoto , Mikito Koga , Hiroaki Kusunose

We study the Gaussian Process regression model in the context of training data with noise in both input and output. The presence of two sources of noise makes the task of learning accurate predictive models extremely challenging. However,…

Machine Learning · Statistics 2015-07-03 Cuong Tran , Vladimir Pavlovic , Robert Kopp

Motivated by recent experimental evidence of charge order in the pseudogap phase of cuprates, we perform a variational analysis of charge-neutral, spin-singlet ordering in metals on the square lattice, using a wavefunction with double…

Strongly Correlated Electrons · Physics 2014-10-15 Andrea Allais , Johannes Bauer , Subir Sachdev

The time evolution of complex systems usually can be described through stochastic processes. These processes are measured at finite resolution, what necessarily reduces them to finite sequences of real numbers. In order to relate these data…

Condensed Matter · Physics 2007-05-23 D. M. Tavares , L. S. Lucena

Waves and oscillations are commonly observed in the dynamics of self-driven agents such as pedestrians or vehicles. Interestingly, many factors may perturb the stability of space homogeneous streaming, leading to the spontaneous formation…

Physics and Society · Physics 2021-06-10 Martin Friesen , Hanno Gottschalk , Barbara Rüdiger , Antoine Tordeux

Entropy drives the phase behavior of colloids ranging from dense suspensions of hard spheres or rods to dilute suspensions of hard spheres and depletants. Entropic ordering of anisotropic shapes into complex crystals, liquid crystals, and…

Soft Condensed Matter · Physics 2014-11-26 Greg van Anders , Daphne Klotsa , N. Khalid Ahmed , Michael Engel , Sharon C. Glotzer

Spin-glass (SG) is a fascinating system that has garnered significant attention due to its intriguing properties and implications for various research fields. One of the key characteristics of spin glasses is that they contain random…

Quantum Physics · Physics 2023-04-20 Aslı Tuncer , Serhat C. Kadıoğlu

The quench dynamics of systems exhibiting cooperative or almost competitive orders in equilibrium are explored using Ginzburg-Landau theory plus fluctuations. We show that when the renormalization of the free energy by fluctuations is taken…

Strongly Correlated Electrons · Physics 2025-08-18 Francesco Grandi , Antonio Picano , Ronny Thomale , Dante M. Kennes , Martin Eckstein

Software is now ubiquitous and involved in complex interactions with the human users and the physical world in so-called cyber-physical systems where the management of time is a major issue. Separation of concerns is a key asset in the…

Logic in Computer Science · Computer Science 2018-10-24 Mathieu Montin , Marc Pantel

Non-equilibrium stochastic dynamics of several active Brownian systems are modeled in terms of non-linear velocity dependent force. In general, this force may consist of both even and odd functions of velocity. We derive the expression for…

Statistical Mechanics · Physics 2016-09-14 Debasish Chaudhuri

An analysis of transition from chaotic to nonchaotic behavior and synchronization in an ensemble of systems driven by identical random forces is presented. The synchronization phenomenon is investigated in the ensemble of particles moving…

chao-dyn · Physics 2015-06-24 B. Kaulakys , F. Ivanauskas , T. Meskauskas

We present theoretical study of ordering phenomena in binary $C_{1-x}B_{x}$, $C_{1-x}N_{x}$ and ternary $B_{x}C_{1-x-y}N_{y}$ alloys forming two-dimensional, graphene-like systems. For calculating energy of big systems (20 000 atoms in the…

Mesoscale and Nanoscale Physics · Physics 2017-01-11 Agnieszka Jamróz , Jacek A. Majewski