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In systems biology effective models are widely used due to the complexity of biological system. They result from a coarse-graining process which employs specific assumptions. Frequently one does not start with a model taking all details…

Molecular Networks · Quantitative Biology 2014-10-24 Martin Peifer , Jens Timmer , Christian Fleck

Cellular automata and other discrete dynamical systems have long been studied as models of emergent complexity. Recently, neural cellular automata have been proposed as models to investigate the emerge of a more general artificial…

Cellular Automata and Lattice Gases · Physics 2025-07-28 Sanyam Jain , Stefano Nichele

The basic mathematical properties of Green's functions used in statistical mechanics as well as the equations defining these functions and the techniques of solving these equations are reviewed. An approach is presented called the…

Statistical Mechanics · Physics 2007-05-23 V. I. Yukalov

Several recently proposed semi--automatic and fully--automatic coarse--graining schemes for polymer simulations are discussed. All these techniques derive effective potentials for multi--atom units or super--atoms from atomistic…

Soft Condensed Matter · Physics 2007-05-23 Roland Faller

Understanding the activity of large populations of neurons is difficult due to the combinatorial complexity of possible cell-cell interactions. To reduce the complexity, coarse-graining had been previously applied to experimental neural…

Neurons and Cognition · Quantitative Biology 2021-03-24 Mia C. Morrell , Audrey J. Sederberg , Ilya Nemenman

Integrable models are often constructed with real systems in mind. The exact solvability of the models leads to results which are unambiguous and provide the correct physical picture. In this review, we discuss the physical basis of some…

Condensed Matter · Physics 2007-05-23 Indrani Bose

We formulate an effective-description framework for the dynamics of open quantum systems by extending the time-coarse-graining formalism to open systems. Our coarse-graining procedure efficiently removes high-frequency processes which are…

Quantum Physics · Physics 2018-01-17 Chang-Woo Lee , Changsuk Noh , Jaewan Kim

Charge and spin transport in spintronics devices can be described by a spin diffusion equation suitable for modelling scales much larger than the scattering and atomic scales. This work concerns the coarse graining procedure used to compute…

Mesoscale and Nanoscale Physics · Physics 2019-07-02 Vincent Sacksteder

Simulation-based inference has been popular for amortized Bayesian computation. It is typical to have more than one posterior approximation, from different inference algorithms, different architectures, or simply the randomness of…

Methodology · Statistics 2024-03-04 Yuling Yao , Bruno Régaldo-Saint Blancard , Justin Domke

Spin models are used in many studies of complex systems---be it condensed matter physics, neural networks, or economics---as they exhibit rich macroscopic behaviour despite their microscopic simplicity. Here we prove that all the physics of…

Statistical Mechanics · Physics 2016-06-15 Gemma De las Cuevas , Toby S. Cubitt

High-dimensional recordings of dynamical processes are often characterized by a much smaller set of effective variables, evolving on low-dimensional manifolds. Identifying these latent dynamics requires solving two intertwined problems:…

Machine Learning · Computer Science 2026-01-21 Manuel Hinz , Maximilian Mauel , Patrick Seifner , David Berghaus , Kostadin Cvejoski , Ramses J. Sanchez

Understanding the structure and dynamics of liquids is pivotal for the study of larger spatiotemporal processes, especially in glass-forming materials at low temperatures. Density scaling, observed in many molecular systems through…

Soft Condensed Matter · Physics 2024-10-29 Jaehyeok Jin , David R. Reichman , Jeppe C. Dyre , Ulf R. Pedersen

Physical theories that depend on many parameters or are tested against data from many different experiments pose unique challenges to statistical inference. Many models in particle physics, astrophysics and cosmology fall into one or both…

Finite stochastic Markov models play a major role for modelling biochemical pathways. Such models are a coarse-grained description of the underlying microscopic dynamics and can be considered mesoscopic. The level of coarse-graining is to a…

Biological Physics · Physics 2012-06-05 Bernhard Altaner , Jürgen Vollmer

Granular segregation is ubiquitous in industrial, geological or daily-life context, but there is still no unifying theoretical approach. In this review, we examine two examples of granular segregation -- shallow rapid flows and rotating…

Soft Condensed Matter · Physics 2015-03-13 Matthias Schröter , Karen E. Daniels

Many practical techniques for probabilistic inference require a sequence of distributions that interpolate between a tractable distribution and an intractable distribution of interest. Usually, the sequences used are simple, e.g., based on…

Artificial Intelligence · Computer Science 2015-09-11 Andreas Stuhlmüller , Robert X. D. Hawkins , N. Siddharth , Noah D. Goodman

We present an alternative formalism for modeling spin. The ontological elements of this formalism are base-2 sequences of length $n$. The machinery necessary to model physics is then developed by considering correlations between base-2…

Quantum Physics · Physics 2022-12-15 Sam Powers , Dejan Stojkovic

In the present work we explore a suitable coarse graining channel as a tool to describe the effective entanglement spreading in a coarse-grained spin-chain with different degrees of resolution. Comparing it with the experimental…

Quantum Physics · Physics 2019-09-04 Pedro Silva Correia , Fernando de Melo

We derive a general formalism with which it is possible to obtain the time dependence of the echo size for a spin in a stochastic field environment. Our model is based on ``strong collisions''. We examine in detail three cases where: (I)…

Condensed Matter · Physics 2009-10-31 Amit Keren , Ophir M. Auslaender

The common idea behind complexity reduction in physical systems is separation of information into "physically meaningful" and "safely ignorable". Here we consider a generic notion of such separation -- implemented by coarse-graining the…

Quantum Physics · Physics 2018-06-04 Oleg Kabernik