Related papers: Basic Types of Coarse-Graining
Two very basic constructions involving experimental procedures are the formation of coarse-grained versions of experiments, and the formation of branching sequential experiments. The latter allow for the conditioning of states on the…
Self-organized pattern formation is vital for many biological processes. Reaction-diffusion models have advanced our understanding of how biological systems develop spatial structures, starting from homogeneity. However, biological…
Regarding the strange properties of quantum entropy and entanglement, e.g., the negative quantum conditional entropy, we revisited the foundations of quantum entropy, namely, von Neumann entropy, and raised the new method of quantum…
Starting from the stochastic thermodynamics description of two coupled underdamped Brownian particles, we showcase and compare three different coarse-graining schemes leading to an effective thermodynamic description for the first of the…
Two approaches exist to account for granular dynamics: The athermal one takes grains as elementary, the thermal one considers the total entropy that includes microscopic degrees of freedom such as phonons and electrons. Discrete element…
A two-dimensional lattice gas model is proposed. The ground state of this model with a fixed density is neither periodic nor quasi-periodic. It also depends on system size in an irregular manner. On the other hand, it is ordered in the…
Tissue dynamics and collective cell motion are crucial biological processes. Their biological machinery is mostly known, and simulation models such as the "active vertex model" (AVM) exist and yield reasonable agreement with experimental…
We consider two- and three-dimensional lattice models of proteins which were characterized previously. We coarse grain their folding dynamics by reducing it to transitions between effective states. We consider two methods of selection of…
The mechanism of irreversible dynamics in the systems with mixing is analyzed. The procedure of splitting of system on equilibrium subsystems and studying of dynamics of one of them under condition of its interaction with other subsystems…
We present a dynamic coarse-graining technique that allows to simulate the mechanical unfolding of biomolecules or molecular complexes on experimentally relevant time scales. It is based on Markov state models (MSM), which we construct from…
We consider the grain growth and stagnation in polycrystalline microstructures. From the phase field crystal modelling of the coarsening dynamics, we identify a transition from a grain-growth stagnation upon deep quenching below the melting…
We assess Coarse Graining by studying different partitions of the phase space of the Baker transformation and the periodic torus automorphisms. It turns out that the shape of autocorrelation functions for the Baker transformation is more or…
The recursive property of entropy is well known in information theory; however, the concept is underutilized in thermodynamics, despite being the field where the concept of entropy originated. The zentropy approach is built on this idea,…
Bottom-up coarse-grained (CG) modeling expands the spatial and temporal scales of molecular simulation by seeking a reduced, thermodynamically consistent representation of an atomistic model. Developments in CG theory have largely focused…
Observational entropy captures both the intrinsic uncertainty of a thermodynamic state and the lack of knowledge due to coarse-graining. We demonstrate two interpretations of observational entropy, one as the statistical deficiency…
In this report we introduce the basic techniques (of the Closed Time Path - Coarse Grained Effective Action CTP-CGEA) and ideas (scaling, coarse-graining and backreaction) behind the treatment of quantum processes in dynamical background…
We present a proof of the monotonic entropy growth for a nonlinear discrete-time model of a random market. This model, based on binary collisions, also may be viewed as a particular case of Ulam's redistribution of energy problem. We…
We examine two basic assumptions of kinetic theory-- binary collisions and molecular chaos-- using numerical simulations of sheared granular materials. We investigate a wide range of densities and restitution coefficients and demonstrate…
We formulate the problem of finding the low-energy limit of spin foam models as a coarse-graining problem in the sense of statistical physics. This suggests that renormalization group methods may be used to find that limit. However, since…
Fluctuating entropy production is studied for a set of linearly coupled complex fields. The general result is applied to non-equilibrium fluctuating hydrodynamic equations for coarse-grained fields (density, temperature and velocity), in…