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Many cellular and subcellular biological processes can be described in terms of diffusing and chemically reacting species (e.g. enzymes). Such reaction-diffusion processes can be mathematically modelled using either deterministic…

Biological Physics · Physics 2015-06-26 Radek Erban , S. Jonathan Chapman

Inspired by many examples in nature, stochastic resetting of random processes has been studied extensively in the past decade. In particular, various models of stochastic particle motion were considered where upon resetting the particle is…

Statistical Mechanics · Physics 2022-11-23 Ofir Tal-Friedman , Yael Roichman , Shlomi Reuveni

Inspired by the recent developments in modeling and analysis of reaction networks, we provide a geometric formulation of the reversible reaction networks under the influence of diffusion. Using the graph knowledge of the underlying reaction…

Systems and Control · Computer Science 2012-12-21 Marko Seslija , Arjan van der Schaft , Jacquelien M. A. Scherpen

Brownian Dynamics algorithms are widely used for simulating soft-matter and biochemical systems. In recent times, their application has been extended to the simulation of coarse-grained models of cellular networks in simple organisms. In…

Quantitative Methods · Quantitative Biology 2009-11-13 Marco J. Morelli , Pieter Rein ten Wolde

Reaction networks are widely used models to describe biochemical processes. Stochastic fluctuations in the counts of biological macromolecules have amplified consequences due to their small population sizes. This makes it necessary to favor…

Probability · Mathematics 2022-02-28 Daniele Cappelletti , Badal Joshi

Reaction-diffusion models are used to describe systems in fields as diverse as physics, chemistry, ecology and biology. The fundamental quantities in such models are individual entities such as atoms and molecules, bacteria, cells or…

Computational Physics · Physics 2016-03-02 Fabian Spill , Pilar Guerrero , Tomas Alarcon , Philip K. Maini , Helen Byrne

The renormalization group method has been adapted to the analysis of the long-time behavior of non-linear partial differential equation and has demonstrated its power in the study of critical phenomena of gravitational collapse. In the…

General Relativity and Quantum Cosmology · Physics 2008-11-26 Osamu Iguchi , Akio Hosoya , Tatsuhiko Koike

The explicit evaluation of linear response coefficients for interacting many-particle systems still poses a considerable challenge to theoreticians. In this work we use a novel many-particle renormalization technique, the so-called…

Strongly Correlated Electrons · Physics 2015-06-18 Van-Nham Phan , Klaus W. Becker , Holger Fehske

We present a real-space renormalization group approach for the corner Hamiltonian, which is relevant to the reduced density matrix in the density matrix renormalization group. A set of self-consistent equations that the renormalized…

Statistical Mechanics · Physics 2007-05-23 Kouichi Okunishi

We introduce a versatile and practical framework for applying matrix product state techniques to continuous quantum systems. We divide space into multiple segments and generate continuous basis functions for the many-body state in each…

Quantum Gases · Physics 2022-06-09 Shovan Dutta , Anton Buyskikh , Andrew J. Daley , Erich J. Mueller

In the context of real-space renormalization group methods, we propose a novel scheme for quantum systems defined on a D-dimensional lattice. It is based on a coarse-graining transformation that attempts to reduce the amount of entanglement…

Strongly Correlated Electrons · Physics 2015-06-25 Guifre Vidal

The presence of fluctuations and non-linear interactions can lead to scale dependence in the parameters appearing in stochastic differential equations. Stochastic dynamics can be formulated in terms of functional integrals. In this paper we…

Statistical Mechanics · Physics 2009-10-31 David Hochberg , Carmen Molina-Paris , Matt Visser

We review the application of field-theoretic renormalization group (RG) methods to the study of fluctuations in reaction-diffusion problems. We first investigate the physical origin of universality in these systems, before comparing RG…

Statistical Mechanics · Physics 2007-05-23 Uwe C. Tauber , Martin Howard , Benjamin P. Vollmayr-Lee

Based on the Renormalization Group method, a reduction of non integrable multi-dimensional hamiltonian systems has been performed. The evolution equations for the slowly varying part of the angle-averaged phase space density, and for the…

Accelerator Physics · Physics 2008-11-26 Stephan I. Tzenov

The functional renormalization group method is used to take into account the vacuum polarization around localized bound states generated by external potential. The application to Atomic Physics leads to improved Hartree-Fock and Kohn-Sham…

Strongly Correlated Electrons · Physics 2007-05-23 Janos Polonyi

Complex behaviour in many systems arises from the stochastic interactions of spatially distributed particles or agents. Stochastic reaction-diffusion processes are widely used to model such behaviour in disciplines ranging from biology to…

Statistical Mechanics · Physics 2016-08-23 David Schnoerr , Ramon Grima , Guido Sanguinetti

We study stochastic particle systems with stationary product measures that exhibit a condensation transition due to particle interactions or spatial inhomogeneities. We review previous work on the stationary behaviour and put it in the…

Statistical Mechanics · Physics 2014-02-19 Paul Chleboun , Stefan Grosskinsky

We present a theory of resonant processes in a frozen gas of atoms interacting via dipole-dipole potentials that vary as $r^{-3}$, where $r$ is the interatomic separation. We supply an exact result for a single atom in a given state…

Disordered Systems and Neural Networks · Physics 2009-10-31 J. S. Frasier , V. Celli , T. Blum

The configuration interaction (CI) method for calculating the exact eigenstates of a quantum-mechanical few-body system is problematic when applied to particles interacting through contact forces. In dimensions higher than one the approach…

Mesoscale and Nanoscale Physics · Physics 2017-03-28 M. Rontani , G. Eriksson , S. Åberg , S. M. Reimann

The classical models for irreversible diffusion-influenced reactions can be derived by introducing absorbing boundary conditions to over-damped continuous Brownian motion (BM) theory. As there is a clear corresponding stochastic process,…

Statistical Mechanics · Physics 2016-10-13 Mauricio J. Del Razo , Hong Qian