Nested stochastic simulation algorithms for chemical kinetic systems with multiple time scales
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Publication:870533
DOI10.1016/J.JCP.2006.06.019zbMATH Open1162.80003OpenAlexW2161279434MaRDI QIDQ870533FDOQ870533
Weinan E, Di Liu, Eric Vanden-Eijnden
Publication date: 13 March 2007
Published in: Journal of Computational Physics (Search for Journal in Brave)
Full work available at URL: https://doi.org/10.1016/j.jcp.2006.06.019
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homogenizationcontinuous-time Markov chainsstochastic modelingstochastic Petri netsGillespie algorithmmultiscale numerical methodsaveraging theoremschemical kinetic systemschemical master equationskinetic Monte-Carlomulti-scale computation
Monte Carlo methods (65C05) Chemical kinetics in thermodynamics and heat transfer (80A30) Classical flows, reactions, etc. in chemistry (92E20)
Cites Work
- Title not available (Why is that?)
- Heterogeneous multiscale methods for stiff ordinary differential equations
- Stability of Markovian processes I: criteria for discrete-time Chains
- On Stochastic Processes Defined by Differential Equations with a Small Parameter
- A limit theorem for perturbed operator semigroups with applications to random evolutions
- Title not available (Why is that?)
- Multiscale stochastic simulation algorithm with stochastic partial equilibrium assumption for chemically reacting systems
- Analysis of multiscale methods for stochastic differential equations
- Title not available (Why is that?)
- Numerical techniques for multi-scale dynamical systems with stochastic effects
- NOTE ON THE SIMPLE COLLISION THEORY OF BIMOLECULAR REACTIONS
- Constructing asymptotic series for probability distributions of Markov chains with weak and strong interactions
Cited In (41)
- Stationary Averaging for Multiscale Continuous Time Markov Chains Using Parallel Replica Dynamics
- IMPLICIT SIMULATION METHODS FOR STOCHASTIC CHEMICAL KINETICS
- Variational integrators for electric circuits
- The linear noise approximation for spatially dependent biochemical networks
- Approximation and inference methods for stochastic biochemical kinetics—a tutorial review
- Hybrid method for the chemical master equation
- Multiscale Simulation of Stochastic Reaction-Diffusion Networks
- A dimer-type saddle search algorithm with preconditioning and linesearch
- Sparse grids and hybrid methods for the chemical master equation
- Multiscale stochastic simulation algorithm with stochastic partial equilibrium assumption for chemically reacting systems
- Averaging of a Stochastic Slow-Fast Model for Population Dynamics: Application to the Development of Ovarian Follicles
- Accelerated stochastic simulation algorithm for coupled chemical reactions with delays
- Discovery of slow variables in a class of multiscale stochastic systems via neural networks
- Transport Map Accelerated Adaptive Importance Sampling, and Application to Inverse Problems Arising from Multiscale Stochastic Reaction Networks
- Title not available (Why is that?)
- A numerical characteristic method for probability generating functions on stochastic first-order reaction networks
- Hybrid discrete/continuum algorithms for stochastic reaction networks
- A reduction method for multiple time scale stochastic reaction networks
- Preconditioned Bayesian regression for stochastic chemical kinetics
- Reliable kinetic Monte Carlo simulation based on random set sampling
- Separation of time-scales and model reduction for stochastic reaction networks
- Estimation of Parameter Sensitivities for Stochastic Reaction Networks Using Tau-Leap Simulations
- Markovian dynamics on complex reaction networks
- Stochastic filtering for multiscale stochastic reaction networks based on hybrid approximations
- An adaptive algorithm for simulation of stochastic reaction-diffusion processes
- Scaling limits of spatial compartment models for chemical reaction networks
- A hierarchy of approximations of the master equation scaled by a size parameter
- A geometric analysis of fast-slow models for stochastic gene expression
- A mathematical and computational approach for integrating the major sources of cell population heterogeneity
- Stochastic reduction method for biological chemical kinetics using time-scale separation
- Numerical Methods for Stochastic Simulation: When Stochastic Integration Meets Geometric Numerical Integration
- Strong convergence of multi-scale stochastic differential equations with a full dependence
- Coupling sample paths to the thermodynamic limit in Monte Carlo estimators with applications to gene expression
- Computational Identification of Irreducible State-Spaces for Stochastic Reaction Networks
- Sensitivity analysis for multiscale stochastic reaction networks using hybrid approximations
- Modeling fast diffusion processes in time integration of stiff stochastic differential equations
- Product-form stationary distributions for deficiency zero networks with non-mass action kinetics
- Effective dynamics for a kinetic Monte-Carlo model with slow and fast time scales
- A numerical scheme for optimal transition paths of stochastic chemical kinetic systems
- Slow-scale split-step tau-leap method for stiff stochastic chemical systems
- Semantics and Efficient Simulation Algorithms of an Expressive Multilevel Modeling Language
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