Coarse-grained stochastic processes for microscopic lattice systems

Proc Natl Acad Sci U S A. 2003 Feb 4;100(3):782-7. doi: 10.1073/pnas.242741499. Epub 2003 Jan 27.

Abstract

Diverse scientific disciplines ranging from materials science to catalysis to biomolecular dynamics to climate modeling involve nonlinear interactions across a large range of physically significant length scales. Here a class of coarse-grained stochastic processes and corresponding Monte Carlo simulation methods, describing computationally feasible mesoscopic length scales, are derived directly from microscopic lattice systems. It is demonstrated below that the coarse-grained stochastic models can capture large-scale structures while retaining significant microscopic information. The requirement of detailed balance is used as a systematic design principle to guarantee correct noise fluctuations for the coarse-grained model. The coarse-grained stochastic algorithms provide large computational savings without increasing programming complexity or computer time per executive event compared to microscopic Monte Carlo simulations.

Publication types

  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Algorithms
  • Biophysical Phenomena
  • Biophysics
  • Kinetics
  • Microscopy / methods*
  • Monte Carlo Method
  • Time Factors