Efficient Monte Carlo methods for the computer simulation of biological molecules

Djamal Bouzida, Shankar Kumar, and Robert H. Swendsen
Phys. Rev. A 45, 8894 – Published 1 June 1992
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Abstract

We present an alternative approach to efficient Monte Carlo simulations of biological molecules. By relaxing the usual restriction to Markov processes, we are able to optimize performance while dealing directly with the inhomogeneity and anisotropy inherent in these systems. This approach allows us to sample configurational space more efficiently than with either standard Monte Carlo or molecular-dynamics methods.

  • Received 29 August 1991

DOI:https://doi.org/10.1103/PhysRevA.45.8894

©1992 American Physical Society

Authors & Affiliations

Djamal Bouzida

  • Department of Physics, Carnegie Mellon University, Pittsburgh, Pennsylvania 15213

Shankar Kumar

  • Department of Biological Sciences, University of Pittsburgh, Pittsburgh, Pennsylvania 15260

Robert H. Swendsen

  • Department of Physics, Carnegie Mellon University, Pittsburgh, Pennsylvania 15213

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Vol. 45, Iss. 12 — June 1992

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