Navigating Phase Transitions with Path-Finding Algorithms: A Strategic Approach to Replica Exchange Monte Carlo

The replica exchange method is a powerful tool for overcoming slow relaxation in molecular simulations, but its efficiency depends strongly on the choice of the number and interval of replicas and their exchange probabilities. Here, we propose a new optimization scheme based on the Dijkstra algorithm that constructs an optimal exchange path by representing replicas and their exchange probabilities on a graph. Inspired by path-finding techniques widely used in computer science, including applications in game algorithms, our approach ensures that transitions follow a minimum entropy gradient path and effectively speeds up sampling even in systems exhibiting slow relaxation near critical points or phase transition regions. The method provides a systematic way to improve replica exchange efficiency and offers new insights into the control of relaxation dynamics, as demonstrated through applications to the solid-liquid phase transition of the Lennard-Jones bulk system.

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Publication Details

Journal
Journal of Chemical Information and Modeling
Published
2025-10-11
DOI
https://doi.org/10.1021/acs.jcim.5c01341
Primary Topic
Protein Structure and Dynamics
Type
article
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article

Navigating Phase Transitions with Path-Finding Algorithms: A Strategic Approach to Replica Exchange Monte Carlo

Kenji Yasuoka, Paul E. Brumby, Akie Kowaguchi, Katsuhiro Endo et al.
Journal of Chemical Information and Modeling
Protein Structure and Dynamics
article

Navigating Phase Transitions with Path-Finding Algorithms: A Strategic Approach to Replica Exchange Monte Carlo

Kenji Yasuoka, Paul E. Brumby, Akie Kowaguchi, Katsuhiro Endo, Shuichi Kurabayashi, Kentaro Nomura
article en

Abstract

The replica exchange method is a powerful tool for overcoming slow relaxation in molecular simulations, but its efficiency depends strongly on the choice of the number and interval of replicas and their exchange probabilities. Here, we propose a new optimization scheme based on the Dijkstra algorithm that constructs an optimal exchange path by representing replicas and their exchange probabilities on a graph. Inspired by path-finding techniques widely used in computer science, including applications in game algorithms, our approach ensures that transitions follow a minimum entropy gradient path and effectively speeds up sampling even in systems exhibiting slow relaxation near critical points or phase transition regions. The method provides a systematic way to improve replica exchange efficiency and offers new insights into the control of relaxation dynamics, as demonstrated through applications to the solid-liquid phase transition of the Lennard-Jones bulk system.

Journal of Chemical Information and ModelingVol. 65(21)
Keio University (JP), Advanced Engineering Services (Japan) (JP), Shibuya (Japan) (JP), Preferred Networks (Japan) (JP)
Openalex Percentile: Top 75%
Protein Structure and Dynamics
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Navigating Phase Transitions with Path-Finding Algorithms: A Strategic Approach to Replica Exchange Monte Carlo — Kenji Yasuoka, Paul E. Brumby, et al. · Journal of Chemical Information and Modeling (2025) | TGRS Research Map | TGRS