Enhanced Sampling in the Age of Machine Learning: Algorithms and Applications.

Journal: Chemical reviews
Published Date:

Abstract

Molecular dynamics simulations hold great promise for providing insight into the microscopic behavior of complex molecular systems. However, their effectiveness is often constrained by long timescales associated with rare events. Enhanced sampling methods have been developed to address these challenges, and recent years have seen a growing integration with machine learning techniques. This Review provides a comprehensive overview of how they are reshaping the field, with a particular focus on the data-driven construction of collective variables. Furthermore, these techniques have also improved biasing schemes and unlocked novel strategies via reinforcement learning and generative approaches. In addition to methodological advances, we highlight applications spanning different areas, such as biomolecular processes, ligand binding, catalytic reactions, and phase transitions. We conclude by outlining future directions aimed at enabling more automated strategies for rare-event sampling.

Authors

  • Kai Zhu
    Department of Urology, The First Affiliated Hospital of Nanjing Medical University, Nanjing 210029, China.
  • Enrico Trizio
    Atomistic Simulations, Istituto Italiano di Tecnologia, Via Enrico Melen 83, 16142 Genoa, Italy.
  • Jintu Zhang
    Innovation Institute for Artificial Intelligence in Medicine of Zhejiang University, College of Pharmaceutical Sciences, Zhejiang University, Hangzhou, Zhejiang, China.
  • Renling Hu
    College of Chemistry, Sichuan University Chengdu 610064 People's Republic of China [email protected] +86 028 8541 2290.
  • Linlong Jiang
    College of Pharmaceutical Sciences, Zhejiang University, Hangzhou, Zhejiang, 310058, China.
  • Tingjun Hou
    College of Pharmaceutical Sciences, Zhejiang University , Hangzhou, Zhejiang 310058, China.
  • Luigi Bonati
    Atomistic Simulations, Italian Institute of Technology, Via Enrico Melen 83, 16142 Genoa, Italy.

Keywords

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