Efficient sampling of free energy landscapes with functions in Sobolev spaces

Molecular simulations of biological and physical phenomena generally involve sampling complicated, rough energy landscapes characterized by multiple local minima. In this work, we introduce a new family of methods for advanced sampling that draw inspiration from functional representations used in machine learning and approximation theory. As shown here, such representations are particularly well suited for learning free energies using artificial neural networks. As a system evolves through phase space, the proposed methods gradually build a model for the free energy as a function of one or more collective variables, from both the frequency of visits to distinct states and generalized force estimates corresponding to such states. Implementation of the methods is relatively simple and, more importantly, for the representative examples considered in this work, they provide computational efficiency gains of up to several orders of magnitude over other widely used simulation techniques.

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Publication Details

Journal
The Journal of Chemical Physics
Published
2025-02-26
DOI
https://doi.org/10.1063/5.0221263
Citations
2
Primary Topic
Protein Structure and Dynamics
Type
article
Field-Weighted Citation Impact
1.61

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article

Efficient sampling of free energy landscapes with functions in Sobolev spaces

Pablo F. Zubieta Rico, Juan Pablo, Gustavo R. Pérez-Lemus
2 citations
The Journal of Chemical Physics
Protein Structure and Dynamics
1.61
article

Efficient sampling of free energy landscapes with functions in Sobolev spaces

Pablo F. Zubieta Rico, Juan Pablo, Gustavo R. Pérez-Lemus
article en
2 citations

Abstract

Molecular simulations of biological and physical phenomena generally involve sampling complicated, rough energy landscapes characterized by multiple local minima. In this work, we introduce a new family of methods for advanced sampling that draw inspiration from functional representations used in machine learning and approximation theory. As shown here, such representations are particularly well suited for learning free energies using artificial neural networks. As a system evolves through phase space, the proposed methods gradually build a model for the free energy as a function of one or more collective variables, from both the frequency of visits to distinct states and generalized force estimates corresponding to such states. Implementation of the methods is relatively simple and, more importantly, for the representative examples considered in this work, they provide computational efficiency gains of up to several orders of magnitude over other widely used simulation techniques.

The Journal of Chemical PhysicsVol. 162(8)
Argonne National Laboratory (US), Courant Institute of Mathematical Sciences (US), University of Chicago (US), New York University (US)
Midwest Integrated Center for Computational Materials
Affordable and clean energy
Openalex Percentile: Top 19%
Protein Structure and Dynamics
1.61
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