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Learning neural network potentials from experimental data via Differentiable Trajectory Reweighting
In molecular dynamics (MD), neural network (NN) potentials trained bottom-up on quantum mechanical data have seen tremendous success recently. Top-down approaches that learn NN potentials directly from experimental data have received less attention, typically facing numerical and computational chall...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8617111/ https://www.ncbi.nlm.nih.gov/pubmed/34824254 http://dx.doi.org/10.1038/s41467-021-27241-4 |
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author | Thaler, Stephan Zavadlav, Julija |
author_facet | Thaler, Stephan Zavadlav, Julija |
author_sort | Thaler, Stephan |
collection | PubMed |
description | In molecular dynamics (MD), neural network (NN) potentials trained bottom-up on quantum mechanical data have seen tremendous success recently. Top-down approaches that learn NN potentials directly from experimental data have received less attention, typically facing numerical and computational challenges when backpropagating through MD simulations. We present the Differentiable Trajectory Reweighting (DiffTRe) method, which bypasses differentiation through the MD simulation for time-independent observables. Leveraging thermodynamic perturbation theory, we avoid exploding gradients and achieve around 2 orders of magnitude speed-up in gradient computation for top-down learning. We show effectiveness of DiffTRe in learning NN potentials for an atomistic model of diamond and a coarse-grained model of water based on diverse experimental observables including thermodynamic, structural and mechanical properties. Importantly, DiffTRe also generalizes bottom-up structural coarse-graining methods such as iterative Boltzmann inversion to arbitrary potentials. The presented method constitutes an important milestone towards enriching NN potentials with experimental data, particularly when accurate bottom-up data is unavailable. |
format | Online Article Text |
id | pubmed-8617111 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-86171112021-12-10 Learning neural network potentials from experimental data via Differentiable Trajectory Reweighting Thaler, Stephan Zavadlav, Julija Nat Commun Article In molecular dynamics (MD), neural network (NN) potentials trained bottom-up on quantum mechanical data have seen tremendous success recently. Top-down approaches that learn NN potentials directly from experimental data have received less attention, typically facing numerical and computational challenges when backpropagating through MD simulations. We present the Differentiable Trajectory Reweighting (DiffTRe) method, which bypasses differentiation through the MD simulation for time-independent observables. Leveraging thermodynamic perturbation theory, we avoid exploding gradients and achieve around 2 orders of magnitude speed-up in gradient computation for top-down learning. We show effectiveness of DiffTRe in learning NN potentials for an atomistic model of diamond and a coarse-grained model of water based on diverse experimental observables including thermodynamic, structural and mechanical properties. Importantly, DiffTRe also generalizes bottom-up structural coarse-graining methods such as iterative Boltzmann inversion to arbitrary potentials. The presented method constitutes an important milestone towards enriching NN potentials with experimental data, particularly when accurate bottom-up data is unavailable. Nature Publishing Group UK 2021-11-25 /pmc/articles/PMC8617111/ /pubmed/34824254 http://dx.doi.org/10.1038/s41467-021-27241-4 Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . |
spellingShingle | Article Thaler, Stephan Zavadlav, Julija Learning neural network potentials from experimental data via Differentiable Trajectory Reweighting |
title | Learning neural network potentials from experimental data via Differentiable Trajectory Reweighting |
title_full | Learning neural network potentials from experimental data via Differentiable Trajectory Reweighting |
title_fullStr | Learning neural network potentials from experimental data via Differentiable Trajectory Reweighting |
title_full_unstemmed | Learning neural network potentials from experimental data via Differentiable Trajectory Reweighting |
title_short | Learning neural network potentials from experimental data via Differentiable Trajectory Reweighting |
title_sort | learning neural network potentials from experimental data via differentiable trajectory reweighting |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8617111/ https://www.ncbi.nlm.nih.gov/pubmed/34824254 http://dx.doi.org/10.1038/s41467-021-27241-4 |
work_keys_str_mv | AT thalerstephan learningneuralnetworkpotentialsfromexperimentaldataviadifferentiabletrajectoryreweighting AT zavadlavjulija learningneuralnetworkpotentialsfromexperimentaldataviadifferentiabletrajectoryreweighting |