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Smoothed Biasing Forces Yield Unbiased Free Energies with the Extended-System Adaptive Biasing Force Method

[Image: see text] We report a theoretical description and numerical tests of the extended-system adaptive biasing force method (eABF), together with an unbiased estimator of the free energy surface from eABF dynamics. Whereas the original ABF approach uses its running estimate of the free energy gra...

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Autores principales: Lesage, Adrien, Lelièvre, Tony, Stoltz, Gabriel, Hénin, Jérôme
Formato: Online Artículo Texto
Lenguaje:English
Publicado: American Chemical Society 2016
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5402294/
https://www.ncbi.nlm.nih.gov/pubmed/27959559
http://dx.doi.org/10.1021/acs.jpcb.6b10055
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author Lesage, Adrien
Lelièvre, Tony
Stoltz, Gabriel
Hénin, Jérôme
author_facet Lesage, Adrien
Lelièvre, Tony
Stoltz, Gabriel
Hénin, Jérôme
author_sort Lesage, Adrien
collection PubMed
description [Image: see text] We report a theoretical description and numerical tests of the extended-system adaptive biasing force method (eABF), together with an unbiased estimator of the free energy surface from eABF dynamics. Whereas the original ABF approach uses its running estimate of the free energy gradient as the adaptive biasing force, eABF is built on the idea that the exact free energy gradient is not necessary for efficient exploration, and that it is still possible to recover the exact free energy separately with an appropriate estimator. eABF does not directly bias the collective coordinates of interest, but rather fictitious variables that are harmonically coupled to them; therefore is does not require second derivative estimates, making it easily applicable to a wider range of problems than ABF. Furthermore, the extended variables present a smoother, coarse-grain-like sampling problem on a mollified free energy surface, leading to faster exploration and convergence. We also introduce CZAR, a simple, unbiased free energy estimator from eABF trajectories. eABF/CZAR converges to the physical free energy surface faster than standard ABF for a wide range of parameters.
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spelling pubmed-54022942017-04-26 Smoothed Biasing Forces Yield Unbiased Free Energies with the Extended-System Adaptive Biasing Force Method Lesage, Adrien Lelièvre, Tony Stoltz, Gabriel Hénin, Jérôme J Phys Chem B [Image: see text] We report a theoretical description and numerical tests of the extended-system adaptive biasing force method (eABF), together with an unbiased estimator of the free energy surface from eABF dynamics. Whereas the original ABF approach uses its running estimate of the free energy gradient as the adaptive biasing force, eABF is built on the idea that the exact free energy gradient is not necessary for efficient exploration, and that it is still possible to recover the exact free energy separately with an appropriate estimator. eABF does not directly bias the collective coordinates of interest, but rather fictitious variables that are harmonically coupled to them; therefore is does not require second derivative estimates, making it easily applicable to a wider range of problems than ABF. Furthermore, the extended variables present a smoother, coarse-grain-like sampling problem on a mollified free energy surface, leading to faster exploration and convergence. We also introduce CZAR, a simple, unbiased free energy estimator from eABF trajectories. eABF/CZAR converges to the physical free energy surface faster than standard ABF for a wide range of parameters. American Chemical Society 2016-12-13 2017-04-20 /pmc/articles/PMC5402294/ /pubmed/27959559 http://dx.doi.org/10.1021/acs.jpcb.6b10055 Text en Copyright © 2016 American Chemical Society This is an open access article published under an ACS AuthorChoice License (http://pubs.acs.org/page/policy/authorchoice_termsofuse.html) , which permits copying and redistribution of the article or any adaptations for non-commercial purposes.
spellingShingle Lesage, Adrien
Lelièvre, Tony
Stoltz, Gabriel
Hénin, Jérôme
Smoothed Biasing Forces Yield Unbiased Free Energies with the Extended-System Adaptive Biasing Force Method
title Smoothed Biasing Forces Yield Unbiased Free Energies with the Extended-System Adaptive Biasing Force Method
title_full Smoothed Biasing Forces Yield Unbiased Free Energies with the Extended-System Adaptive Biasing Force Method
title_fullStr Smoothed Biasing Forces Yield Unbiased Free Energies with the Extended-System Adaptive Biasing Force Method
title_full_unstemmed Smoothed Biasing Forces Yield Unbiased Free Energies with the Extended-System Adaptive Biasing Force Method
title_short Smoothed Biasing Forces Yield Unbiased Free Energies with the Extended-System Adaptive Biasing Force Method
title_sort smoothed biasing forces yield unbiased free energies with the extended-system adaptive biasing force method
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5402294/
https://www.ncbi.nlm.nih.gov/pubmed/27959559
http://dx.doi.org/10.1021/acs.jpcb.6b10055
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