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Learning the non-equilibrium dynamics of Brownian movies

Time-lapse microscopy imaging provides direct access to the dynamics of soft and living systems. At mesoscopic scales, such microscopy experiments reveal intrinsic thermal and non-equilibrium fluctuations. These fluctuations, together with measurement noise, pose a challenge for the dynamical analys...

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Autores principales: Gnesotto, Federico S., Gradziuk, Grzegorz, Ronceray, Pierre, Broedersz, Chase P.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7585442/
https://www.ncbi.nlm.nih.gov/pubmed/33097699
http://dx.doi.org/10.1038/s41467-020-18796-9
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author Gnesotto, Federico S.
Gradziuk, Grzegorz
Ronceray, Pierre
Broedersz, Chase P.
author_facet Gnesotto, Federico S.
Gradziuk, Grzegorz
Ronceray, Pierre
Broedersz, Chase P.
author_sort Gnesotto, Federico S.
collection PubMed
description Time-lapse microscopy imaging provides direct access to the dynamics of soft and living systems. At mesoscopic scales, such microscopy experiments reveal intrinsic thermal and non-equilibrium fluctuations. These fluctuations, together with measurement noise, pose a challenge for the dynamical analysis of these Brownian movies. Traditionally, methods to analyze such experimental data rely on tracking embedded or endogenous probes. However, it is in general unclear, especially in complex many-body systems, which degrees of freedom are the most informative about their non-equilibrium nature. Here, we introduce an alternative, tracking-free approach that overcomes these difficulties via an unsupervised analysis of the Brownian movie. We develop a dimensional reduction scheme selecting a basis of modes based on dissipation. Subsequently, we learn the non-equilibrium dynamics, thereby estimating the entropy production rate and time-resolved force maps. After benchmarking our method against a minimal model, we illustrate its broader applicability with an example inspired by active biopolymer gels.
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spelling pubmed-75854422020-10-29 Learning the non-equilibrium dynamics of Brownian movies Gnesotto, Federico S. Gradziuk, Grzegorz Ronceray, Pierre Broedersz, Chase P. Nat Commun Article Time-lapse microscopy imaging provides direct access to the dynamics of soft and living systems. At mesoscopic scales, such microscopy experiments reveal intrinsic thermal and non-equilibrium fluctuations. These fluctuations, together with measurement noise, pose a challenge for the dynamical analysis of these Brownian movies. Traditionally, methods to analyze such experimental data rely on tracking embedded or endogenous probes. However, it is in general unclear, especially in complex many-body systems, which degrees of freedom are the most informative about their non-equilibrium nature. Here, we introduce an alternative, tracking-free approach that overcomes these difficulties via an unsupervised analysis of the Brownian movie. We develop a dimensional reduction scheme selecting a basis of modes based on dissipation. Subsequently, we learn the non-equilibrium dynamics, thereby estimating the entropy production rate and time-resolved force maps. After benchmarking our method against a minimal model, we illustrate its broader applicability with an example inspired by active biopolymer gels. Nature Publishing Group UK 2020-10-23 /pmc/articles/PMC7585442/ /pubmed/33097699 http://dx.doi.org/10.1038/s41467-020-18796-9 Text en © The Author(s) 2020 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/.
spellingShingle Article
Gnesotto, Federico S.
Gradziuk, Grzegorz
Ronceray, Pierre
Broedersz, Chase P.
Learning the non-equilibrium dynamics of Brownian movies
title Learning the non-equilibrium dynamics of Brownian movies
title_full Learning the non-equilibrium dynamics of Brownian movies
title_fullStr Learning the non-equilibrium dynamics of Brownian movies
title_full_unstemmed Learning the non-equilibrium dynamics of Brownian movies
title_short Learning the non-equilibrium dynamics of Brownian movies
title_sort learning the non-equilibrium dynamics of brownian movies
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7585442/
https://www.ncbi.nlm.nih.gov/pubmed/33097699
http://dx.doi.org/10.1038/s41467-020-18796-9
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