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A general method for parameter estimation in light-response models

Selecting appropriate initial values is critical for parameter estimation in nonlinear photosynthetic light response models. Failed convergence often occurs due to wrongly selected initial values when using currently available methods, especially the kind of local optimization. There are no reliable...

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Detalles Bibliográficos
Autores principales: Chen, Lei, Li, Zhong-Bin, Hui, Cang, Cheng, Xiaofei, Li, Bai-Lian, Shi, Pei-Jian
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group 2016
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4904205/
https://www.ncbi.nlm.nih.gov/pubmed/27291688
http://dx.doi.org/10.1038/srep27905
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author Chen, Lei
Li, Zhong-Bin
Hui, Cang
Cheng, Xiaofei
Li, Bai-Lian
Shi, Pei-Jian
author_facet Chen, Lei
Li, Zhong-Bin
Hui, Cang
Cheng, Xiaofei
Li, Bai-Lian
Shi, Pei-Jian
author_sort Chen, Lei
collection PubMed
description Selecting appropriate initial values is critical for parameter estimation in nonlinear photosynthetic light response models. Failed convergence often occurs due to wrongly selected initial values when using currently available methods, especially the kind of local optimization. There are no reliable methods that can resolve the conundrum of selecting appropriate initial values. After comparing the performance of the Levenberg–Marquardt algorithm and other three algorithms for global optimization, we develop a general method for parameter estimation in four photosynthetic light response models, based on the use of Differential Evolution (DE). The new method was shown to successfully provide good fits (R(2) > 0.98) and robust parameter estimates for 42 datasets collected for 21 plant species under the same initial values. It suggests that the DE algorithm can efficiently resolve the issue of hyper initial-value sensitivity when using local optimization methods. Therefore, the DE method can be applied to fit the light-response curves of various species without considering the initial values.
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spelling pubmed-49042052016-06-14 A general method for parameter estimation in light-response models Chen, Lei Li, Zhong-Bin Hui, Cang Cheng, Xiaofei Li, Bai-Lian Shi, Pei-Jian Sci Rep Article Selecting appropriate initial values is critical for parameter estimation in nonlinear photosynthetic light response models. Failed convergence often occurs due to wrongly selected initial values when using currently available methods, especially the kind of local optimization. There are no reliable methods that can resolve the conundrum of selecting appropriate initial values. After comparing the performance of the Levenberg–Marquardt algorithm and other three algorithms for global optimization, we develop a general method for parameter estimation in four photosynthetic light response models, based on the use of Differential Evolution (DE). The new method was shown to successfully provide good fits (R(2) > 0.98) and robust parameter estimates for 42 datasets collected for 21 plant species under the same initial values. It suggests that the DE algorithm can efficiently resolve the issue of hyper initial-value sensitivity when using local optimization methods. Therefore, the DE method can be applied to fit the light-response curves of various species without considering the initial values. Nature Publishing Group 2016-06-13 /pmc/articles/PMC4904205/ /pubmed/27291688 http://dx.doi.org/10.1038/srep27905 Text en Copyright © 2016, Macmillan Publishers Limited http://creativecommons.org/licenses/by/4.0/ This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/
spellingShingle Article
Chen, Lei
Li, Zhong-Bin
Hui, Cang
Cheng, Xiaofei
Li, Bai-Lian
Shi, Pei-Jian
A general method for parameter estimation in light-response models
title A general method for parameter estimation in light-response models
title_full A general method for parameter estimation in light-response models
title_fullStr A general method for parameter estimation in light-response models
title_full_unstemmed A general method for parameter estimation in light-response models
title_short A general method for parameter estimation in light-response models
title_sort general method for parameter estimation in light-response models
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4904205/
https://www.ncbi.nlm.nih.gov/pubmed/27291688
http://dx.doi.org/10.1038/srep27905
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