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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...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group
2016
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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. |
format | Online Article Text |
id | pubmed-4904205 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2016 |
publisher | Nature Publishing Group |
record_format | MEDLINE/PubMed |
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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