OCRbayes: A Bayesian hierarchical modeling framework for Seahorse extracellular flux oxygen consumption rate data analysis.

<h4>Background</h4>Mitochondrial dysfunction is involved in many complex diseases. Efficient and accurate evaluation of mitochondrial functionality is crucial for understanding pathology as well as facilitating novel therapeutic developments. As a popular platform, Seahorse extracellular...

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Autores principales:	Xiang Zhang, Taolin Yuan, Jaap Keijer, Vincent C J de Boer
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/484bcc5c4f5a40f380588677f486fd7b
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spelling	oai:doaj.org-article:484bcc5c4f5a40f380588677f486fd7b2021-12-02T20:06:57ZOCRbayes: A Bayesian hierarchical modeling framework for Seahorse extracellular flux oxygen consumption rate data analysis.1932-620310.1371/journal.pone.0253926https://doaj.org/article/484bcc5c4f5a40f380588677f486fd7b2021-01-01T00:00:00Zhttps://doi.org/10.1371/journal.pone.0253926https://doaj.org/toc/1932-6203<h4>Background</h4>Mitochondrial dysfunction is involved in many complex diseases. Efficient and accurate evaluation of mitochondrial functionality is crucial for understanding pathology as well as facilitating novel therapeutic developments. As a popular platform, Seahorse extracellular flux (XF) analyzer is widely used for measuring mitochondrial oxygen consumption rate (OCR) in living cells. A hidden feature of Seahorse XF OCR data is that it has a complex data structure, caused by nesting and crossing between measurement cycles, wells and plates. Surprisingly, statistical analysis of Seahorse XF data has not received sufficient attention, and current methods completely ignore the complex data structure, impairing the robustness of statistical inference.<h4>Results</h4>To rigorously incorporate the complex structure into data analysis, here we developed a Bayesian hierarchical modeling framework, OCRbayes, and demonstrated its applicability based on analysis of published data sets.<h4>Conclusions</h4>We showed that OCRbayes can analyze Seahorse XF OCR experimental data derived from either single or multiple plates. Moreover, OCRbayes has potential to be used for diagnosing patients with mitochondrial diseases.Xiang ZhangTaolin YuanJaap KeijerVincent C J de BoerPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 16, Iss 7, p e0253926 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Xiang Zhang Taolin Yuan Jaap Keijer Vincent C J de Boer OCRbayes: A Bayesian hierarchical modeling framework for Seahorse extracellular flux oxygen consumption rate data analysis.
description	<h4>Background</h4>Mitochondrial dysfunction is involved in many complex diseases. Efficient and accurate evaluation of mitochondrial functionality is crucial for understanding pathology as well as facilitating novel therapeutic developments. As a popular platform, Seahorse extracellular flux (XF) analyzer is widely used for measuring mitochondrial oxygen consumption rate (OCR) in living cells. A hidden feature of Seahorse XF OCR data is that it has a complex data structure, caused by nesting and crossing between measurement cycles, wells and plates. Surprisingly, statistical analysis of Seahorse XF data has not received sufficient attention, and current methods completely ignore the complex data structure, impairing the robustness of statistical inference.<h4>Results</h4>To rigorously incorporate the complex structure into data analysis, here we developed a Bayesian hierarchical modeling framework, OCRbayes, and demonstrated its applicability based on analysis of published data sets.<h4>Conclusions</h4>We showed that OCRbayes can analyze Seahorse XF OCR experimental data derived from either single or multiple plates. Moreover, OCRbayes has potential to be used for diagnosing patients with mitochondrial diseases.
format	article
author	Xiang Zhang Taolin Yuan Jaap Keijer Vincent C J de Boer
author_facet	Xiang Zhang Taolin Yuan Jaap Keijer Vincent C J de Boer
author_sort	Xiang Zhang
title	OCRbayes: A Bayesian hierarchical modeling framework for Seahorse extracellular flux oxygen consumption rate data analysis.
title_short	OCRbayes: A Bayesian hierarchical modeling framework for Seahorse extracellular flux oxygen consumption rate data analysis.
title_full	OCRbayes: A Bayesian hierarchical modeling framework for Seahorse extracellular flux oxygen consumption rate data analysis.
title_fullStr	OCRbayes: A Bayesian hierarchical modeling framework for Seahorse extracellular flux oxygen consumption rate data analysis.
title_full_unstemmed	OCRbayes: A Bayesian hierarchical modeling framework for Seahorse extracellular flux oxygen consumption rate data analysis.
title_sort	ocrbayes: a bayesian hierarchical modeling framework for seahorse extracellular flux oxygen consumption rate data analysis.
publisher	Public Library of Science (PLoS)
publishDate	2021
url	https://doaj.org/article/484bcc5c4f5a40f380588677f486fd7b
work_keys_str_mv	AT xiangzhang ocrbayesabayesianhierarchicalmodelingframeworkforseahorseextracellularfluxoxygenconsumptionratedataanalysis AT taolinyuan ocrbayesabayesianhierarchicalmodelingframeworkforseahorseextracellularfluxoxygenconsumptionratedataanalysis AT jaapkeijer ocrbayesabayesianhierarchicalmodelingframeworkforseahorseextracellularfluxoxygenconsumptionratedataanalysis AT vincentcjdeboer ocrbayesabayesianhierarchicalmodelingframeworkforseahorseextracellularfluxoxygenconsumptionratedataanalysis
_version_	1718375299705470976

OCRbayes: A Bayesian hierarchical modeling framework for Seahorse extracellular flux oxygen consumption rate data analysis.

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