CircadiPy: An open-source toolkit for analyzing chronobiology time series.

Autor: Carvalho-Moreira JP; Departamento de Fisiologia e Biofísica, Instituto de Ciências Biológicas - Universidade Federal de Minas Gerais, Belo Horizonte, Brasil; Centro de Tecnologia e Pesquisa em Magneto Ressonância, Programa de Pós-Graduação em Engenharia Elétrica - Universidade Federal de Minas Gerais, Belo Horizonte, Brasil., de Oliveira Guarnieri L; Departamento de Fisiologia e Biofísica, Instituto de Ciências Biológicas - Universidade Federal de Minas Gerais, Belo Horizonte, Brasil; Centro de Tecnologia e Pesquisa em Magneto Ressonância, Programa de Pós-Graduação em Engenharia Elétrica - Universidade Federal de Minas Gerais, Belo Horizonte, Brasil., Passos MC; Departamento de Fisiologia e Biofísica, Instituto de Ciências Biológicas - Universidade Federal de Minas Gerais, Belo Horizonte, Brasil., Emrich F; Departamento de Fisiologia e Biofísica, Instituto de Ciências Biológicas - Universidade Federal de Minas Gerais, Belo Horizonte, Brasil., Bargi-Souza P; Departamento de Fisiologia e Biofísica, Instituto de Ciências Biológicas - Universidade Federal de Minas Gerais, Belo Horizonte, Brasil., Peliciari-Garcia RA; Departamento de Ciências Biológicas, Setor de Morfofisiologia e Patologia, Universidade Federal de São Paulo (UNIFESP), Diadema, SP, Brazil., Moraes MFD; Departamento de Fisiologia e Biofísica, Instituto de Ciências Biológicas - Universidade Federal de Minas Gerais, Belo Horizonte, Brasil; Centro de Tecnologia e Pesquisa em Magneto Ressonância, Programa de Pós-Graduação em Engenharia Elétrica - Universidade Federal de Minas Gerais, Belo Horizonte, Brasil. Electronic address: mfdm@icb.ufmg.br.
Jazyk: angličtina
Zdroj: Journal of neuroscience methods [J Neurosci Methods] 2024 Nov; Vol. 411, pp. 110245. Date of Electronic Publication: 2024 Aug 06.
DOI: 10.1016/j.jneumeth.2024.110245
Abstrakt: Background: Chronobiology is the scientific field focused on studying periodicity in biological processes. In mammals, most physiological variables exhibit circadian rhythmicity, such as metabolism, body temperature, locomotor activity, and sleep. The biological rhythmicity can be statistically evaluated by examining the time series and extracting parameters that correlate to the period of oscillation, its amplitude, phase displacement, and overall variability.
New Method: We have developed a library called CircadiPy, which encapsulates methods for chronobiological analysis and data inspection, serving as an open-access toolkit for the analysis and interpretation of chronobiological data. The package was designed to be flexible, comprehensive and scalable in order to assist research dealing with processes affected or influenced by rhythmicity.
Results: The results demonstrate the toolkit's capability to guide users in analyzing chronobiological data collected from various recording sources, while also providing precise parameters related to the circadian rhythmicity.
Comparison With Existing Methods: The analysis methodology from this proposed library offers an opportunity to inspect and obtain chronobiological parameters in a straightforward and cost-free manner, in contrast to commercial tools.
Conclusions: Moreover, being an open-source tool, it empowers the community with the opportunity to contribute with new functions, analysis methods, and graphical visualizations given the simplified computational method of time series data analysis using an easy and comprehensive pipeline within a single Python object.
Competing Interests: Declaration of Competing Interest The authors declare the following financial interests/personal relationships which may be considered as potential competing interests: Marcio Flavio Dutra Moraes reports financial support was provided by Fundação de Amparo à Pesquisa do Estado de Minas Gerais. Paula Bargi-Souza reports financial support was provided by Fundação de Amparo à Pesquisa do Estado de Minas Gerais. Joao Pedro Carvalho-Moreira reports financial support was provided by Fundação de Amparo à Pesquisa do Estado de Minas Gerais. Marcio Flavio Dutra Moraes reports financial support was provided by Lemann Brazil Research Fund. Leonardo de Oliveira Guarnieri reports financial support was provided by Fundação de Amparo à Pesquisa do Estado de Minas Gerais. Marcio Flavio Dutra Moraes reports financial support was provided by Conselho Nacional de Desenvolvimento Científico e Tecnológico. Paula Bargi-Souza reports financial support was provided by Conselho Nacional de Desenvolvimento Científico e Tecnológico. Marcio Flavio Dutra Moraes reports financial support was provided by Coordenação de Aperfeiçoamento de Pessoal de Nível Superior. If there are other authors, they declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper.
(Copyright © 2024 Elsevier B.V. All rights reserved.)
Databáze: MEDLINE
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