Bayesian detection of embryonic gene expression onset in \textit{C. elegans}

DOI10.1214/15-AOAS820MaRDI QIDQ746687zbMATH OpenOpenAlexFDO

Authors Jie Hu, Zhongying Zhao, Hari Krishna Yalamanchili, Junwen Wang, Xiaodan Fan, Kenny Q. Ye

Publication date 28 October 2015

Published in The Annals of Applied Statistics (Search for Journal in Brave)

Full work available at URL https://arxiv.org/abs/1509.04872, https://projecteuclid.org/euclid.aoas/1437397119

zbMATH Keywords

change point detectionBayesian method4D confocal microscopyembryonic onset

Mathematics Subject Classification ID

Computational methods for problems pertaining to statistics (62-08) Applications of statistics to biology and medical sciences; meta analysis (62P10)

Abstract: To study how a zygote develops into an embryo with different tissues, large-scale 4D confocal movies of C. elegans embryos have been produced recently by experimental biologists. However, the lack of principled statistical methods for the highly noisy data has hindered the comprehensive analysis of these data sets. We introduced a probabilistic change point model on the cell lineage tree to estimate the embryonic gene expression onset time. A Bayesian approach is used to fit the 4D confocal movies data to the model. Subsequent classification methods are used to decide a model selection threshold and further refine the expression onset time from the branch level to the specific cell time level. Extensive simulations have shown the high accuracy of our method. Its application on real data yields both previously known results and new findings.

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Cites work

• Bayesian detection of embryonic gene expression onset in \textit{C. elegans}
• Inference from iterative simulation using multiple sequences
• Testing and estimating change-points in time series

Cited in

(4)

• Correlation for tree-shaped datasets and its Bayesian estimation
• Bayesian detection of event spreading pattern from multivariate binary time series
• Bayesian detection of embryonic gene expression onset in \textit{C. elegans}
• A Bayesian statistical analysis of stochastic phenotypic plasticity model of cancer cells

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