Profiling time course expression of virus genes -- an illustration of Bayesian inference under shape restrictions

DOI10.1214/09-AOAS258MaRDI QIDQ965124zbMATH OpenOpenAlexFDO

Authors Li-Chu Chien, Shih Sheng Jiang, Chi-Chung Wen, Yuh-Jenn Wu, Chao A. Hsiung, I-Shou Chang, P. K. Gupta

Publication date 21 April 2010

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

Full work available at URL https://arxiv.org/abs/1009.5785

zbMATH Keywords

Markov chain Monte CarloBernstein polynomialsbaculovirusmicroarray experimentsgenome-wide expression profileshape restricted regression

Mathematics Subject Classification ID

Bayesian inference (62F15) Applications of statistics to biology and medical sciences; meta analysis (62P10) Biochemistry, molecular biology (92C40) Systems biology, networks (92C42)

Abstract: There have been several studies of the genome-wide temporal transcriptional program of viruses, based on microarray experiments, which are generally useful in the construction of gene regulation network. It seems that biological interpretations in these studies are directly based on the normalized data and some crude statistics, which provide rough estimates of limited features of the profile and may incur biases. This paper introduces a hierarchical Bayesian shape restricted regression method for making inference on the time course expression of virus genes. Estimates of many salient features of the expression profile like onset time, inflection point, maximum value, time to maximum value, area under curve, etc. can be obtained immediately by this method. Applying this method to a baculovirus microarray time course expression data set, we indicate that many biological questions can be formulated quantitatively and we are able to offer insights into the baculovirus biology.

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Cites work

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• Profiling time course expression of virus genes -- an illustration of Bayesian inference under shape restrictions
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Cited in

(4)

• A Quantitative Study of Gene Regulation Involved in the Immune Response of Anopheline Mosquitoes
• Profiling time course expression of virus genes -- an illustration of Bayesian inference under shape restrictions
• Predicting viral infection from high-dimensional biomarker trajectories
• A variable selection approach to monotonic regression with Bernstein polynomials

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Uses Software

• BayesDA

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