Modeling cellular processes with variational Bayesian cooperative vector quantizer.
Gene expression of a cell is controlled by sophisticated cellular processes. The capability of inferring the states of these cellular processes would provide insight into the mechanism of gene expression control system. In this paper, we propose and investigate the cooperative vector quantizer (CVQ) model for analysis of microarray data. The CVQ model could be capable of decomposing observed microarray data into many different regulatory subprocesses. To make the CVQ analysis tractable we develop and apply variational approximations. Bayesian model selection is employed in the model, so that the optimal number processes is determined purely from observed micro-array data. We test the model and algorithms on two datasets: (1) simulated gene-expression data and (2) real-world yeast cell-cycle microarray data. The results illustrate the ability of the CVQ approach to recover and characterize regulatory gene expression subprocesses, indicating a potential for advanced gene expression data analysis.
Lu
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Center for Biomedical Informatics, University of Pittsburgh, USA. lux@musc.edu
Hauskrecht
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Day
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D000465:Algorithms; D001185:Artificial Intelligence; D001499:Bayes Theorem; D019295:Computational Biology; D020869:Gene Expression Profiling / Q000706:statistics & numerical data; D008954:Models, Biological; D015233:Models, Statistical; D020411:Oligonucleotide Array Sequence Analysis / Q000706:statistics & numerical data