Bayesian Mixture Model Analysis for Detecting Differentially Expressed Genes. (21st November 2007)

• Record Type: Journal Article
• Authors: Jia, Zhenyu; Xu, Shizhong
• Other Names: Yi Nengjun Academic Editor.
• Is Part Of: International journal of plant genomics. Volume 2008(2008)
• Publication Date: 2007-11-21
• Subjects: Plant genetics -- Periodicals; Plant genomes -- Periodicals; Génétique végétale; Plantes -- Génomes; Plant genetics; Plant genomes; Periodicals; Electronic journals; 572.8605
• DOI: 10.1155/2008/892927
• Languages: English
• ISSNs: 1687-5370

Abstract

Abstract : Control-treatment design is widely used in microarray gene expression experiments. The purpose of such a design is to detect genes that express differentially between the control and the treatment. Many statistical procedures have been developed to detect differentially expressed genes, but all have pros and cons and room is still open for improvement. In this study, we propose a Bayesian mixture model approach to classifying genes into one of three clusters, corresponding to clusters of downregulated, neutral, and upregulated genes, respectively. The Bayesian method is implemented via the Markov chain Monte Carlo (MCMC) algorithm. The cluster means of down- and upregulated genes are sampled from truncated normal distributions whereas the cluster mean of the neutral genes is set to zero. Using simulated data as well as data from a real microarray experiment, we demonstrate that the new method outperforms all methods commonly used in differential expression analysis.