Uncovering mechanisms of transcriptional regulations by systematic mining of cis regulatory elements with gene expression profil

Background: Contrary to the traditional biology approach, where the expression patterns of a handful of genes are studied at a time, microarray experiments enable biologists to study the expression patterns of many genes simultaneously from gene expression profile data and decipher the underlying hidden biological mechanism from the observed gene expression changes. While the statistical significance of the gene expression data can be deduced by various methods, the biological interpretation of the data presents a challenge. Results: A method, called CisTransMine, is proposed to help infer the underlying biological mechanisms for the observed gene expression changes in microarray experiments. Specifically, this method will predict potential cis-regulatory elements in promoter regions which could regulate gene expression changes. This approach builds on the MotifADE method published in 2004 and extends it with two modifications: up-regulated genes and down-regulated genes are tested se...

• Type: Journal
• Year: 2008
• Where: BIODATAMINING
• Authors: Qicheng Ma, Gung-Wei Chirn, Joseph D. Szustakowski, Adel Bakhtiarova, Penelope A. Kosinski, Daniel M. Kemp, Nanguneri Nirmala
• Keywords: BIODATAMINING 2008, Gene Expression, Gene Expression Changes, Observed Gene Expression