HoughFeature, a novel method for assessing drug effects in three-color cDNA microarray experiments

Background: Three-color microarray experiments can be performed to assess drug effects on the genomic scale. The methodology may be useful in shortening the cycle, reducing the cost, and improving the efficiency in drug discovery and development compared with the commonly used dual-color technology. A visualization tool, the hexaMplot, is able to show the interrelations of gene expressions in normal-disease-drug samples in three-color microarray data. However, it is not enough to assess the complicated drug therapeutic effects based on the plot alone. It is important to explore more effective tools so that a deeper insight into gene expression patterns can be gained with three-color microarrays. Results: Based on the celebrated Hough transform, a novel algorithm, HoughFeature, is proposed to extract line features in the hexaMplot corresponding to different drug effects. Drug therapy results can then be divided into a number of levels in relation to different groups of genes. We apply ...

• Type: Journal
• Year: 2007
• Where: BMCBI
• Authors: Hongya Zhao, Hong Yan
• Keywords: BMCBI 2007, Drug Effects, Gene Expression, Three-color Microarray