A global approach to predict gene expression networks using Arabidopsis cultured cells

Abstract

Knowledge on the functions of Arabidopsis genes has been rapidly accumulated, and it is a challenge to reveal the expression system of genes with useful functions. To perform a global approach for obtaining the information on such system, we selected 187 Arabidopsis genes, constructed the T87 cultured cells in which the genes are over-expressed and/or down-regulated by RNA interference, and then executed an analysis based on 214 DNA microarray chips using the cells. In the analysis, the expression value of each gene was standardized. Based on the standardized values, we searched genes that show the expression specific in the cell for an over-expressed or down-regulated gene of interest and then associated the specifically-expressed genes with the gene of interest as candidate regulatory relationships. Using the information of such associations, we depicted a gene regulatory network in a T87 cultured cell.