Abstract
Recent international efforts to establish and maintain microarray databases enable the utilization of huge amount of Arabidopsis microarray data for various purposes. In order to make large-scale prediction of cis-regulatory elements, we incorporated public and private microarray data for various phytohormone responses, including abscisic acid, auxin, cytokinin, ethylene, brassinosteroid, jasmonic acid, and salicylic acid, as well as for hydrogen peroxide, drought and DREB1A overexpression. These data were utilized for the basis of our prediction. Totally 622 promoters that are activated by these phytohormones were subjected to the prediction, and then the predicted sequences, their position in the promoter, and cross detection of REGs from ppdb have been summarized. Comparison of the predicted and experimentally confirmed cis-regulatory elements showed efficient success rate and high sensitivity. These results enable prediction-oriented promoter analysis for understanding the whole promoter structure rather than fishing of a single regulatory element from a promoter.
