Presenting Examples for Validation of Results from the Rice cDNA Microarrays, Using a Real-time PCR Method.

Abstract

Microarray using cDNA (cDNA microarray), based on the principle of hybridization, is one of the methods for comprehensive expression analysis. It is believed that fluorescent signals obtained by cDNA microarray include both the signals caused by gene-specific hybridization and those caused by cross-hybridization. To confirm results by our rice cDNA microarrays, we have used a real-time RT-PCR method coupled with primer sets specific to the rice 8987 clones on the rice microarray.
Here we present examples for validation of results from our microarray experiments in which we used RNAs from phytohormone-treated and untreated calli.
About 10% of 150 clones showing differential expression between the samples did not indicate any amplification by the real-time RT-PCR, suggesting microarray data for the clones showing no amplification were due to cross-hybridization.