ABSTRACT

Methods for Applied Biosystems Microarray System .......................................... 142 11.4.8 TPRs and FDRs in Detection of Differentially Expressed

Genes for Different Normalization Methods ........................................................ 142 References .................................................................................................................................. 142

Deoxyribonucleic acid (DNA) microarray technology provides a powerful tool for characterizing gene expression on a genome scale. Although the technology has been widely used in discoverybased medical and basic biological research, its direct application in clinical practice and regulatory decision-making has been questioned [1,2]. A few key issues, including the reproducibility, reliability, compatibility, and standardization of microarray analysis and results, must be critically addressed before any routine usage of microarrays in clinical laboratory and regulated areas can occur. Considerable effort has been dedicated to investigate these important issues, most of which focused on the compatibility across different laboratories and analytical methods, as well as the correlation between different microarray platforms. In this study, we investigate some of these issues for Applied Biosystems Human Genome Survey Microarrays.