Issues in cDNA microarray analysis: quality filtering, channel normalization, models of variations and assessment of gene effects

摘要: We consider the problem of comparing gene expression levels cells grown under two different conditions using cDNA microarray data. use a quality index, computed from duplicate spots on same slide, to filter out outlying spots, poor genes and problematical slides. also perform calibration experiments show that normalization between fluorescent labels is needed slide dependent non-linear. A rank invariant method suggested select non-differentially expressed construct curves in comparative experiments. After residuals data are used provide prior information variance components analysis Based hierarchical model incorporates several variations, for assessing significance effects presented. The demonstrated via groups with 125 4129 genes, respectively, Escherichia coli glucose acetate.