GSEA detected three gene sets, Homologous Recombination, BRCA1 and HER2 pathway, as significantly up-regulated versus two gene sets, EGF and Stathmin Pathway, which were over-regulated; although in many cases the same gene sets were identified as significant by various programs, in a direct comparison across MBEI and RMA normalization using breast cancer datasets, the p-values of RMA were lower than the respective p values obtained by MBEI (Table 4), indicating that RMA is more statistically sensitive than MBEI for these gene sets. This evidence concerns the gene EGF and breast cancer.