Figures 4, S1 and S2 show clearly that synergy improved patients grouping. The gene pair TNFAIP1 POLDIP2 is a convergent SAGP in the middle of the TNFAIP1 POLDIP2 SFGM. There fore, our thoroughly survival analysis of the TNFAIP1 POLDIP2 SFGM and its neighbouring genes has revealed individual survival significant genes as well as significant gene pairs suggesting that the TNFAIP1 POLDIP2 SFGM is important for breast cancer prognosis. Expression of gene members of the TNFAIP1 POLDIP2 structural functional gene module strongly correlates with DNA copy number Previous studies of HER2 amplified tumors have demon strated that the smallest region of amplification involving HER2 spans 280 kb and contains a number of genes in addition to HER2 that have elevated levels of expression.

A comprehensive genomic study of HER2 amplicon by Arriola et al. revealed 21 additional smallest regions of Inhibitors,Modulators,Libraries amplification scattered throughout the genome. In our study of the data from we found that the TNFAIP1 POLDIP2 SFGM is located inside of one of these 21 SRAs on 17q11. 2. We call this the 17q11. 2 SRA to distinguish it from the TNFAIP1 POLDIP2 SFGM. Correspondingly, the smallest region of amplification that includes the ERBB2 core region as well as many other neighboring genes we call the 17q12 SRA. In order to elucidate whether the mRNA expression levels of members of the TNFAIP1 POLDIP2 SFGM correlate with the DNA copy number of the correspond ing region of the 17q11. 2 SRA, we estimated Kendall Tau correlation coefficients between DNA copy number values for selected SNPs and microarray expression data for the genes of the TNFAIP1 POLDIP2 SFGM as well as their neighbors.

For this purpose we used high resolution Inhibitors,Modulators,Libraries SNP microarray profiling together with microarray gene expression Inhibitors,Modulators,Libraries data for 38 breast cancer cell lines for which both sources were available. Correla tion matrix analysis with these 38 cell lines confirmed the clear co regulatory Inhibitors,Modulators,Libraries pattern of the TNFAIP1 POLDIP2 SFGM, which was primarily identi fied in two breast cancer cohorts. For the analysis of the TNFAIP1 POLDIP2 SFGM we selected four SNP markers covering the genomic region between 23, 333. 55 and 24, 116. 08 kb on the 17q11. 2 SRA. the region of the TNFAIP1 POLDIP2 SFGM and neighboring genes covers the region between 23, 598. 60 kb and 23, 889. 23 kb.

The results of the correlation analysis are presented in Table 4 that shows significant correlations of expression with DNA copy number for all genes of the TNFAIP1 POLDIP2 SFGM. Hence, amplification of the 17q11. 2 SRA can be an important driver of Inhibitors,Modulators,Libraries expression for the genes of the TNFAIP1 POLDIP2 SFGM in breast cancer. Expression of gene members of the TNFAIP1 POLDIP2 SFGM strongly correlates with expression of gene members of the ERBB2 core region The TNFAIP1 POLDIP2 SFGM kinase inhibitor Dasatinib is located on 17q11.