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. 2007 Nov 26;3(7):486–492. doi: 10.7150/ijbs.3.486

Figure 1.

Figure 1

Microarray analysis of gene expression profiles in COBRA1 and/or BRCA1-depleted breast cancer cell lines. A. Immunoblot analysis showing the decreased expression of BRCA1 and COBRA1 protein in the shRNA-expressing T47D cells lines. Whole cell extracts were prepared from the following cell lines: shEGFPpuromycin+shEGFPneomycin (E); shBRCA1puromycin+shEGFPneomycin (-B); shEGFPpuromycin+shCOBRA1neomycin (-C); and shBRCA1puromycin+shCOBRA1neomycin (-B/C). Parental T47D cells (WT) were also included for comparison. Protein expression levels were analyzed using antibodies against BRCA1(top panel), COBRA1(middle panel), lamin A/C (bottom panel). Lamin was used as a loading control. B. Hierarchical clustering analysis of the 278 COBRA1 and/or BRCA1-regulated genes. Data from the duplicates of four knockdown cell lines are shown. High expression intensities are represented by red, while low expression intensities are represented by green. Black indicates medium intensities. In the tree dendogram on the left side of the plot, genes with similar expression patterns are closely linked in lower levels. On the right side, annotations of corresponding genes were added in the order of Affymetrix probe ID, locus ID, gene symbol, and chromosome location.