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. Author manuscript; available in PMC: 2010 Dec 14.
Published in final edited form as: Cancer Res. 2009 Dec 15;69(24):9422–9430. doi: 10.1158/0008-5472.CAN-09-2236

Figure 5. Characteristic signatures of alternative processing.

Figure 5

Blue and red indicate relative loss (e.g., Ube2a) or gain (e.g., Pik3ap1), of signal in downstream probes, respectively, and the intensity of the color reflects the ratio difference (Figure 2). Each column represents a single gene and segmentation point; each row represents the analysis of an individual microarray averaged over comparison with control microarrays. In this supervised clustering, genes were selected as those that best differentiated between samples. Bootstrapping probabilities are shown for selected clusters. Complete bootstrap results are available in Supplemental Figures S5-S7. (A) Mouse pro-B-cell lymphoma samples. Control samples were wildtype progenitor B-cells. (B) Human melanoma (GSE7553), including basal cell carcinoma (BCC), squamous cell carcinoma (SCC), primary melanoma (PM), and metastatic melanoma (MM) (43). Control samples were normal human skin. (C) Human breast cancer (GSE7904), including sporadic basal-like cancers (BLC), BRCA1associated cancers (BRCA1), and non BLC tumors (NBLC). Controls were normal human breast tissue.