Additional file 2 Figure S1.
The strategy to find group-specific expression signatures in RCC. Hierarchical clustering of HG-U133A microarray probe sets representing genes from the Angiogenesis (A), Inflammation (B), Integrin (C), and Wnt (D) “pathways” as annotated by PANTHER, across a set of 146 microarrays from our RCC experiment. For each “pathway”, up to four probe set clusters (red boxes) were selected and combined for subsequent re-clustering. (E) Another PANTHER “pathway” (Apoptosis) and one RCC-relevant “pathway” (HIF). Note the presence of less genes in these matrices compared to A-D and the absence of clear probe set clusters (except for cell lines in “Apoptosis”, indicated by the green bottom line), visually subdividing the matrix.
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Beleut et al. BMC Cancer 2012 12:310 doi:10.1186/1471-2407-12-310