Figure 7.

Gen Set Enrichment Analysis (GSEA) shows enrichment of the Notch and TGFβ pathways in SCH727965-resistant xenografts. Top, the primary result of the gene set enrichment analysis is the enrichment score (ES). GSEA calculates the ES by walking down the ranked-ordered list of genes, increasing a running-sum statistic when a gene is in the gene set and decreasing it when it is not. Middle, rank ordered list of genes (horizontal line in red and blue color). The top of this list (red color) contains genes upregulated in resistant cases. The bottom of the list (blue color) contains downregulated genes in sensitive cases. Anytime a gene from the gene set is found along the list, a vertical black bar is plotted (hit). If most of the hits are at the top of the list, then this gene set is enriched in resistant cases, if they are found at the bottom of the list then they are enriched in sensitive cases; if, however, they are distributed homogenously across the rank ordered list of genes, then that gene set is not enriched in any of the gene expression profiles (resistant vs. sensitive). These figures show enrichment of the TGFβ and Notch pathways in resistant cases. Bottom, value of the ranking metric along the list of the ranked genes.