Fig. 5.

Heatmap of gene set analysis for expression changes post-bevacizumab associated with DCE-MRI parameters. The DCE-MRI parameters considered were: baseline median and total K^trans; and changes (Δ) in median and total K^trans. Gene Set Analysis (GSA) algorithm was used (see Methods); the GSA score is shown and colour-bar is provided with absolute values. This represents the strength of the positive and/or negative association between the specific gene set (y-axis) and the specific DCE-MRI parameter (x-axis). Gene sets that were significant (FDR < 0.05) in at least one of the four analyses are shown. The sets included were the full GSEA Biocarta gene set V3 (http://www.broadinstitute.org/gsea/msigdb/collections.jsp), a previously derived hypoxia signature (Buffa et al., 2010) (not shown in the heatmap as never significant), ER and ERBB2 signaling signatures (not shown as never significant), proliferation and Wnt signatures (“Wnt signaling”) (Desmedt et al., 2008), a recently derived angiogenesis signature (“Angiogenesis”) (Masiero et al., 2013) and VEGF-blockade signature (“Anti-VEGF”) (Bais et al., 2011).