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. Author manuscript; available in PMC: 2011 Jun 1.
Published in final edited form as: J Biomed Inform. 2010 Mar 27;43(3):385–396. doi: 10.1016/j.jbi.2010.03.009

Figure 3. 54-gene breast cancer network signature overlaid with KEGG pathway.

Figure 3

We evaluated the connectivity of the 54-gene breast cancer network signature to itself through permutation resampling of the PPI controlling for hubness. Nodes which had an empiric p-value of <0.05 were retained. KEGG pathways cell cycle, p53 signaling, ErbB2 signaling and focal adhesion were then overlaid onto the network facilitating a visual “roadmap” among signatures (squares), breast cancer signatures (circles), and breast cancer background genes (triangles). Breast cancer signature genes that were also included in the breast cancer background gene list are represented by hexagons. For example, multifunctional node CDKN1A (cell cycle/ErbB2/focal adhesion) connects the cluster of three metastasis gene signatures anchored by COL1A1 to the “histologic grade” and “invasiveness” signatures.