Identification of Novel Epigenetic Markers of Prostate Cancer by NotI-Microarray Analysis

Figure 5

NEA: network analysis of the sets of potential markers in regard of individual genes and KEGG pathways. (a) Detailed view of network connections between genes of Table (yellow) and genes of three (partially overlapping) KEGG pathways “adherens junction,” “focal adhesion,” and “tight junction” (red). Many genes of these pathways also had experimentally verified binding sited to LMCD1 (HTRIdb database) which are not shown here for the sake of simplicity. The network enrichment of the red genes as a whole set, on the one hand, against the genes of Table , on the other hand, was probabilistically evaluated and is part of the more general figure (b). (b) Generalized view on functional relations between novel sets of potential markers (yellow) and KEGG pathways, based on the network enrichment analysis. Numeric edge labels denote the number of individual gene-gene links behind each relation. Arrow opacity reflects statistical confidence of relations (although each relation is based on at least 10 individual gene-gene links and has false discovery rate <0.01). The shades of red and brown reflect the cumulative connectivity of the KEGG pathways in the global network.

(a)

(b)