Figure 2
Analyses of the ERBB3 gene network. Gene network of ERBB3 (n = 38) for all data sets showing differentially expressed genes of r-groups (data sets 1–3) and histopathology groups (data set 4). Nodes are coloured as follows: Red = Up-regulated, Green = Down-regulated, Grey = Not affected. Upper panel: Data sets 1 and 2 (DePreter and McArdle/Wilzén) presenting three r-group comparisons (r4 vs. r1, r4 vs. r2, and r4 vs. r3). Only genes that were common in both data set 1 and 2 with fold change > 2 were included (i.e. SAMintersect gene lists). Middle panel: Data set 3 (Wang) presenting three r-group comparisons (r4 vs. r1, r4 vs. r2, and r4 vs. r3). Genes included were those present in SAM gene list representing the 1000 most differentially expressed (ranked after significance). Lower panel: Data set 4 (Versteeg) presenting two histopathology group comparisons (GNB vs. NB and GN vs. NB). Genes included were those present in SAM gene list representing the 1000 most differentially expressed (ranked after significance). Gene set enrichment analysis (GSEA) plots of the ERBB3 network are according to gene list sorting mode = real, sorted in descending order. NES = Normalized enrichment score, NOM p-val. = Nominal p-value, according to the GSEA results (see Additional file 7).