Figure 3

Genetic networks in BRCA2 tumors. (a) Matrix of associations with blue and red reflecting P values (Holm adjustment for multiple testing) for distinct chromosomal regions where copy-number changes co-occur in patterns of loss-loss or gain-gain relations, represented in blue, or gain-loss relations represented in red. (b) Genetic networks; interchromosomal links constructed for relations below Holm-adjusted P values of 0.001 (edges) between distinct genomic regions (nodes), with deletions in red and gains in blue, showing multiple links adjacent to the BRCA2 locus at 13q13.1 (box). (c) Hierarchic cluster analysis of copy-number changes, deletions in red and gains in blue, over the subnet of chromosomal regions linked to 13q13.1 (BRCA2) in relation to the occurrence of lymph node metastasis at diagnosis, and later relapse involving distant metastases represented in colors of green (positive) or black (negative), ploidy as green for diploid and black for aneuploid (see color codes at bottom of heatmap), along with TNM stage.