Fig. 6 | npj Systems Biology and Applications

Fig. 6

From: Parsimonious Gene Correlation Network Analysis (PGCNA): a tool to define modular gene co-expression for refined molecular stratification in cancer

Fig. 6

Network modules show distinctive patterns of mutational association. Correlations of MEV with mutation status of commonly mutated genes in TCGA data (a) BRCA & (b) CRC. Significance of Spearman’s Rank correlation of MEV with mutation, z-score on blue to red scale; fraction of mutated cases per gene, blue to black color scale. Hierarchical clustering for genes mutated in ≥5% BRCA and ≥10% CRC of TCGA samples. For CRC the heatmap is truncated for display purposes (complete version Supplemental Fig. 17c). c BRCA_M6 Luminal, d BRCA_M7 cell cycle, e BRCA_M14 basal and f BRCA_M27 nucleosome, MEVs as ranking variables (red to blue color scale) for mutation distribution, z-score and −log10 p-value for GATA3 with division into proximal (pos2; N-terminus) and distal (pos3; C-terminus), CDH1, MAP3K1, PIK3CA and TP53. Histological: ductal (gray), lobular (white) lobular/ductal (dark blue), medullary (green), metaplastic (dark green), mucinous (black), not reported (light blue)

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