Fig. 7 | npj Systems Biology and Applications

Fig. 7

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

Fig. 7

Immune neighborhood analysis. a Immune neighborhood analysis for BRCA (across BRCA M18, M20, M29 & M34) displayed as network summary. b Significance of Spearman’s Rank correlation of MEV with mutation across immune neighborhoods for all BRCA left and ductal BRCA right; 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 of TCGA samples. c Ranked neighborhood level association with meta Hazard Ratio (HR) of death. Distribution of HR associations for module genes with HR p-value <0.05, along with median (blue square) and IQR. d, e Use of immune neighborhoods Immune_n7 (d) and Immune_n10 (e) MEVs as ranking variables (red to blue color scale) for mutation distribution, z-score and −log10 p-value for CDH1, MAP3K1, PIK3CA and TP53: all BRCA left, ductal BRCA right

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