Fig. 2: Transcriptional correlation network of BCL9-associated biological processes in CRC subtypes.

a GSEA Chow-Ruskey diagram of BCL9-interacting proteins as determined by IP coupled with MS analysis. Top: Size of colored areas indicates the number of functional gene sets in each module eigengene (ME). Middle: Heatmap of normalized RNA-seq data of indicated genes and CRC clusters. Colors represent normalized RNA-seq expression levels in CRC clusters. Each row represents the mean value of three independent biological repeats. Bottom: Heatmap of IP coupled MS data. Colors represent total peptide number of indicated proteins. b Left: GSEA in pathway gene set for down regulated genes in normalized RNA-seq results of control and BCL9 knockout RKO cells. Middle: heat map of normalized RNA-seq data of indicated genes and CRC clusters. Right: heat map of normalized expression value of RNA-seq results of control and BCL9 knockout RKO cells. c Heatmap of the adjacencies in the eigengene network including patient survival for CRC Cluster 1. Outer boxed heatmap: each colored square in the column or row corresponds to one ME or survival time (red arrowhead). Inner boxed heatmap: blue and red colors represent low adjacency (negative correlation), and high adjacency (positive correlation), respectively. Red squares along the diagonal are the meta-modules. Black dots along this diagonal highlight ME displaying a negative correlation with survival time. Colored interconnecting lines indicate group affiliation between ME and BCL9-interacting proteins (top) and genes down regulated in BCL9 knockout RKO cells (left). d GSEA of ME-Black (white asterisk), ME-Brown (black asterisk), and ME-Blue (red asterisk) groups. See also Supplementary Figs. 4, 5, 6, 7 and Supplementary Data 2.