Physical interaction network leading to colon cancer splicing changes. (A) A diagram illustrating the construction of the cancerous splicing interactome connecting transcription factors (TFs) to alternative splicing events (ASEs) exhibiting splicing pattern differences in tumors compared with normal tissues (alternative splicing factor [ASF]). (B) ELK1 colon tumor subnetwork. Gene names of exons exhibiting significant splicing changes in the colon tumor compared with the normal tissue are colored light blue; all other genes and proteins are colored gray. Alternative splicing factors are marked by red borders. Protein–DNA and protein–pre-mRNA interactions are marked by black and red directed arrows, respectively. (C) Hierarchical clustering of ELK1 subnetwork member gene expression in 48 human tissue and cell lines. Tumor and cancer cell line names are colored red. Cell lines are marked by an asterisk. White boxes denote missing reads. The color key legend includes a histogram of the gene expression level distribution. (D) Mean gene expression level difference between colon tumor and normal tissue of genes with promoters bound by ELK1 (n = 1937), genes with promoters bound by MYC (n = 3226), and all genes (n = 18,093); arbitrary units. Error bars, SEM.
