Fig. 3

Location specific signature partially erased in human colon cancer. a With transcriptome data from TCGA [8] we identified genes with the most significant upregulation in left colon versus right colon (log2FC > 1, adjusted p-values < 0.01, Wald-Test) in the normal tissue samples (left panel). The expression of those genes in MSS APC mutated colon cancer samples of the left colon is shown in the right panel. b The colon side-specific signatures were analysed individually using GSEA. c Genes differentially expressed between left and right TCGA normal colon tissue samples were tested for overlap with transcription factor target gene sets using ChEA3 mean ranks with interaction [79]. Resulting ChEA3 scores were compared to their expression in normal and colon cancer samples and in CREB3L3 and ISX we found a high Pearson-correlation, indicated in brackets (d). Genes differentially expressed between left and right TCGA normal colon tissue samples were tested for enrichment in Hallmark genes sets [50] using EGSEA (e)