Figure 4
MRTFB binding and TEAD motifs are significantly enriched in distal regions of EWS-FLI1-anticorrelated target genes. (a) Venn diagram representing the overlap of MRTFB ChIP-seq peaks (green circles) in promoter (proximal) or distal gene regions of EWS-FLI1-correlated or EWS-FLI1-anticorrelated genes (yellow circles). Significant enrichment of the MRTFB binding was solely found in distal genomic regions of EWS-FLI1-anticorrelated genes (lower right, ***P=1.039E−25). (b) MRTFB ChIP-seq peaks in proximal (−5 to +1 kb from the TSS) and distal gene regions under EWS-FLI1-high and -low conditions. * percentage of newly appearing MRTFB peaks as compared to all MRTFB peaks upon EWS-FLI1-low. (c) HOMER motif analysis of MRTFB ChIP-seq peaks in EWS-FLI1-anticorrelated genes under EWS-FLI1-high and -low conditions. The peak set was filtered allowing for only one peak per gene (the nearest to the TSS). Motif analysis was performed by the HOMER software, n.f. indicates that motif was not found in the HOMER analysis. For detailed HOMER motif analysis output see Supplementary Table 4.
