Figure 6

RTSSs in metaclusters are enriched at different genomic locations. A) RTSSs in metaclusters are enriched at different genomic locations relative to their nearby genes as calculated by GREAT. The color in each cell represents enrichment (dark blue) or depletion (light blue) of RTSSs in the given genomic interval relative to associated genes. The enrichment is calculated with respect to average enrichment of the full set of RTSSs from all metaclusters. The observed patterns can be divided into normal (resembling the average distribution for the full set of RTSSs), distal, proximal upstream and proximal downstream according to where they are mostly enriched. B) Global correlations between RTSSs validate RTSS-to-gene associations identified by GREAT. Both intra-correlations between all globally defined RTSSs in each window (all), and between RTSSs present in the respective clusters (clusters) are calculated for increasing window sizes centered on annotated gene TSSs from GREAT. Correlation values for all proximal, normal, distal and poised cluster sets (as defined in A) have been aggregated for all cell lines. Intra-correlations among RTSS for specific clusters are generally higher compared to intra-correlations between all globally defined RTSSs. The improved correlation was also higher in the more distal windows.