We randomly selected 125 CAGE-defined enhancers with significantly higher expression than random genomic regions in at least two out of three HeLa-S3 replicates. These were grouped according to Hela-S3 expression tertiles: (low (36), mid-level (41) and strong (46). These could be split up further according to overlap (mid position) with combined ENCODE (release Jan 2011) segmentations of Segway42 and ChromHMM43 chromatin state prediction: 25, 27, and 14 strongly, mid-level and lowly expressed CAGE enhancer overlapped ENCODE state ‘E’ (‘strong enhancer’) while 21, 16, and 22 strongly, mid-level and lowly expressed CAGE enhancer overlapped ENCODE state ‘TSS’.
