# Gene-Enhancer links for each of 833 epigenomes under four methods # Manifest: links_corr_only/ links_mark/ links_dist50k/ links_mark_dist50k/ # Description: We report four sets of gene-enhancer links based on expression-enhancer activity correlation, mark activity, and distance across 304 matched RNA-seq and epigenomic datasets. These are as follows: 1. Using correlation alone (links_corr_only/). We use this version in our manuscript and recommend it for general use. 2. Correlation with per-sample H3K27ac and H3K4me1 activity. 3. Correlation with a distance-based re-scaling (proximal links, closer than 50k are up-weighted). 4. Correlation with both per-sample H3K27ac and H3K4me1 activity and distance-based re-scaling. # All directories contain 833 files (on per epigenome) in a gzipped, tab-separated format with columns: chr enhStart enhEnd gene linkScore enhState # As an example (all locations are reported on the hg19 genome version): chr1 941980 942200 ENSG00000188157 0.8367464542388916 E10