Fig. 2

Identification and classification of H3K27Ac (a) and CTCF (b) sites in prostate cells. H3K27Ac and CTCF ChIP-seq was performed in duplicate for each cell line; for 22Rv1 and LNCaP cells, ChIP-seq was performed in duplicate in the presence or absence of DHT. Peaks were called for individual datasets using MACS2 and the ENCODE3 pipeline, then peaks present in both replicates were identified (high confidence peaks) and used for further analysis (see Additional file 3: Table S2). The location of the peaks was classified using the HOMER annotatePeaks.pl program and the Gencode V19 database. The fraction of high confidence peaks in each category is shown on the Y axis, with the number of peaks in each category for each individual cell line and/or treatment shown within each bar