Additional file 3 of Correcting nucleotide-specific biases in high-throughput sequencing data
NIH| Gastroenterology Research Training ,
NIH| Interpreting molecular role of DNA variants associated with Crohn's Disease through integrative analysis of open chromatin, epigenome and transcriptome data in diverse and relevant tissues and cells
Wang, Jeremy; Quach, Bryan; Furey, Terrence;
Additional file 3 of Correcting nucleotide-specific biases in high-throughput sequencing data
Figure S2. ChIP-seq and DNase-seq coverage in a super enhancer region (Hnisz D, Abraham BJ, Lee TI, et al. Transcriptional super-enhancers connected to cell identity and disease. Cell. 2013;155(4):10.1016/j.cell.2013.09.053). This region is also in a DNase hypersensitivity region. We show both the ChIP-seq and DNase-seq signal before (A) and after (B) bias correction. In general, for regions with very high ChIP or DNase coverage like this and other “super enhancers”, bias correction doesn’t dramatically change the profile since peak and valley profiles are very robust. (PDF 327 kb)
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