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. Author manuscript; available in PMC: 2014 Jun 16.
Published in final edited form as: Nat Protoc. 2013 Jul 11;8(8):1525–1534. doi: 10.1038/nprot.2013.088

Figure 5. Non uniform distribution of reads across genome in control datasets.

Figure 5

(a) Pileup analysis of tag distributions around transcription start sites (TSS) for MyoD 2DM, control (empty vector ChTAP) 2DM and input DNA. All ENSEMBL protein-coding genes are included in the analysis irrespective of their expression status. The graph shows reads piled up (not extended) divided by total non-duplicated mapped reads plotted around TSS. (b) Pileup analysis of input DNA reads around TSS. Input reads pileup (not extended) scaled to max in window being 1.0 and a corresponding relationship to average positional GC percentage (x-axis) suggests that there is a correlation between increased input reads and GC content around the TSS. GM: myoblasts in growth media.