The histogram summarizes the differential expression profiles in each ENCODE region on each chromosome

<p><b>Copyright information:</b></p><p>Taken from "Differential analysis for high density tiling microarray data"</p><p>http://www.biomedcentral.com/1471-2105/8/359</p><p>BMC Bioinformatics 2007;8():359-359.</p><p>Published online 24 Sep 2007</p><p>PMCID:PMC2231405.</p><p></p> Chromosome region specific differential expression is observed across the time-points – 30 percent change on chromosome 8 to no detectable change on chromosome 10. Globally, the highest fraction of differential expression when summarized across all transfrag is observed between 8–32 hours (53.8 percent),. The most statistically significant (FDR ≤12 percent) changes are also observed between 8–32 hours

A representative density profile of the d-statistic for change in H3K27T histone modification between 0 and 2 hours of retinoic acid treatment for the ENCODE region on chromosome 1

<p><b>Copyright information:</b></p><p>Taken from "Differential analysis for high density tiling microarray data"</p><p>http://www.biomedcentral.com/1471-2105/8/359</p><p>BMC Bioinformatics 2007;8():359-359.</p><p>Published online 24 Sep 2007</p><p>PMCID:PMC2231405.</p><p></p> The curves of different colors illustrate differential change for the H3K27T modification in exonic (green), intronic (black) and intergenic (blue) regions. The shift into the negative territory for the d-statistic for all classes of regions suggest is a consistent downward trend for this modification between 0 and 2 hours

D-statistic versus FDR relationship at putative TREs, across the time-series (IGB view)

<p><b>Copyright information:</b></p><p>Taken from "Differential analysis for high density tiling microarray data"</p><p>http://www.biomedcentral.com/1471-2105/8/359</p><p>BMC Bioinformatics 2007;8():359-359.</p><p>Published online 24 Sep 2007</p><p>PMCID:PMC2231405.</p><p></p> Examples of enrichment fragments are observed within and upstream of the second intron of the HIC gene (pink). The upstream fragment is possibly un-annotated (UA), in so far as no RefSeq annotation is available. The top four tracks represent the HisH4 p-value graphs at 0 (red), 2 (light-blue), 8 (dark-blue) and 32 (green) hours, scaled appropriately for comparison; the subsequent tracks represent the d-statistic (top) and FDR (bottom) pair for the 0–2 (red), 2–8 (cyan) and 8–32 (blue) hour time intervals. The horizontal lines associated with the FDR data refer to the 5 percent threshold in each case