Figure 3

LXR peak regions enriched in DE genes. A Expected versus observed analysis of up- and down-regulated genes within the 112 LXR peak regions. The linear regression line is shown in blue and the 95% confidence interval as grey area. Each data point represents one region and is color-coded related to the number of LXR peaks it contains. Regions with a significantly (P < 0.05) enriched number of T09 target genes and at least two stringent LXR peaks are named. B Example of region R26. In the region overview only DE genes are shown (red = up-regulated, blue = down-regulated), while in the detailed view also the not-regulated genes are indicated in black. Under each sample track the arrows indicate LXR binding locations of high stringency (red), FDR < 1% (blue) or FDR < 5% (grey). Extra lanes indicate the location of LXR in homologous sequences of the mouse genome as previously published [18], de novo LXR binding sites within the peak area and insulator barrier regions identified via CTCF binding sites observed in CD4⁺ T cells [32]. C Example of region R56.