Figure 5

LXR target genes with DR4-type REs. A Analysis of LXR peak versus T09 target gene pairs by relating the log₂ FC of target genes with the similarity of the DR4-type REs within the closest LXR peak (± 100 kb limit). For each peak, the gene with the smallest expression P-value in that region is represented. Similarity is indicated as -log₁₀ of the P-value obtained from the RSAT motif screening tool [26]. Pie diagrams on the top show the proportions of differentially expressed gene-peak pairs among the all gene-peak pairs within the similarity intervals 3-4.5, 4.5-6, 6-7.5, 7.5-9 and > 9. In the DR4-type RE consensus sequence R = A or G, M = A or C, and N any nucleotide. B Example region of the T09 target gene SMPDL3A containing two DR4-type REs close to its TSS. Under each sample track the arrows indicate LXR binding locations of high stringency (red) 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].