Skip to main content
Figure 4 | BMC Genomics

Figure 4

From: Genome-wide landscape of liver X receptor chromatin binding and gene regulation in human macrophages

Figure 4

Filtering for direct LXR target genes. A Selection of target genes is based on LXR peaks with FDR < 5% within close (± 100 kb) or with FDR < 1% within distant (± 0.1-1 Mb) regions from the T09 target gene TSS. B Numbers of all and DE genes (corrected P < 0.01) with a LXR peak in the close or distant interval. C Selection of target genes based on the close and distant intervals and peak sets with FDR < 5% and FDR < 1% stringencies, respectively, results in 1063 LXR target genes (62%) among the all 1713 DE genes. D The locus of the most up-regulated gene NACA (based on the genes listed in Table 2) in region R61. 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]. E The locus of the most down-regulated gene SLC3A2 in region R55.

Back to article page