<p>Alignment of HP1-bound genes to (A) their TSSs and (B) the 3′ end of their transcription units. TSS-aligned genes include upstream regions up until the next upstream gene; 3′ end aligned genes include downstream regions until the next downstream gene. Curves show running mean (window size 100) of HP1-binding ratios (log<sub>2</sub>) for nonpericentric (green) and pericentric target genes (blue). (C) H3K4me2 levels of TSS-aligned genes in nonpericentric regions with high (red) or low (black) levels of HP1 as defined in <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.0030038#pgen-0030038-g002" target="_blank">Figure 2</a>. H3K4me2 levels were taken from Schubeler et al. [<a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.0030038#pgen-0030038-b053" target="_blank">53</a>]. (D) Frequency distribution of H3K4me2 levels around the TSS (−500 to +1000 bp) for genes with high (black line) and low (gray lines) HP1 levels, either all genes (dotted gray line) or expression matched (solid gray line). (E and F) TSS alignment of H3.3 levels for genes with high (red) and low (black) HP1 levels in nonpericentric (E) and pericentric (F) regions. H3.3 data were taken from Mito et al. [<a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.0030038#pgen-0030038-b051" target="_blank">51</a>]. In (C), (E), and (F) running mean window sizes correspond to 2% of the total number of datapoints.</p
