Figure 2

Determinants of HIF-1 binding. (a) H3K4 me3 modification and RNA Pol II binding at promoters are highly correlated with basal mRNA expression (present call). Proportional Venn diagrams of H3K4 me3 mark, RNA Pol II binding, and present calls in normal growth conditions in U87 and HepG2 cells. (b) mRNA expression levels are positively correlated with both H3K4 me3 and RNA Pol II binding intensities. All genes were separated into groups based on mRNA expression levels. Probe level intensities for H3K4 me3 and RNA Pol II were plotted as the aggregated mean of all genes in each group relative to the TSS. (c) Approximately half of all genes are marked with H3K4 me3 or the presence of RNA Pol II under normal growth conditions (All). Nearly all loci bound by HIF-1 (HIF1-bound) are marked by H3K4 me3 or RNA Pol II. Statistical significance determined by Fisher exact test. (d) Aggregate probe level intensities for H3K4 me3 (red), RNA Pol II (purple), and HIF-1 (blue) for all HIF-1 bound promoters are plotted relative to the TSS.