Different regulation of Open and Closed promoters by remodeling factors and TFs. (A) Closed promoters have more remodeling factor Rsc9 bound. Distributions of Rsc9 (left) and Swr1 (right) occupancy in Open and Closed promoters for ON (blue) and OFF genes (gray). Swr1 is present only in ON genes regardless of promoter state. In contrast, Rsc9 shows more binding to Closed promoters among ON genes and more binding to Open NFRs among OFF genes (compare box-plots joined by red lines). Wilcoxon rank sum test, P-value <0.05 (*), <0.01 (**), and <0.001 (***). (B) Closed NFRs have more but inaccessible TF-binding sites. Distributions of numbers of TF-binding sites for promoters that have a Closed NFR state in 0, 1, 2, or 3 growth conditions (left). Promoters that are never Closed have fewer binding sites than others. Distributions of numbers of binding sites that are exposed or hidden by nucleosomes in Open and Closed promoters (right). Open promoters tend to have fewer binding sites in total compared with Closed promoters; but these sites tend to be exposed.
