Fig. 5

Selective effects of GAF on upstream nucleosomes. a Global nucleosome profiles. The overall nucleosome distribution of GAF targets (n = 1891) or non-targets (n = 13,774) in the WT genome is shown for the 1 kb region around TSS. To calculate the average nucleosome counts, the midpoint of MNase-resistant fragments was used to represent the position of each nucleosome. The average read at each nucleotide coordinate was summed after normalization. The frequency of SS-dinucleotides that favor nucleosome formation is shown by heat maps (below). b–e Alteration of nucleosome patterns in Gaf mutants. Nucleosome distribution within 1 kb of the promoter-proximal region in WT (red) and Gaf mutants (blue) is shown for different ranks of targets. The statistical differences between these two patterns were calculated by Kolmogorov–Smirnov tests after dividing the 1 kb region into either four sections (above graphs) or two sections (below graphs). The value and statistical significance of each section (*) are shown. The approximate location and height of GAF peaks are indicated in each graph (gray bars). The SS-dinucleotide distribution is also shown as a heat map for each rank