Sequence driven nucleosome organization.

<p><b>A</b>, Fast Fourier transforms (FFT) of AA and TT dinucleotide frequencies through the nucleosome core particle were calculated revealing ~10 bp periodicities. <b>B</b>, Normalized nucleosome occupancy scores (NOS) from 12 datasets averaged over 13,912 unique transcription start sites (TSS). <b>C</b>, Genome-wide FFT of all 12 datasets showing lack of arrayed nucleosomes in the <i>in vitro</i> (IV) dataset. <b>D</b>, Normalized NOS for all 12 datasets based on <i>k</i>-means clustering of the H1 data, demonstrating that the location of the major peak around TSS is determined by underlying DNA sequences, see <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0136314#pone.0136314.s009" target="_blank">S9 Fig</a> for remaining clusters. <b>E</b>, IV and H1 NOS were calculated against inactive TSS, the two datasets were highly correlated with a Pearson’s correlation coefficient (PCC) of 0.957.