Fig. 8
From: Precise genome-wide mapping of single nucleosomes and linkers in vivo
Nucleosome organization modeled by statistical mechanics predicts the correct phasing pattern and NDR locations. a Fitted parameters for the energy barrier localized at the gene promoters. The barrier consists of two halves of a Gaussian distribution (H = 7.88 kBT; σ = 27.64 bp) with the centers shifted by x0 = 68 bp from the dyads of +1/–1 nucleosomes and a flat energy barrier in between. The additional fitting parameter, the binding energy for a nucleosome away from the barrier, u − μ = –2.79 kBT. b Predicted nucleosome organization in gene promoters. Promoters are aligned at +1 nucleosomes and sorted exactly as in Fig. 4a. c Predicted nucleosome distribution at the 3’ ends of genes, which are aligned at the TTS. Genes are sorted as in Fig. 4b. A discussion of the applications of Tonks gas modeling of nucleosome positions is presented elsewhere [105]