Regulation of the Nucleosome Repeat Length In Vivo by the DNA Sequence, Protein Concentrations and Long-Range Interactions
Figure 3
Nucleosome occupancy patterns around TSS in S. cerevisiae explained by the lattice binding model.
Dots correspond to the experimental data [29]; straight lines are the nucleosome density patterns estimated by TFnuc algorithm with the following model parameters: A) “Tonks gas” model: N = 4000 bp, KNCP = 3·106 M−1; c0(NCP) = 10−6 M; B) Nucleosome unwrapping model: KNCP = 3·106 M−1; c0(NCP) = 10−6 M; hmax = 40; C) Linker histone model: KNCP = 1·105 M−1; c0(NCP) = 10−6 M; Klinker = 9·105 M−1; c0(linker) = 10−6 M; m(linker) = 15 bp; hmax = 15 bp; D) Long-range interaction model: KNCP = 3·106 M−1; c0(NCP) = 10−6 M; hmax = 40 bp; w(0:30, NCP, NCP) = 0.