Evaluation of DNA intramolecular interactions for nucleosome positioning in yeast.
We calculated intramolecular interaction energies of DNA by threading DNA sequences around crystal structures of nucleosomes. The strength of the intramolecular energy oscillations at frequency approximately 10 bps for dinucleotides was in agreement with previous nucleosome models. The intramolecular energy calculated along yeast genome positively correlated with nucleosome positioning experimentally measured.
Fernandez
Michael
M
Department of Bioscience and Bioinformatics, Kyushu Institute of Technology (KIT), Iizuka 820-8502, Japan. re0701m@bio.kyutech.ac.jp
Fujii
Satoshi
S
Kono
Hidetoshi
H
Sarai
Akinori
A
D004271:DNA, Fungal / Q000378:metabolism*; D009707:Nucleosomes / Q000378:metabolism*; D012441:Saccharomyces cerevisiae / Q000378:metabolism*
D004271:DNA, Fungal; D009707:Nucleosomes