Sequence-based prediction of single nucleosome positioning and genome-wide nucleosome occupancy.

@article{Heijden2012SequencebasedPO,
  title={Sequence-based prediction of single nucleosome positioning and genome-wide nucleosome occupancy.},
  author={Thijn van der Heijden and Joke J. F. A. van Vugt and Colin Logie and John van Noort},
  journal={Proceedings of the National Academy of Sciences of the United States of America},
  year={2012},
  volume={109 38},
  pages={E2514-22}
}
Nucleosome positioning dictates eukaryotic DNA compaction and access. To predict nucleosome positions in a statistical mechanics model, we exploited the knowledge that nucleosomes favor DNA sequences with specific periodically occurring dinucleotides. Our model is the first to capture both dyad position within a few base pairs, and free binding energy within 2 k(B)T, for all the known nucleosome positioning sequences. By applying Percus's equation to the derived energy landscape, we isolate… CONTINUE READING
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