Prediction and analysis of nucleosome positions in yeast
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The novel method for a prediction of nucleosome positions in yeast, based on Hidden Markov models extended by duration state modeling, was developed, implemented and tested, using data from Brogaard et al. (Brogaard K, Wang J-P, Widom, J. Nature 486(7404), 496-501 (2012). doi:10.1038/nature11142) for training and testing. Furthermore, several experiments were conducted to derive an importance of various features of nucleosome sequence preferences and global organization.