title: Predicting nucleosome positions in yeast: using the absolute frequency.
abstract: Nucleosome is the basic structure of chromatin in eukaryotic cells, and they form the chromatin fiber interconnected by sections of linker DNA. Nucleosome positioning is of great significance for gene transcription regulation. In this paper, we consider the difference of absolute frequency of nucleotides between the nucleosome forming and nucleosome inhibiting sequences. Based on the 2-mer absolute frequency of nucleotides in genome, a new model is constructed to distinguish nucleosome DNA and linker DNA. When used to predict DNA potential for forming nucleosomes in S. cerevisiae, the model achieved a high accuracy of 96.05%. Thus, the model is very useful for predicting nucleosome positioning.
authors.affiliation: School of Mathematics and Statistics, Shandong University at Weihai, Weihai 264209, China.
authors.forename: Zhiqian
authors.initials: Z
authors.lastname: Zhang
authors.forename: Yusen
authors.initials: Y
authors.lastname: Zhang
authors.forename: Ivan
authors.initials: I
authors.lastname: Gutman
mesh_terms: D016681:Genome, Fungal; D008957:Models, Genetic; D009707:Nucleosomes / Q000235:genetics / Q000378:metabolism*; D009711:Nucleotides; D012372:ROC Curve; D012441:Saccharomyces cerevisiae / Q000166:cytology / Q000235:genetics* / Q000378:metabolism
chemical_list: D009707:Nucleosomes; D009711:Nucleotides