Prediction of nucleosome positioning by the incorporation of frequencies and distributions of three different nucleotide segment lengths into a general pseudo k-tuple nucleotide composition.

ABSTRACT:

Motivation

Nucleosome positioning plays important roles in many eukaryotic intranuclear processes, such as transcriptional regulation and chromatin structure formation. The investigations of nucleosome positioning rules provide a deeper understanding of these intracellular processes.

Results

Nucleosome positioning prediction was performed using a model consisting of three types of variables characterizing a DNA sequence-the number of five-nucleotide sequences, the number of three-nucleotide combinations in one period of a helix, and mono- and di-nucleotide distributions in DNA fragments. Using recently proposed stringent benchmark datasets with low biases for Saccharomyces cerevisiae, Homo sapiens, Caenorhabditis elegans and Drosophila melanogaster, the present model was sho

SUBMITTER: Awazu A 

PROVIDER: S-EPMC5860184 | biostudies-literature | 2017 Jan

REPOSITORIES: biostudies-literature