A continuous-index Bayesian hidden Markov model for prediction of nucleosome positioning in genomic DNA.

ABSTRACT: Nucleosomes are units of chromatin structure, consisting of DNA sequence wrapped around proteins called "histones." Nucleosomes occur at variable intervals throughout genomic DNA and prevent transcription factor (TF) binding by blocking TF access to the DNA. A map of nucleosomal locations would enable researchers to detect TF binding sites with greater efficiency. Our objective is to construct an accurate genomic map of nucleosome-free regions (NFRs) based on data from high-throughput genomic tiling arrays in yeast. These high-volume data typically have a complex structure in the form of dependence on neighboring probes as well as underlying DNA sequence, variable-sized gaps, and missing data. We propose a novel continuous-index model appropriate for non-equispaced tiling array data that s

SUBMITTER: Mitra R 

PROVIDER: S-EPMC3114652 | biostudies-literature | 2011 Jul

REPOSITORIES: biostudies-literature