Statistics of protein-DNA binding and the total number of binding sites for a transcription factor in the mammalian genome.

ABSTRACT:

Background

Transcription factor (TF)-DNA binding loci are explored by analyzing massive datasets generated with application of Chromatin Immuno-Precipitation (ChIP)-based high-throughput sequencing technologies. These datasets suffer from a bias in the information about binding loci availability, sample incompleteness and diverse sources of technical and biological noises. Therefore adequate mathematical models of ChIP-based high-throughput assay(s) and statistical tools are required for a robust identification of specific and reliable TF binding sites (TFBS), a precise characterization of TFBS avidity distribution and a plausible estimation the total number of specific TFBS for a given TF in the genome for a given cell type.

Results

We developed an exploratory mixture proba

SUBMITTER: Kuznetsov VA 

PROVIDER: S-EPMC2822526 | biostudies-literature | 2010 Feb

REPOSITORIES: biostudies-literature