Article
Systematic evaluation of the impact of ChIP-seq read designs on genome coverage, peak identification, and allele-specific binding detection.
BMC bioinformatics - 24 Feb 2016
Zhang Qi, Zeng Xin, Younkin Sam, Kawli Trupti, Snyder Michael P, Keleş Sündüz
Abstract excerpt
BACKGROUND: Chromatin immunoprecipitation followed by sequencing (ChIP-seq) experiments revolutionized genome-wide profiling of transcription factors and histone modifications. Although maturing sequencing technologies allow these experiments to be carried out with short (36-50 bps), long (75-100 bps), single-end, or paired-end reads, the impact of these read parameters on the downstream data analysis are not...
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