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Piper, Jason; Assi, Salam A.; Cauchy, Pierre; Ladroue, Christophe; Cockerill, Peter N.; Bonifer, Constanze; Ott, Sascha (2015)
Publisher: BioMed Central Ltd.
Languages: English
Types: Article
Subjects: QR

Classified by OpenAIRE into

mesheuropmc: genetic processes
Background:\ud The analysis of differential gene expression is a fundamental tool to relate gene regulation with specific biological processes. Differential binding of transcription factors (TFs) can drive differential gene expression. While DNase-seq data can provide global snapshots of TF binding, tools for detecting differential binding from pairs of DNase-seq data sets are lacking.\ud \ud Results:\ud In order to link expression changes with changes in TF binding we introduce the concept of differential footprinting alongside a computational tool. We demonstrate that differential footprinting is associated with differential gene expression and can be used to define cell types by their specific TF occupancy patterns.\ud \ud Conclusions:\ud Our new tool, Wellington-bootstrap, will enable the detection of differential TF binding facilitating the study of gene regulatory systems.

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