Document Detail

Quantitative ChIP-Seq Normalization Reveals Global Modulation of the Epigenome.
MedLine Citation:
PMID:  25437568     Owner:  NLM     Status:  In-Data-Review    
Epigenomic profiling by chromatin immunoprecipitation coupled with massively parallel DNA sequencing (ChIP-seq) is a prevailing methodology used to investigate chromatin-based regulation in biological systems such as human disease, but the lack of an empirical methodology to enable normalization among experiments has limited the precision and usefulness of this technique. Here, we describe a method called ChIP with reference exogenous genome (ChIP-Rx) that allows one to perform genome-wide quantitative comparisons of histone modification status across cell populations using defined quantities of a reference epigenome. ChIP-Rx enables the discovery and quantification of dynamic epigenomic profiles across mammalian cells that would otherwise remain hidden using traditional normalization methods. We demonstrate the utility of this method for measuring epigenomic changes following chemical perturbations and show how reference normalization of ChIP-seq experiments enables the discovery of disease-relevant changes in histone modification occupancy.
David A Orlando; Mei Wei Chen; Victoria E Brown; Snehakumari Solanki; Yoon J Choi; Eric R Olson; Christian C Fritz; James E Bradner; Matthew G Guenther
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Publication Detail:
Type:  Journal Article     Date:  2014-10-30
Journal Detail:
Title:  Cell reports     Volume:  9     ISSN:  2211-1247     ISO Abbreviation:  Cell Rep     Publication Date:  2014 Nov 
Date Detail:
Created Date:  2014-12-02     Completed Date:  -     Revised Date:  -    
Medline Journal Info:
Nlm Unique ID:  101573691     Medline TA:  Cell Rep     Country:  United States    
Other Details:
Languages:  eng     Pagination:  1163-70     Citation Subset:  IM    
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