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Old 03-20-2012, 03:20 AM   #1
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Default ChIP-Seq: MAnorm: a robust model for quantitative comparison of ChIP-Seq data sets.

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MAnorm: a robust model for quantitative comparison of ChIP-Seq data sets.

Genome Biol. 2012 Mar 16;13(3):R16

Authors: Shao Z, Zhang Y, Yuan GC, Orkin SH, Waxman DJ

Abstract
ABSTRACT: ChIP-Seq is widely used to characterize genome-wide binding patterns of transcription factors and other chromatin-associated proteins. Although comparison of ChIP-Seq data sets is critical for understanding cell type-dependent and cell state-specific binding, and thus the study of cell-specific gene regulation, few quantitative approaches have been developed. Here, we present a simple and effective method, MAnorm, for quantitative comparison of ChIP-Seq data sets describing transcription factor binding sites and epigenetic modifications. The quantitative binding differences inferred by MAnorm showed strong correlation with both the changes in expression of target genes and the binding of cell type-specific regulators.


PMID: 22424423 [PubMed - as supplied by publisher]



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