Nucleosome Dynamics Defines Transcriptional Enhancers

• Activity Number: 157
• Type: Topic Contributed
• Date/Time: Monday, August 2, 2010 : 10:30 AM to 12:20 PM
• Sponsor: Biometrics Section
• Author(s): Xiaole Shirley Liu*+
• Companies: Dana-Farber Cancer Institute/Harvard School of Public Health
• Keywords: Nucleosome

Abstract

Nucleosome-resolution ChIP-seq of H3K4me2 is a cost-effective approach to study genome-wide nucleosome occupancy at functional promoters and enhancers. Between two related biological conditions, differential transcription factor binding is often accompanied by a distinct profile, where nucleosomes at the transcription factor binding sites are displaced with reduced H3K4me2 signals, and the two nucleosomes flanking the binding sites are better positioned with increased H3K4me2 signals. By selecting genome-wide regions with such H3K4me2 changes and conducting motif analysis within the two flanking nucleosomes, we could identify driving transcription factors in a biological process, and infer their genome-wide binding locations and regulated genes. We applied this technique to study mouse intestine development and androgen response in human prostate cancer.