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Series GSE24326 Query DataSets for GSE24326
Status Public on May 31, 2011
Title Genome-wide profiling of H3K56 acetylation and transcription factor binding sites in human adipocytes
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary We use ChIP-seq to discover the genome-wide sites of acetylation of lysine 56 of the histone H3 (H3K56), which is a target of three histone modifying enzymes with known roles in diabetes and insulin resistance, in human adipocytes derived from mesenchymal stem cells. Surprisingly, we find that a very large fraction of genes show some level of acetylation on H3K56, but the highest levels of acetylation are associated with genes previously reported to be involved in type 2 diabetes. Using computational methods, we propose that the transcription factor E2F4 may be involved in recruiting histone modifying enzymes to these sites. We confirm this prediction by measuring the binding of E2F4 using ChIP-seq. We also examine the binding of two other proteins using ChIP-Seq: HSF-1 and C/EBPα . HSF-1 is a master regulator of stress responses, and is a target of the same histone modifiers as H3K56. We find a high degree of overlap between HSF-1 binding and H3K56 acetylation even in cells that are not stressed. By contrast, C/EBPα , which is not known to be modified by these enzymes, shows much less overlap with the sites of H3K56 acetylation. Our results represent the first mapping of the regulatory code of human adipocytes.
 
Overall design Examination of H3K56 acetylation sites and E2F4,C/EBPα and HSF-1 binding sites in human adipocytes.
 
Contributor(s) Lo KA, Fraenkel E
Citation(s) 21655096
Submission date Sep 23, 2010
Last update date May 15, 2019
Contact name Kinyui Alice LO
E-mail(s) lky@mit.edu
Phone 617-253-2042
Organization name MIT
Department Biological Engineering
Lab Fraenkel
Street address 77 Massachusetts Ave.
City Cambridge
State/province MA
ZIP/Postal code 02139
Country USA
 
Platforms (1)
GPL9115 Illumina Genome Analyzer II (Homo sapiens)
Samples (5)
GSM599836 H3K56ac_ChIPSeq
GSM599837 E2F4_ChIPSeq
GSM599838 C/EBPa_ChIPSeq
Relations
SRA SRP003654
BioProject PRJNA132733

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE24326_RAW.tar 320.2 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA

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