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Series GSE44287 Query DataSets for GSE44287
Status Public on Feb 13, 2013
Title Master Transcription Factors and Mediator Establish Super-Enhancers at Key Cell Identity Genes [gene expression]
Organism Mus musculus
Experiment type Expression profiling by array
Summary The master transcription factors Oct4, Sox2 and Nanog bind enhancer elements and recruit the Mediator co-activator to activate much of the gene expression program of embryonic stem cells (ESCs). We report here that the ESC master transcription factors and Mediator form “super-enhancers” at most genes known to control the pluripotent state, including those encoding the master transcription factors themselves. These super-enhancers consist of extraordinarily large genomic domains occupied by exceptional amounts of Oct4, Sox2, Nanog, Klf4, Esrrb and Mediator. Super-enhancers stimulate considerably higher transcription than typical enhancers in vivo and in reporter vectors. Reduced levels of Oct4 or Mediator cause preferential loss of expression of super-enhancer-associated genes relative to other genes, suggesting how changes in gene expression programs might be accomplished during development. In other more differentiated cells, super-enhancers containing cell-type-specific master transcription factors are also found at genes that define cell identity. These results implicate super-enhancers in the control of mammalian cell identity and differentiation.
 
Overall design Time-course of gene expression following shRNA knockdown of Oct4 and Med12.
 
Contributor(s) Kagey MH, Whyte W, Orlando D, Abraham BJ, Hnisz D, Young RA
Citation(s) 23582322
Submission date Feb 13, 2013
Last update date May 10, 2018
Contact name Richard A Young
E-mail(s) young_computation@wi.mit.edu
Phone 617-258-5219
Organization name Whitehead Institute for Biomedical Research
Lab Young Lab
Street address 9 Cambridge Center
City Cambridge
State/province MA
ZIP/Postal code 02142
Country USA
 
Platforms (1)
GPL4134 Agilent-014868 Whole Mouse Genome Microarray 4x44K G4122F (Feature Number version)
Samples (5)
GSM1082433 Med12_KD_Day3
GSM1082434 Med12_KD_Day4
GSM1082435 Oct4_shutdown_Day3
This SubSeries is part of SuperSeries:
GSE44288 Master Transcription Factors and Mediator Establish Super-Enhancers at Key Cell Identity Genes
Relations
BioProject PRJNA189324

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
GSE44287_RAW.tar 78.8 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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