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Status |
Public on Jan 02, 2013 |
Title |
Master Transcription Factors and Mediator Establish Super-Enhancers at Key Cell Identity Genes [ChIP-Seq and RNA-seq] |
Organism |
Mus musculus |
Experiment type |
Genome binding/occupancy profiling by high throughput sequencing Expression profiling by high throughput sequencing
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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 these ESC master transcription factors and Mediator form “super-enhancers” at most genes that are 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 and Mediator. Super-enhancers stimulate considerably higher transcription than typical enhancers in reporter vectors. ESC differentiation causes preferential loss of expression of super-enhancer -associated genes. Super-enhancers are also found at key cell identity genes in differentiated cells. These results implicate super-enhancers in the control of mammalian cell identity and differentiation and suggest that these elements might generally be used to identify genes that control cell-type specific gene expression programs in many mammalian cells.
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Overall design |
ChIP-Seq and RNA-seq of Med1 in ZHBTc4 ES during treatment with doxycycline. ChIP-Seq data of Med1 in 38B9 pro-B cells.
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Contributor(s) |
Whyte W, Hnisz D, Mullen AC, Orlando DA, Young RA |
Citation(s) |
23582322 |
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Submission date |
Nov 23, 2012 |
Last update date |
May 15, 2019 |
Contact name |
Richard A Young |
E-mail(s) |
young_computation@wi.mit.edu
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Phone |
617-258-5219
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Organization name |
Whitehead Institute for Biomedical Research
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Lab |
Young Lab
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Street address |
9 Cambridge Center
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City |
Cambridge |
State/province |
MA |
ZIP/Postal code |
02142 |
Country |
USA |
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Platforms (2) |
GPL9250 |
Illumina Genome Analyzer II (Mus musculus) |
GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
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Samples (9)
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This SubSeries is part of SuperSeries: |
GSE44288 |
Master Transcription Factors and Mediator Establish Super-Enhancers at Key Cell Identity Genes |
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Relations |
BioProject |
PRJNA182170 |
SRA |
SRP017308 |