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Series GSE42474 Query DataSets for GSE42474
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
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.
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.
Contributor(s) Whyte W, Hnisz D, Mullen AC, Orlando DA, Young RA
Citation(s) 23582322
Submission date Nov 23, 2012
Last update date May 15, 2019
Contact name Richard A Young
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 (2)
GPL9250 Illumina Genome Analyzer II (Mus musculus)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (9)
GSM1038259 ChIP-Seq_Med1_0HR
GSM1038260 ChIP-Seq_WCE_0HR
GSM1038261 ChIP-Seq_MED1_48HR
This SubSeries is part of SuperSeries:
GSE44288 Master Transcription Factors and Mediator Establish Super-Enhancers at Key Cell Identity Genes
BioProject PRJNA182170
SRA SRP017308

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Supplementary file Size Download File type/resource
GSE42474_RAW.tar 96.2 Mb (http)(custom) TAR (of TSV, WIG)
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Raw data are available in SRA
Processed data provided as supplementary file

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