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Series GSE56872 Query DataSets for GSE56872
Status Public on Apr 17, 2014
Title Transcription factor cooperativity in early adipogenic hotspots and super-enhancers
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Summary Here we have used a combination of advanced proteomics and genomics approaches to investigate the extent and mechanisms of transcription factor cross-talk at genomic hotspots. We identify ~12,000 transcription factor hotspots in the early phase of adipogenesis, and we find evidence of both simultaneous and sequential binding of transcription factors at these regions. We demonstrate for the first time that hotspots are highly enriched in large super-enhancer regions and that these drive the early adipogenic reprogramming of gene expression. Our results indicate that cooperativity between transcription factors at the level of hotspots as well as super-enhancers is very important for enhancer activity and transcriptional reprogramming. Thus, hotspots and super-enhancers constitute important regulatory hubs integrating external stimuli on chromatin.
Overall design Genome-wide profiling of transcription factor and co-factor binding, epigenomic marks, and gene expression in 3T3-L1 pre-adipocytes.
Contributor(s) Siersbæk R, Rabiee A, Nielsen R, Sidoli S, Traynor S, Loft A, Poulsen LL, Rogowska-Wrzesinska A, Jensen ON, Mandrup S
Citation(s) 24857652
Submission date Apr 17, 2014
Last update date May 15, 2019
Contact name Susanne Mandrup
Phone +45 6550 2340
Organization name University of Southern Denmark
Department Biochemistry and Molecular Biology
Street address Campusvej 55
City Odense M
ZIP/Postal code 5230
Country Denmark
Platforms (2)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
GPL18480 Illumina HiSeq 1500 (Mus musculus)
Samples (32)
GSM1370447 ATF2 ChIP-seq, 3T3-L1 4h
GSM1370448 ATF7 ChIP-seq, 3T3-L1 4h
GSM1370449 cJun ChIP-seq, 3T3-L1 4h
BioProject PRJNA244848
SRA SRP041249

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Supplementary file Size Download File type/resource
GSE56872_RAW.tar 1.5 Gb (http)(custom) TAR (of BED, BEDGRAPH)
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Raw data are available in SRA
Processed data provided as supplementary file

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