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Series GSE78800 Query DataSets for GSE78800
Status Public on Jun 02, 2016
Title Dissection of a super-enhancer in vivo (ATAC-seq)
Organism Mus musculus
Experiment type Other
Summary Many genes determining cell identity are regulated by a set of enhancer elements collectively referred to as super-enhancers. It has been suggested that super-enhancers represent a new class of cis-element, in which the assembly of enhancers confers an emergent property from the extended regulatory domain. To investigate this, we used published criteria to define one of the strongest super-enhancers in mouse erythroid cells – a 24kb region regulating α-globin expression, which comprises five enhancer-like components. Using homologous recombination, we deleted each component of this super-enhancer, singly and in informative combinations, and examined hematologic phenotype, gene expression, chromatin structure and chromosome conformation. Each component behaves independently, in an additive rather than synergistic manner. We conclude that the sub-classification of enhancers is unjustified beyond a description of their strength, which is defined by the number of lineage-specific transcription factors they bind. These findings ask afresh why enhancer-like elements cluster at key genes.
Overall design ATAC-seq on 18 Samples with different enhancer-like components
Contributor(s) Suciu MC, Hughes J
Citation(s) 27376235
Submission date Mar 01, 2016
Last update date May 15, 2019
Contact name Jim Hughes
Phone 1865222113
Organization name University of Oxford
Department MHU
Lab Genome Biology Group
Street address Weatherall Institute Of Molecular Me
City oxford
ZIP/Postal code OX3 9DS
Country United Kingdom
Platforms (2)
GPL16417 Illumina MiSeq (Mus musculus)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (19)
GSM2077297 Fetal liver Knockout of alpha globin regulatory element R1, biological replicate 1 [ATAC-seq]
GSM2077298 Fetal liver Knockout of alpha globin regulatory element R1, biological replicate 2 [ATAC-seq]
GSM2077299 Fetal liver Knockout of alpha globin regulatory element R2, biological replicate 1 [ATAC-seq]
This SubSeries is part of SuperSeries:
GSE78835 Genetic dissection of the α-globin super-enhancer
BioProject PRJNA313964
SRA SRP071035

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SOFT formatted family file(s) SOFTHelp
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Supplementary file Size Download File type/resource
GSE78800_RAW.tar 2.2 Gb (http)(custom) TAR (of WIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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