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Series GSE83296 Query DataSets for GSE83296
Status Public on Apr 21, 2017
Title Genome-wide characterization of mammalian promoters with distal enhancer functions
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Gene expression in mammals is precisely regulated by combination of promoters and gene-distal regulatory regions, known as enhancers. Several studies have suggested that some promoters might play enhancer functions. However, the extent of this type of promoters and whether they actually function to regulate the expression of distal genes have remained elusive. Here, by exploiting a high-throughput enhancer reporter assay, we unravel a set of mammalian promoters displaying enhancer activity. These promoters have distinct genomic and epigenomic features and frequently interact with other gene-promoters. Extensive CRISPR/Cas9 genomic manipulation demonstrated their involvement in cis-regulation of distal gene expression in their natural loci. Our results have important implications for the understanding of complex gene regulation in normal development and disease.
Overall design CapStarr-seq analysis of DnaseI regions in K562 and HeLa cell lines (2 replicates) and in the plasmid library before transfection (Input).
Contributor(s) Dao LM, Galindo-Albarran AO, Castro J, Souadi C, Charbonnier G, Griffon A, Vanhille L, Soler C, Stephen T, Soler E, Medina A, van Helden J, Puthier D, Martin D, Alomairi J, Torres M, Fernandez N, Spicuglia S
Citation(s) 28581502
Submission date Jun 13, 2016
Last update date May 15, 2019
Contact name Salvatore Spicuglia
Organization name INSERM
Department TAGC U1090
Lab Salvatore Spicuglia
Street address 163, Avenue de Luminy
City Marseille
State/province PACA
ZIP/Postal code 13288
Country France
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (5)
GSM2198557 CapStarr-seq K562 replicate 1
GSM2198558 CapStarr-seq K562 replicate 2
GSM2198559 CapStarr-seq HeLa replicate 1
BioProject PRJNA325509
SRA SRP076480

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Supplementary file Size Download File type/resource
GSE83296_Capstarr_Human_data.txt.gz 961.9 Kb (ftp)(http) TXT
GSE83296_RAW.tar 12.9 Mb (http)(custom) TAR (of WIG)
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Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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