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| 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
Other
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| 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.
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| Overall design |
CapStarr-seq analysis of DnaseI regions in K562 and HeLa cell lines (2 replicates) and in the plasmid library before transfection (Input).
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| 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 |
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| Submission date |
Jun 13, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Salvatore Spicuglia |
| E-mail(s) |
[email protected]
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| Organization name |
INSERM
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| Department |
TAGC U1090
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| Lab |
Salvatore Spicuglia
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| Street address |
163, Avenue de Luminy
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| City |
Marseille |
| State/province |
PACA |
| ZIP/Postal code |
13288 |
| Country |
France |
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| Platforms (1) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
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| Samples (5)
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| Relations |
| BioProject |
PRJNA325509 |
| SRA |
SRP076480 |
| 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) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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