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| Status |
Public on Nov 22, 2019 |
| Title |
Hotspot exons are common targets of splicing perturbations |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
RNA-seq of amiloride-treated cell culture was conducted in order to understand the characteristics that make certain exons susceptible to splicing perturbations. Amiloride is a diuretic that acts by inhibiting epithelial sodium channels in the kidney. It also behaves as a non-specific kinase inhibitor, and has been shown to affect splicing in a handful of genes, presumably by altering phosphorylation of splicing factors. Two samples were sequenced (one untreated, one treated). Differential splicing was done using rMATS version 3.2.5.
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| Overall design |
Poly-A+ RNA from HEK293T cells untreated or treated with amiloride (300 µg/mL) for 6 h was isolated and prepared for RNA-seq.
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| Contributor(s) |
Glidden DT, Buerer JL, Sauressig CF, Fairbrother WG |
| Citation(s) |
33980843 |
| NIH grant(s) |
| Grant ID |
Grant title |
Affiliation |
Name |
| R01 GM105681 |
A genomic approach to studying the life cycle of intron lariats |
BROWN UNIVERSITY |
William G Fairbrother |
| R01 GM127472 |
Discovering Splicing Defects in Human Genes |
BROWN UNIVERSITY |
William G Fairbrother |
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| |
| Submission date |
Nov 21, 2019 |
| Last update date |
May 13, 2021 |
| Contact name |
David Thomas Glidden |
| E-mail(s) |
david_glidden@brown.edu
|
| Organization name |
Brown University
|
| Department |
Molecular and Cell Biology
|
| Lab |
Fairbrother
|
| Street address |
70 Ship St.
|
| City |
Providence |
| State/province |
RI |
| ZIP/Postal code |
02903 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
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| Samples (2) |
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| Relations |
| BioProject |
PRJNA590968 |
| SRA |
SRP231154 |
