|
| Status |
Public on Mar 28, 2017 |
| Title |
DHX9 suppresses spurious RNA processing defects originating from the Alu invasion of the human genome [XL1 DHX9 FLASH CLIP-seq] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Transposable elements increase genetic diversity thus making them an important part of evolution and gene regulation in all organisms that carry these sequences. Bulk of our nascent transcriptome is comprised of transposable elements that have the propensity to form strong secondary structures. It is essential to resolve such strong secondary structures to maintain normal cellular function. Here, we show that the major nuclear RNA helicase DHX9/RHA interacts and remodels embedded Alu retrotransposable elements in the human transcriptome and B1 retrotransposable elements in the mouse transcriptome. To understand the function of DHX9 we used FLASH (Fast cloning of RNA After some Sort of affinity purification for High-throughput sequencing) to identify the in-vivo targets of human DHX9.
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| |
|
| Overall design |
FLASH (Fast cloning of RNA After some Sort of affinity purification for High-throughput sequencing) for human DHX9 using two different antibodies (DHX9-mAb and DHX9-Rb) and one control (IgG-Rb); two biological replicates each.
|
| |
|
| Contributor(s) |
Ilik I, Maticzka D |
| Citation(s) |
28355180 |
| Submission date |
Oct 28, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Asifa Akhtar |
| E-mail(s) |
akhtarlab_data@ie-freiburg.mpg.de
|
| Organization name |
Max Planck Institute of Immunobiology and Epigenetics
|
| Department |
Chromatin Regulation
|
| Lab |
Akhtar Lab
|
| Street address |
Stuebeweg 51
|
| City |
Freiburg |
| ZIP/Postal code |
79108 |
| Country |
Germany |
| |
|
| Platforms (1) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
|
| Samples (6)
|
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| This SubSeries is part of SuperSeries: |
| GSE85164 |
DHX9 suppresses spurious RNA processing defects originating from the Alu invasion of the human genome |
|
| Relations |
| BioProject |
PRJNA351228 |
| SRA |
SRP092248 |
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