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| Status |
Public on Apr 21, 2016 |
| Title |
Profile of RNAs bound by wild-type (WT) or R534H variant of DDX3 with or without Sodium Arsenite treatment [iCLIP-Seq] |
| Organism |
Homo sapiens |
| Experiment type |
Other
|
| Summary |
By iCLIP-seq, we demonstrated that DDX3 binds to specific sites on 18S ribosomal RNA and to messenger RNAs at 5’ leader and guanidine-rich sequences immediately upstream of ribosome-dense regions and that arsenite treatment redistributes DDX3 binding from 5'UTR to CDS, which is attenuated by DDX3 R534H.
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| Overall design |
Cells were treated with or without sodium arsenite. RNAs crosslinked by UV to FLAG-tagged DDX3 WT or DDX3 R534H were immunoprecipitated sequentially, first with anti-FLAG antibody and second with anti-DDX3 antibody, then sequenced.
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| Contributor(s) |
Oh S, Flynn RA, Chang HY, Cho Y |
| Citation(s) |
27058758 |
| Submission date |
Jul 11, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Sekyung Oh |
| E-mail(s) |
ohskjhmi@gmail.com
|
| Phone |
650-725-3354
|
| Organization name |
Stanford University School of Medicine
|
| Department |
Neurology and Neurological Sciences
|
| Street address |
1201 Welch Road, MSLS P224
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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| Samples (8)
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| This SubSeries is part of SuperSeries: |
| GSE70804 |
Profiles of ribosome-associated mRNAs regulated by expression of wild-type (WT) or R534H variant of DDX3 with or without Sodium Arsenite treatment |
|
| Relations |
| BioProject |
PRJNA289566 |
| SRA |
SRP060675 |
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