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| Status |
Public on May 02, 2018 |
| Title |
DDX1 regulates alternative splicing and insulin secretion in pancreatic β cells |
| Organism |
Rattus norvegicus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
DEAD-box helicase 1 (DDX1) is a multifunction protein involved in diverse cellular processes including transcription, viral replication, mRNA/miRNA processing, and tRNA splicing. Here, we report a novel function of DDX1 in mRNA alternative splicing in pancreatic β cells. By performing integrated data analysis of high-throughput RNA sequencing (RNA-Seq), and cross-linking and immunoprecipitation coupled with deep sequencing (CLIP-Seq), we identify hundreds of alternative splicing genes that are targeted by DDX1. These DDX1-targeted alternative splicing genes are mainly associated with calcium ion binding, high voltage-gated calcium channel, and transmembrane transporter. Functionally, silencing DDX1 impairs calcium influx and insulin secretion in the pancreatic β cells. These results reveal an important role for DDX1 in the regulation of gene alternative splicing and insulin secretion in pancreatic β cells.
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| Overall design |
To generate the transcriptomic profile mediated by DDX1, we constructed a DDX1 knockdown INS1 cell line (shDDX1) by stably expression short hairpin RNA (shRNA) targeting DDX1. Three independent preparations of shDDX1 and scramble cells were then RNA-sequenced. High-throughput sequencing was performed on a HiSeq 2500 (Illumina) system with paired ends 125bp in length.
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| Contributor(s) |
Zhong W, Li Z, Zhou M, Wang Y, Xu T |
| Citation(s) |
29679569 |
| Submission date |
May 01, 2018 |
| Last update date |
Oct 22, 2018 |
| Contact name |
Wen Zhong |
| E-mail(s) |
zhongwenhust@gmail.com
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| Organization name |
Institute of Biophysics, Chinese Academy of Sciences
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| Street address |
Datun Road
|
| City |
Beijing |
| ZIP/Postal code |
100101 |
| Country |
China |
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| Platforms (1) |
| GPL18694 |
Illumina HiSeq 2500 (Rattus norvegicus) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA454378 |
| SRA |
SRP144163 |
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