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| Status |
Public on May 19, 2016 |
| Title |
An extensive program of periodic alternative splicing linked to cell cycle progression |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Progression through the mitotic cell cycle requires periodic regulation of gene function at the levels of transcription, translation, protein-protein interactions, post-translational modification and degradation. However, the role of alternative splicing (AS) in the temporal control of cell cycle is not well understood. By sequencing the human transcriptome through two continuous cell cycles, we identify ~1,300 genes with cell cycle-dependent AS changes. These genes are significantly enriched in functions linked to cell cycle control, yet they do not significantly overlap genes subject to periodic changes in steady-state transcript levels. Many of the periodically spliced genes are controlled by the SR protein kinase CLK1, whose level undergoes cell cycle-dependent fluctuations via an auto-inhibitory circuit. Disruption of CLK1 causes pleiotropic cell cycle defects and loss of proliferation, whereas CLK1 over-expression is associated with various cancers. These results thus reveal a large program of CLK1-regulated periodic AS intimately associated with cell cycle control.
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| Overall design |
By sequencing the human transcriptome through two continuous cell cycles, we identify ~1,300 genes with cell cycle-dependent AS changes.
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| Contributor(s) |
Dominguez D, Wang Z, Blencowe BJ |
| Citation(s) |
27015110 |
| Submission date |
May 16, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Zefeng Wang |
| E-mail(s) |
wangzefeng@picb.ac.cn
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| Organization name |
CAS-MPG Partner Institute for Computational Biology (PICB)
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| Street address |
320 Yueyang Road
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| City |
Shanghai |
| ZIP/Postal code |
200031 |
| Country |
China |
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| Platforms (2) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
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| Samples (22)
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| GSM2154757 |
double thymidine block at 6h |
| GSM2154758 |
double thymidine block at 9h |
| GSM2154759 |
double thymidine block at 10.5h |
| GSM2154760 |
double thymidine block at 12h |
| GSM2154761 |
double thymidine block at 15h |
| GSM2154762 |
double thymidine block at 18h |
| GSM2154763 |
double thymidine block at 19.5h |
| GSM2154764 |
double thymidine block at 21h |
| GSM2154765 |
double thymidine block at 22.5h |
| GSM2154766 |
double thymidine block at 25.5h |
| GSM2154767 |
double thymidine block at 30h |
| GSM2183617 |
G1 phase untreated, duplicate b |
| GSM2183618 |
G1 phase untreated, duplicate a |
| GSM2183619 |
G2 phase (T=6 hour), DMSO treated control sample, duplicate b |
| GSM2183620 |
G2 phase (T=6 hour), DMSO treated control sample, duplicate a |
| GSM2183621 |
G2 phase (T=6 hour) KHCB treated sample , duplicate b |
| GSM2183622 |
G2 phase (T=6 hour) KHCB treated sample , duplicate a |
| GSM2183623 |
G2 phase (T=6 hour) TG003 treated sample , duplicate b |
| GSM2183624 |
G2 phase (T=6 hour) TG003 treated sample , duplicate a |
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| Relations |
| BioProject |
PRJNA321855 |
| SRA |
SRP075278 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE81485_RAW.tar |
31.7 Mb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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