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| Status |
Public on Feb 15, 2022 |
| Title |
Investigating the role of Dicer-dependent transfer RNA-derived small RNAs in gene expression regulation |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
Other
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| Summary |
We used sequencing analyses to identify small RNAs that are generated in a Dicer-dependent manner and the genes that are dysregulated upon Dicer knockdown at the mRNA level, and upon Drosha, Dicer and Ago2 knockdown at the chromatin level in HEK293 cells. We found that levels of tRNA-derived sRNAs decreased alongside microRNAs upon Dicer knockdown. Many genes are dysregulated at the chromatin levels when Dicer and Ago2 levels are reduced, indicating that Dicer and Ago2 can regulate genes directly or indirectly at the transcriptional level. Drosha knockdown, on the other hand, has a marginal effect on RNA levels at the chromatin.
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| Overall design |
sRNA and mRNA profiles of HEK293 wt and Dicer knockdown cells were generated by deep sequencing, in triplicates; chromatin-associated RNA profiles of HEK293 wt, Drosha, Dicer and Ago2 knockdown cells were generated by deep sequencing, in duplicates.
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| Contributor(s) |
Pong SK, Schlackow M, Ng N, Burger K, Gullerova M |
| Citation(s) |
35048990 |
| Submission date |
Feb 19, 2019 |
| Last update date |
Mar 04, 2022 |
| Contact name |
Monika Gullerova |
| E-mail(s) |
monika.gullerova@path.ox.ac.uk
|
| Phone |
+44794220892
|
| Organization name |
University of Oxford
|
| Department |
Sir William Dunn School of Pathology
|
| Street address |
South Parks Road
|
| City |
Oxford |
| ZIP/Postal code |
OX1 3RE |
| Country |
United Kingdom |
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| Platforms (2) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
| GPL20301 |
Illumina HiSeq 4000 (Homo sapiens) |
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| Samples (20)
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| Relations |
| BioProject |
PRJNA523191 |
| SRA |
SRP186271 |
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