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| Status |
Public on Aug 25, 2021 |
| Title |
Characterization of R-loop-interacting proteins in embryonic stem cells reveals roles in ribosomal RNA processing and gene expression |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
We performed mRNA-seq on mouse embryonic stem cells, with four DEAD-box family proteins, DDX10, DDX24, DDX27, DDX54 being partially depleted using RNA interference. Knockdown of EGFP was carried out as a control. By comparing all four knockdowns, we observed misregulation of a highly-overlapping set of genes, indicating that they regulate mRNA levels through a shared pathway.
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| |
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| Overall design |
mRNA profiles of knockdowns of 4 Ddx genes, with EGFP knockdown as control, all performed with three biological replicates
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| |
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| Contributor(s) |
Fazzio TG, Wu T |
| Citation(s) |
34478875 |
| Submission date |
Nov 20, 2020 |
| Last update date |
Nov 24, 2021 |
| Contact name |
Thomas G Fazzio |
| E-mail(s) |
thomas.fazzio@umassmed.edu
|
| Organization name |
University of Massachusetts medical school
|
| Department |
Molecular, Cell and Cancer Biology
|
| Lab |
Fazzio lab
|
| Street address |
364 Plantation Street, Lazare Research Building -560E
|
| City |
Worcester |
| State/province |
Massachusetts |
| ZIP/Postal code |
01605 |
| Country |
USA |
| |
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| Platforms (1) |
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| Samples (15)
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| Relations |
| BioProject |
PRJNA679790 |
| SRA |
SRP293487 |
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