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| Status |
Public on Dec 01, 2021 |
| Title |
RNA-seq on Zfp961 GFP flox/flox mESCs to verify ERVKs repression by Zfp961. |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
To investigate the functional consequences in the absence of ZFP961 in mESCs, we treated the Zfp961-GFPflox/flox cells with 4-OHT to deplete the ZFP961 alleles, and then performed RNA-seq on three independent Zfp961-GFPflox/flox ESC lines before and after Cre mediated excision. Considerate that stable DNA methylation may remain upon Zfp961 absent, therefore ERVKs could still be repressed, we then treated Zfp961-GFPflox/flox cells with 5aza, which a inhibitor of DNA methylation, 24h before Zfp961 deletion with 4-OHT addition. After 4-OHT treatment，we performed RNAseq again, and this time we observed a ETnERV2-int, with belongs to ERVK elements, was upregulated after Zfp961 deletion.
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| Overall design |
Basically, three Zfp961-GFP floxed mESCs cell lines treated with 4-OHT or EtOH as control and two cell lines treated with 5AZA for 24h and then treated with 4-OHT or EtOH. RNA of these cell lines was isolated and sequenced.
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| |
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| Contributor(s) |
Yang B |
| Citation(s) |
35259018 |
| |
| Submission date |
Aug 21, 2020 |
| Last update date |
Nov 09, 2022 |
| Contact name |
Bo Yang |
| E-mail(s) |
yangbo2099@sina.cn
|
| Phone |
15221512158
|
| Organization name |
Tongji University
|
| Lab |
Lab of Yang Peng
|
| Street address |
No.67 Chifeng Road
|
| City |
Shanghai |
| State/province |
Shanghai |
| ZIP/Postal code |
200092 |
| Country |
China |
| |
|
| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
|
| Samples (10)
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| This SubSeries is part of SuperSeries: |
| GSE156604 |
Krab-ZFPs Inhibit Retrovirus by Targeting PBS Sites |
|
| Relations |
| BioProject |
PRJNA658495 |
| SRA |
SRP278353 |
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