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| Status |
Public on Aug 03, 2023 |
| Title |
Effect of Overexpression of VIRMA on m6A-methylated mRNAs in breast cancer cells |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
To identify m6A-regulated mRNA targets affected by VIRMA overexpression we compared m6A peak abundance measured via m6A RNA immunoprecipitation sequenc-ing in SKBR3 cells overexpressing full-length VIRMA and eGFP control
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| |
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| Overall design |
m6A-RIP-sequencing was performed according to the recently published “Refined RIP-seq” with several modifications. . 5 μg total RNA was fragmented into ~200 nucleotide long fragments via incubation with ZnCl2 at 70˚C for 3 minutes. Fragmented RNA was precipitated, and the RNA size distribution was assessed using RNA 6000 Nano Bioanalyzer kit
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| |
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| Contributor(s) |
Wong J, Tiffen J, Lee Q, Song R |
| Citation(s) |
37208522 |
| |
| Submission date |
Jun 10, 2022 |
| Last update date |
Aug 03, 2023 |
| Contact name |
RENHUA SONG |
| E-mail(s) |
Renhua.song1989@gmail.com
|
| Phone |
61452667663
|
| Organization name |
Centenary Institute
|
| Lab |
Epigenetics and RNA Biology Program
|
| Street address |
Charles Perkins Centre - D17, Level 4 West. The University of Sydney Johns Hopkins Drive
|
| City |
Camperdown |
| State/province |
NSW |
| ZIP/Postal code |
2050 |
| Country |
Australia |
| |
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| Platforms (1) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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| Samples (8)
|
| GSM6235010 |
SKBR3 cells, eGFP control Input replicate 1 |
| GSM6235011 |
SKBR3 cells, eGFP control IP replicate 1 |
| GSM6235012 |
SKBR3 cells, eGFP control Input replicate 2 |
| GSM6235013 |
SKBR3 cells, eGFP control IP replicate 2 |
| GSM6235014 |
SKBR3 cells, VIRMA-overexpressing Input replicate 1 |
| GSM6235015 |
SKBR3 cells, VIRMA-overexpressing IP replicate 1 |
| GSM6235016 |
SKBR3 cells, VIRMA-overexpressing Input replicate 2 |
| GSM6235017 |
SKBR3 cells, VIRMA-overexpressing IP replicate 2 |
|
| Relations |
| BioProject |
PRJNA848012 |
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