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| Status |
Public on Jan 31, 2023 |
| Title |
The effects of WTAP on m6A mRNA modification pancreatic islets |
| Organism |
Mus musculus |
| Experiment type |
Other
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| Summary |
Through m6A mRNA-profiling, we aim to characterize the m6A mRNA changes in pancreatic islets between Wtapflox/flox and Wtap-βKO mice.
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| Overall design |
To map the mRNA m6A modification caused by WTAP in pancreatic islets, MeRIP-seq was performed in pancreatic islets obtained from Wtapflox/flox and Wtap-βKO mice.
Total RNA was extracted using Tripure Isolation Reagent (Roche, Mannheim, Germany) from pancreatic islets of Wtapflox/flox and Wtap-βKO mice at 7 weeks old. A total of 2 μg RNAs were pooled from ten Wtapflox/flox mice and nineteen Wtap-βKO mice, respectively. Fragmented RNA (~100 nt) was incubated for 2 hr at 4℃ with anti-m6A polyclonal antibody (Merk Millipore) in the immunoprecipitation experiment. Then, immunoprecipitated RNAs or Input was used for library construction with Ovation SoLo RNA-Seq System Core Kit (NuGEN). The library preparations were sequenced on an Illumina Novaseq platform with a paired-end read length of 150 bp according to the standard protocols. After mapping reads to the reference genome, exomePeak R package (version 2.16.0) was used for the m6A peak identification in each anti-m6A immunoprecipitation group with the corresponding input samples serving as a control, and q-value threshold of enrichment of 0.05 was used for all data sets. The m6A-enriched motifs of each group were identified by HOMER (version 4.9.1).
The islet mRNA m6A profiles in Wtapflox/flox and Wtap-βKO mice were characterized.
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| Contributor(s) |
Chen Z, Li X, Yang Y |
| Citation(s) |
36920524 |
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| Submission date |
Oct 12, 2022 |
| Last update date |
May 02, 2023 |
| Contact name |
Zheng Chen |
| E-mail(s) |
chenzheng@hit.edu.cn
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| Phone |
+8645186402029
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| Organization name |
Harbin Institute of Technology
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| Street address |
92 Xidazhijie Harbin Institute of Technology
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| City |
Harbin |
| State/province |
Heilongjiang |
| ZIP/Postal code |
150001 |
| Country |
China |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA889846 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE215360_WBKO_peaks.xls.gz |
481.4 Kb |
(ftp)(http) |
XLS |
| GSE215360_WFF_peaks.xls.gz |
549.8 Kb |
(ftp)(http) |
XLS |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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