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Series GSE155614 Query DataSets for GSE155614
Status Public on Nov 13, 2020
Title MeRIP-Seq of pancreatic islets in Mettl3flox/flox and islet β cell-specific Mettl3 knockout (β-Mettl3-KO) mice
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Purpose: Through mRNA m6A-profiling, we aim to characterize the mRNA m6A changes in pancreatic islets obtained from Mettl3flox/flox and β-Mettl3-KO mice.
Methods: Total RNA was extracted using Tripure Isolation Reagent (Roche, Mannheim, Germany) from pancreatic islets of Mettl3flox/flox and β-Mettl3-KO mice at 8 weeks old. A total of 2-3 μg RNAs were pooled from nine Mettl3flox/flox mice and twelve β-Mettl3-KO mice, respectively. Three independent biological replicates of each group were used for MeRIP-seq. Fragmented RNA (~100 nt) was incubated for 2 hr at 4oC 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).
Conclusion: The islet mRNA m6A profiles in Mettl3flox/flox and β-Mettl3-KO mice were characterized.
 
Overall design To map the mRNA m6A modification caused by METTL3 in pancreatic islets, MeRIP-seq was performed in pancreatic islets obtained from Mettl3flox/flox and β-Mettl3-KO mice.
 
Contributor(s) Chen Z, Li X
Citation(s) 33417895
Submission date Aug 03, 2020
Last update date Feb 13, 2021
Contact name Zheng Chen
E-mail(s) chenzheng@hit.edu.cn
Phone +8645186402029
Organization name Harbin Institute of Technology
Street address 92 Xidazhijie Harbin Institute of Technology
City Harbin
State/province Heilongjiang
ZIP/Postal code 150001
Country China
 
Platforms (1)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (12)
GSM4708557 FF1_IP
GSM4708558 FF2_IP
GSM4708559 FF3_IP
Relations
BioProject PRJNA650499
SRA SRP275644

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE155614_con_sig_diff_peak.allAnno.xls.gz 246.3 Kb (ftp)(http) XLS
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Raw data are available in SRA
Processed data are available on Series record

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