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M6A-meRIP sequencing

ABSTRACT: m6A-meRIP sequencing

PROVIDER: PRJNA719306 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR14134570_1.fastq.gz	Fastqsanger.gz
	SRR14134570_2.fastq.gz	Fastqsanger.gz
	SRR14134571_1.fastq.gz	Fastqsanger.gz
	SRR14134571_2.fastq.gz	Fastqsanger.gz
	SRR14134572_1.fastq.gz	Fastqsanger.gz

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Project description:The mRNA m6A reader YTHDF2 is overexpressed in a broad spectrum of human acute myeloid leukemias (AML). To understand the role of YTHDF2 in AML, we generated m6A meRIP-seq libraries form Ythdf2fl/fl (Ythdf2CTL) pre-leukemic cells.

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m6A-meRIP sequencing

Project description:Background: Abdominal aortic aneurysm (AAA) is a vascular disease with indeterminate prevalence but high mortality rates when complicated with rupture. The pathogenesis of AAA has not been fully elucidated. N6-methyladenosine (m6A) modification is likely important in the development of AAA. In the present study, m6A-MeRIP sequencing and RNA sequencing were performed to identify the m6A sites. Bioinformatics analysis was used to evaluate the m6A patterns of the aorta walls of AngII-induced abdominal aortic aneurysm (AAA) model and normal mice. Results: There were 2039 differentially methylated m6A peaks involving 1865 mRNAs in the AAA group relative to the control, of which 1610 peaks in 1466 mRNAs were hypermethylated and 429 peaks in 410 mRNAs were hypomethylated. The hypermethylated mRNAs in AAA group were mostly enriched in transcription regulation and intercellular signaling, especially the Wnt signaling-associated processes. Hypomethylated m6A sites were mainly enriched in G protein-coupled receptor activity and ion channel activity. Conclusion: Our study suggested an original viewpoint that AAA might mainly be relevant to combined effect of m6A methylation modification in Wnt pathway, G protein-coupled receptor and ion channel- associated genes, which were worthy of further investigation.

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Project description:Total RNAs were isolated from WT splenic NK cells, and subjected to standard m6A MeRIP, in two replicates, using Illumina Novaseq 6000 platform. The raw sequencing reads were mapped to the genome of Mus musculus (mm10) with default parameters. ExomePeak was used to identify m6A peaks, which were annotated by intersection with gene architecture using ChIPseeker. Sequence motifs enriched in peak regions were identified using Homer.

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