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Comprehensive analysis of the transcriptome-wide m6A methylome of neonatal heart regeneration via MeRIP sequencing

ABSTRACT: Comprehensive analysis of the transcriptome-wide m6A methylome of neonatal heart regeneration via MeRIP sequencing

PROVIDER: PRJNA682187 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13183048_1.fastq.gz	Fastqsanger.gz
	SRR13183048_2.fastq.gz	Fastqsanger.gz
	SRR13183049_1.fastq.gz	Fastqsanger.gz
	SRR13183049_2.fastq.gz	Fastqsanger.gz
	SRR13183050_1.fastq.gz	Fastqsanger.gz

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Comprehensive analysis of the transcriptome-wide m6A methylome of neonatal heart regeneration via MeRIP sequencing

Project description:Aim: To systematically classify the profile of the RNA m6A modification landscape of neonatal heart regeneration. Materials and Methods: Cardiomyocyte proliferation markers were detected via immunostaining. The expression of m6A modification regulators was detected using quantitative real-time PCR (qPCR) and Western blotting. Genome-wide profiling of m6A-modified transcripts was conducted with m6A-modified RNA immunoprecipitation sequencing (m6A-RIP-seq) and RNA sequencing (RNA-seq). The Gene Expression Omnibus database (GEO) dataset was used to verify the hub genes. Results: METTL3 and the level of m6A modification in total RNA were lower in P7 rat hearts than in P0 ones. In all, 1637 m6A peaks were differentially expressed using m6A-RIP-seq, with 84 upregulated and 1553 downregulated. Furthermore, conjoint analyses of m6A-RIP-seq, RNA-seq, and GEO data generated eight potential hub genes with differentially expressed hypermethylated or hypomethylated m6A levels. Conclusion: Our data show novel information on m6A modification changes in cardiac regeneration. The modifications made possible by directly modulating m6A may attract future study of cardiac regeneration.

2021-03-31 | GSE162545 | GEO

Comprehensive role of Zfp217 in m6A methylation [MeRIP-seq]

Project description:Many transcriptional and epigenetic networks must be integrated to maintain self-renewal and pluripotency in embryonic stem cells (ESCs) and to enable induced pluripotent stem cell (iPSC) reprogramming. Here, we explore the role of Zfp217 as a key transcriptional factor in maintaining ES cell self-renewal by performing meRIP analysis in control and Zfp217-depleted mouse stem cells. Examination of m6A levels from total RNA in control and Zfp217 shRNA infected mouse stem cells

2015-10-30 | E-GEOD-65734 | biostudies-arrayexpress

m6A meRIP-Seq from Ythdf2CTL pre-leukemic cells

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.

2019-04-05 | E-MTAB-6791 | biostudies-arrayexpress

m6A meRIP-Seq from Ythdf2CKO pre-leukemic cells

2019-04-05 | E-MTAB-7783 | biostudies-arrayexpress

Comprehensive Analysis of the Transcriptome-Wide m6A Methylome in Lung Adenocarcinoma by MeRIP Sequencing

Project description:To investigate the role of m6A modification,MeRIP-seq was used to identify differential m6A modifications in lung adenocarcinoma .

2022-06-27 | GSE198288 | GEO

Comprehensive analysis of the transcriptome-wide m6A methylome in pterygium by MeRIP sequencing

Project description:Aim: Pterygium is a common ocular surface disease, which is affected by a variety of factors. Invasion of the cornea can cause severe vision loss. N6-methyladenosine (m6A) is a common post-transcriptional modification of eukaryotic mRNA, which can regulate mRNA splicing, stability, nuclear transport, and translation. To our best knowledge, there is no current research on the mechanism of m6A in pterygium. Methods: We recruited 24 pterygium patients from Shanghai Yangpu Hospital, and the level of m6A modification was detected using an m6A RNA Methylation Quantification Kit. Expression and location of METTL3, a key m6A methyltransferase, were identified by immunostaining. Then we used m6A-modified RNA immunoprecipitation sequencing (MeRIP-seq), RNA sequencing (RNA-seq) and bioinformatics analyses to compare the differential expression of m6A methylation in pterygium and normal conjunctival tissue. Results: We identified 2949 dysregulated m6A peaks in pterygium tissue, of which 2145 were significantly upregulated and 804 were significantly downregulated. The altered m6A peak of genes were found to play a key role in the Hippo signaling pathway and endocytosis. Joint analyses of MeRIP-seq and RNA-seq data identified 72 hypermethylated m6A peaks and 15 hypomethylated m6A peaks in mRNA. After analyzing the differentially methylated m6A peaks and synchronously differentially expressed genes, we searched the Gene Expression Omnibus database and identified five genes related to the development of pterygium (DSP, MXRA5, ARHGAP35, TMEM43, and OLFML2A). Conclusion: Our research shows that m6A modification plays an important role in the development of pterygium and can be used as a potential new target for the treatment of pterygium in the future.

2021-07-14 | GSE167933 | GEO

neonatal and adult mouse retina m6A epitranscriptome [meRIP-seq]

Project description:neonatal and adult mouse retina m6A epitranscriptome [meRIP-seq]

| PRJNA779630 | ENA

Analysis of m6A methylome in CHAPIR overexpressed heart [MeRIP]

Project description:Analysis of m6A methylome in CHAPIR overexpressed heart [MeRIP]

| PRJNA647217 | ENA

neonatal and adult mouse retina m6A epitranscriptome [meRIP-seq]

Project description:m6A epitranscriptome of newborn and adult mouse retina was sequenced using MeRIP-seq

2022-12-02 | GSE188607 | GEO

m6A MeRIP-seq of skeletal muscle during innervation and denervation

Project description:To assess the m6A methylome during denervation-induced muscle atrophy, the methylated RNA immunoprecipitation sequencing (MeRIP-seq) was performed.

2021-09-26 | GSE179178 | GEO

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