Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: RNA was isolated from ATDC-5 cells transfected with OE-AKAP2 and OE-NC, and high-throughput sequencing of m6A methylated RNA regions.

PROVIDER: PRJNA1191540 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR31572447_1.fastq.gz	Fastqsanger.gz
	SRR31572447_2.fastq.gz	Fastqsanger.gz
	SRR31572448_1.fastq.gz	Fastqsanger.gz
	SRR31572448_2.fastq.gz	Fastqsanger.gz
	SRR31572449_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 24

Similar Datasets

Project description:RNA was isolated from ATDC-5 cells transfected with OE-AKAP2 and OE-NC, and sequenced.

| PRJNA1191167 | ENA

METTL3-m6A methylation inhibits Type II Alveolar Epithelial Cells proliferation and viability by promoting Pten mRNA stability and translation efficiency in the acute lung injury

Project description:In this dataset, we include the m6A methylated RNA data obtained from normal AECII (NC group) and AECII transfected with shMettl3 (T group).

2025-02-01 | GSE256239 | GEO

The molecular mechanism and clinical significance of IGF2BP3 in adenocarcinoma of the esophagogastric junction [meRIP-seq]

Project description:To reveal the potential m6A modification gene in Adenocarcinoma of the esophagogastric junction, we performed methylated RNA immunoprecipitation and sequencing (meRIP-seq) in OE-19 cells.

2024-10-09 | GSE261201 | GEO

Adenosine methylation is widespread throughout the transcriptome and prominent within 3' UTRs

Project description:Here, we use a novel technique for locating regions of N6-adenosine methylation (m6A) throughout the transcriptome and present a profile of m6A sites in the mouse brain. Our use of methylated RNA immunoprecipitation combined with RNA-seq (MeRIP-Seq) identifies thousands of RNAs which contain m6A sites. In addition, we find that regions of m6A formation are particularly enriched near stop codons, which might provide clues into the potential funciton of this highly prevalent RNA modificaiton. Examination of m6A sites in murine brain RNA.

2012-05-16 | E-GEOD-29714 | biostudies-arrayexpress

Comprehensive Analysis of mRNA Methylation Reveals Enrichment in 3' UTRs and Near Stop Codons (OLD)

2012-12-31 | E-GEOD-34734 | biostudies-arrayexpress

m6A level and isoform characterization sequencing (m6A-LAIC-seq) reveal the census and complexity of the m6A epitranscriptome

Project description:N6-methyladenosine (m6A) is a widespread reversible chemical modification of RNAs, implicated in many aspects of RNA metabolism. Little quantitative information exists as to either how many transcript copies of particular genes are m6A modified (âm6A levelsâ), or the relationship of m6A modification(s) to alternative RNA isoforms. To deconvolute the m6A epitranscriptome, we developed m6A level and isoform-characterization sequencing (m6A-LAIC-seq). We found that cells exhibit a broad range of non-stoichiometric m6A levels with cell type specificity. At the level of isoform characterization, we discovered widespread differences in use of tandem alternative polyadenylation (APA) sites by methylated and nonmethylated transcript isoforms of individual genes. Strikingly, there is a strong bias for methylated transcripts to be coupled with proximal APA sites, resulting in shortened 3â untranslated regions (3â-UTRs), while nonmethylated transcript isoforms tend to use distal APA sites. m6A-LAIC-seq yields a new perspective on transcriptome complexity and links APA usage to m6A modifications. m6A-LAIC-seq of H1-ESC and GM12878 cell lines, each cell line has two replicates

2016-06-24 | E-GEOD-66086 | biostudies-arrayexpress

Next Generation Sequencing of transfected NC K1 cells and transfected si-NEAT1_2 K1 cells

Project description:Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of transfected NC K1 cells and transfected si-NEAT1_2 K1 cells. The goals of this study are to analysis the different mRNA expression between transfected NC K1 cells and transfected si-NEAT1_2 K1 cells. Quantitative reverse transcription polymerase chain reaction (qRT–PCR) methods and to evaluate protocols for optimal high-throughput data analysis. We performed mRNA-seq in the NEAT1_2 knockdown group and NC group in the K1 cell line. We found that after knockdown of NEAT1_2, 615 mRNAs were upregulated and 2364 mRNAs were downregulated.

2020-12-05 | GSE159905 | GEO

RNA sequencing data of OTUB1-knockdown in PDGF-BB-treated HASMCs

Project description:We report the high-throughput RNA sequencing on human aortic smooth muscle cells (HASMCs) transfected with siRNA targeting OTUB1 (si-OTUB1) or control siRNA (si-NC). Cells were treated with PDGF-BB for 48 hours.

2025-05-07 | GSE232121 | GEO

Identification of human proteins whose binding to the N6-methyladenosine-containing hairpin from 28S rRNA is modulated by methylation

Project description:We have recently found that the human methyltransferase ZCCHC4 is responsible for introducing the single m6A modification in 28S rRNA. The project is aimed at further elucidating the functional consequences of such methylation. To this end, protein mass spectrometry is utilized to identify proteins that bind preferentially to the methylated or unmethylated form of the m6A containing hairpin sequence in 28S rRNA. Specifically, this is done by incubating a HeLa cell extract with an methylated or unmethylated RNA oligonucleotide containing a biotin affinity tag, which is used to pull-down the RNA with associated proteins.

2019-11-22 | PXD013354 | Pride

Gene expression changes in HEK293 cells following PEG10 overexpression.

Project description:The goal of this study was to determine transcriptional changes in HEK293 cells upon overexpression of various forms of Paternally Expressed Gene 10, or PEG10. Cells were transfected either with control, or with PEG10 gag, gag-pol, or isolated NC fragment constructs and RNA isolated for RNA-Seq analysis.

2023-03-29 | GSE227789 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data