Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

M1A marks translation initiation sites in human and mouse messenger RNA [Sequencing]

ABSTRACT: We developed a novel approach, m1A-seq, for high-resolution mapping of the transcriptome-wide m1A landscape, based on antibody-mediated capture followed by massively parallel sequencing

ORGANISM(S): Mus musculus Schizosaccharomyces pombe Saccharomyces cerevisiae Homo sapiens

PROVIDER: GSE70485 | GEO | 2016/02/10

SECONDARY ACCESSION(S): PRJNA288805

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

m1A marks translation initiation sites in human and mouse messenger RNA [Sequencing]

2016-02-10 | E-GEOD-70485 | biostudies-arrayexpress

m1A marks translation initiation sites in human and mouse messenger RNA [microarray]

Project description:We developed a novel approach, m1A-seq, for high-resolution mapping of the transcriptome-wide m1A landscape, based on antibody-mediated capture followed by massively parallel sequencing. Using this method we performed immunodepletion of methylated transcipts to assess the average methylation level Immunodepletion of m1A modified transcripts in human compared to the input, allows for estimation of the fraction of methylated transcripts. We compared the expression levels of sup (immunodepleted) and input methylated transcripts to deduce the fraction of m1A methylation.

2016-02-12 | E-GEOD-76057 | biostudies-arrayexpress

m1A marks translation initiation sites in human and mouse messenger RNA [microarray]

2016-02-12 | GSE76057 | GEO

m1A marks translation initiation sites in human and mouse messenger RNA

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2016-02-12 | E-GEOD-76058 | biostudies-arrayexpress

m1A marks translation initiation sites in human and mouse messenger RNA [Sequencing]

Project description:m1A marks translation initiation sites in human and mouse messenger RNA [Sequencing]

| PRJNA288805 | ENA

m1A marks translation initiation sites in human and mouse messenger RNA

Project description:This SuperSeries is composed of the SubSeries listed below.

2016-02-12 | GSE76058 | GEO

Replication initiation sites in cancer cells

Project description:Reads from massively parallel sequencing of RNA primed, short nascent strands from asynchronously growing cancer cells (K562, MCF7). Newly replicated DNA was isolated based on size (400-800 bp) and the presence of a short RNA stretch at the 5' end using lambda exonuclease. Purified nascent strands were analyzed using massively parallel sequencing. Sheared genomic DNA was sequenced as a control.

2011-08-02 | E-GEOD-28911 | biostudies-arrayexpress

Replication initiation sites in cancer cells

Project description:Reads from massively parallel sequencing of RNA primed, short nascent strands from asynchronously growing cancer cells (K562, MCF7, HCT116).

2011-08-02 | GSE28911 | GEO

Reversible and Dynamic m1A Methylation in the Human Transcriptome

Project description:N1-methyladenosine (m1A) is an abundant post-transcriptional RNA modification, yet little is known about its prevalence, topology and dynamics in mRNA. Here, we show that m1A is abundant in human mRNA, with an m1A/A ratio of ~0.02%. We develop m1A-ID-Seq, based on m1A immunoprecipitation and the inherent property of m1A to stall reverse transcription, for the transcriptome-wide m1A analysis. m1A-ID-Seq identifies 901 m1A peaks (from 583 genes) in mRNA and ncRNA, and reveals a prominent feature of enrichment in the 5â-untranslated region of mRNA transcripts, distinct from that of N6-methyladenosine, the most abundant internal mammalian mRNA modification. m1A in mRNA is also reversible by ALKBH3, a known DNA/RNA demethylase. Lastly, m1A responds dynamically to stimuli and hundreds of stress-induced m1A sites are identified. Collectively, our approaches allow comprehensive analysis of m1A methylation and provide an important tool for functional studies of potential epigenetic regulation via the reversible and dynamic m1A methylation. Identification of m1A sites in human embryonic kidney cells. Comparisons of m1A profiles of wild type HEK293T with ALKBH3 knock out cell line reveals the ALKBH3 specific sites. Stress inducible m1A sites are also identified by comparing the profiles of untreated cells with stress treated cells.

2016-02-05 | E-GEOD-73941 | biostudies-arrayexpress

The METTL5-TRMT112 N6-methyladenosine methyltransferase complex regulates metabolism and development via translation (Identification of m1A mRNA methyltransferase in nucleus by TMT11-LC-MS/MS)

Project description:m1A has long been known to be important in tRNA and rRNA, but we recently mapped many m1A sites in mRNA as well. m1A is found on the 5’ ends of genes, usually around the first splice site, but we have yet to understand how it effects transcript fate. Identifying the methyltransferase would be a major first step towards understanding m1A function.

2021-11-30 | PXD028832 | Pride

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