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Series GSE126213 Query DataSets for GSE126213
Status Public on Sep 09, 2019
Title Accurate detection of m6A RNA modifications in native RNA sequences [Yeast]
Organism Saccharomyces cerevisiae SK1
Experiment type Expression profiling by high throughput sequencing
Summary The field of epitranscriptomics has undergone an enormous expansion in the last few years; however, a major limitation is the lack of generic methods to map RNA modifications transcriptome-wide. Here we show that using Oxford Nanopore Technologies, N6-methyladenosine (m6A) RNA modifications can be detected with high accuracy, in the form of systematic errors and decreased base-calling qualities. Our results open new avenues to investigate the universe of RNA modifications with single nucleotide resolution, in individual RNA molecules.  
 
Overall design Total RNA from meiotic SK1 yeast cells was extracted. Enrichment of polyadenylated RNA from total RNA was performed using Oligo(dT) dynabeads. Purified PolyA RNA was sequenced with Direct RNA Nanopore Sequencing. Three biological replicates were performed for each strain .
 
Contributor(s) Novoa EM, Liu H, Begik O
Citation(s) 31501426
Submission date Feb 07, 2019
Last update date Sep 18, 2019
Contact name Eva Maria Novoa
E-mail(s) evahoop@yahoo.es
Phone +34933160260
Organization name Center for Genomic Regulation
Lab Epitranscriptomics and RNA Dynamics
Street address Dr. Aiguader 88
City Barcelona
ZIP/Postal code 08003
Country Spain
 
Platforms (1)
GPL26163 GridION (Saccharomyces cerevisiae SK1)
Samples (6)
GSM3593780 Wild Type Yeast PolyA RNA Direct RNA Sequencing rep1
GSM3593781 Wild Type Yeast PolyA RNA Direct RNA Sequencing rep2
GSM3593782 Wild Type Yeast PolyA RNA Direct RNA Sequencing rep3
Relations
BioProject PRJNA521324
SRA SRP184486

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

Supplementary file Size Download File type/resource
GSE126213_RAW.tar 160.0 Kb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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