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| 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
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| 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.
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| 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 .
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| 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) |
evamaria.novoa@gmail.com
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| Phone |
+34933160260
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| Organization name |
Center for Genomic Regulation
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| Lab |
Epitranscriptomics and RNA Dynamics
|
| Street address |
Dr. Aiguader 88
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| City |
Barcelona |
| ZIP/Postal code |
08003 |
| Country |
Spain |
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| Platforms (1) |
| GPL26163 |
GridION (Saccharomyces cerevisiae SK1) |
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| Samples (6)
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| 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 |
| GSM3593783 |
Ime4 KO Yeast PolyA RNA Direct RNA Sequencing rep1 |
| GSM3593784 |
Ime4 KO Yeast PolyA RNA Direct RNA Sequencing rep2 |
| GSM3593785 |
Ime4 KO Yeast PolyA RNA Direct RNA Sequencing rep3 |
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| Relations |
| BioProject |
PRJNA521324 |
| SRA |
SRP184486 |
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