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| Status |
Public on Sep 13, 2016 |
| Title |
High-throughput single-base resolution mapping of 2’-O-Methylated residues |
| Organisms |
Homo sapiens; Mus musculus |
| Experiment type |
Other
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| Summary |
Functional characterization of the transcriptome requires tools for the systematic investigation of RNA post-transcriptional modifications. 2’-O-Methylation of the ribose moiety is one of the most abundant post-transcriptional modifications of the RNA. We describe here a high-throughput method that enables fast and accurate mapping at single-base resolution, and quantitation, of 2’-OMe modified residues. Our approach expands the actual repertoire of methods for transcriptome-wide mapping of RNA post-transcriptional modifications.
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| Overall design |
Mapping 2’-O-Methylated residues in Hela cells and E14 mouse embryonic stem cells.
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| Contributor(s) |
Incarnato D, Anselmi F, Morandi E, Neri F, Maldotti M, Rapelli S, Parlato C, Basile G, Oliviero S |
| Citation(s) |
28180324 |
| Submission date |
Sep 15, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Danny Incarnato |
| E-mail(s) |
d.incarnato@rug.nl
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| Organization name |
University of Groningen
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| Department |
Molecular Genetics
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| Street address |
Nijenborgh 7
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| City |
Groningen |
| State/province |
Netherlands |
| ZIP/Postal code |
9747 AG |
| Country |
Netherlands |
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| Platforms (3) |
| GPL15456 |
Illumina HiScanSQ (Homo sapiens) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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| Samples (15)
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| GSM1881613 |
2OMe-seq 1mM dNTPs (HeLa #1, Method #1) |
| GSM1881614 |
2OMe-seq 0.004mM dNTPs (HeLa #1, Method #1) |
| GSM1881615 |
2OMe-seq 1mM dNTPs (HeLa, Method #2) |
| GSM1881616 |
2OMe-seq 0.004mM dNTPs (HeLa, Method #2) |
| GSM1881617 |
Alkaline hydrolysis (HeLa) |
| GSM1881618 |
RNase H (HeLa) |
| GSM1881619 |
2OMe-seq 1mM dNTPs (ESCs, Ctrl) |
| GSM1881620 |
2OMe-seq 0.004mM dNTPs (ESCs, Ctrl) |
| GSM1881621 |
2OMe-seq 1mM dNTPs (ESCs, Fibrillarin sh #1) |
| GSM1881622 |
2OMe-seq 0.004mM dNTPs (ESCs, Fibrillarin sh #1) |
| GSM1881623 |
2OMe-seq 1mM dNTPs (ESCs, Fibrillarin sh #2) |
| GSM1881624 |
2OMe-seq 0.004mM dNTPs (ESCs, Fibrillarin sh #2) |
| GSM1881625 |
NAI (ESCs, Ctrl) |
| GSM1881626 |
NAI (ESCs, Fibrillarin sh #1) |
| GSM1881627 |
NAI (ESCs, Fibrillarin sh #2) |
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| Relations |
| BioProject |
PRJNA295991 |
| SRA |
SRP063871 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE73065_RAW.tar |
570.0 Kb |
(http)(custom) |
TAR (of BEDGRAPH) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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