The DOI matches its Crossref record; 47 of the 47 references it cites were found in a registry or an index.
Accurate detection of m6A RNA modifications in native RNA sequences
Open accessPublished version of a preprint
Abstract
The epitranscriptomics field 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 direct RNA sequencing, N 6 -methyladenosine (m 6 A) RNA modifications can be detected with high accuracy, in the form of systematic errors and decreased base-calling qualities. Specifically, we find that our algorithm, trained with m 6 A-modified and unmodified synthetic sequences, can predict m 6 A RNA modifications with ~90% accuracy. We then extend our findings to yeast data sets, finding that our method can identify m 6 A RNA modifications in vivo with an accuracy of 87%. Moreover, we further validate our method by showing that these ‘errors’ are typically not observed in yeast ime4 -knockout strains, which lack m 6 A modifications. Our results open avenues to investigate the biological roles of RNA modifications in their native RNA context.
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Research works printed but not linked: 2
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Cited by
Opportunities and challenges in long-read sequencing data analysis
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Translational control through ribosome heterogeneity and functional specialization
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Metadata
- Authors
- Liu, H., Begik, O., Lucas, M. C., Ramirez, J. M., Mason, C. E., Wiener, D., Schwartz, S., Mattick, J. S., Smith, M. A., & Novoa, E. M.
- Venue
- Nature Communications
- Published
- 2019-09-09
- Volume
- 10
- Issue
- 1
- Pages
- 4079-4079
- ISSN
- 2041-1723 (ISSN-L)
- OpenAlex
- W2971454256
- Cited by
- 518
- References
- 47
- FWCI
- 17.55
- Type
- journal article
- Language
- en
- Open access
- gold
- Licence
- creativecommons.org/licenses/by/4.0 (tdm)
- creativecommons.org/licenses/by/4.0 (vor)
- Funders
- Department of Education and Training | Australian Research Council (DP180103571, DE170100506)
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- Liu, H., Begik, O., Lucas, M. C., Ramirez, J. M., Mason, C. E., Wiener, D., Schwartz, S., Mattick, J. S., Smith, M. A., & Novoa, E. M. (2019). Accurate detection of m6A RNA modifications in native RNA sequences. Nature Communications. https://doi.org/10.1038/s41467-019-11713-9
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