TY  - INPR
A1  - Acera Mateos, Pablo
A1  - Sethi, Aditya J.
A1  - Ravindran, Agin
A1  - Srivastava, Akanksha
A1  - Kanchi, Madhu
A1  - Mahmud, Shafi
A1  - Guarnacci, Marco
A1  - Woodward, Katrina
A1  - Xu, Jiajia
A1  - Yuen, Zaka Wing Sze
A1  - Zhou, You
A1  - Sneddon, Alexandra
A1  - Hamilton, William
A1  - Gao, Jing
A1  - Starrs, Lora M.
A1  - Hayashi, Rippei
A1  - Wickramasinghe, Vihandha
A1  - Zarnack, Katharina
A1  - Preiss, Thomas
A1  - Burgio, Gaetan
A1  - Dehorter, Nathalie
A1  - Shirokikh, Nikolay
A1  - Eyras Jiménez, Eduardo Angel
T1  - Simultaneous identification of m6A and m5C reveals coordinated RNA
modification at single-molecule resolution
T2  - bioRxiv
N2  - The epitranscriptome embodies many new and largely unexplored functions of RNA. A major roadblock in the epitranscriptomics field is the lack of transcriptome-wide methods to detect more than a single RNA modification type at a time, identify RNA modifications in individual molecules, and estimate modification stoichiometry accurately. We address these issues with CHEUI (CH3 (methylation) Estimation Using Ionic current), a new method that concurrently detects N6-methyladenosine (m6A) and 5-methylcytidine (m5C) in individual RNA molecules from the same sample, as well as differential methylation between any two conditions. CHEUI processes observed and expected nanopore direct RNA sequencing signals with convolutional neural networks to achieve high single-molecule accuracy and outperforms other methods in detecting m6A and m5C sites and quantifying their stoichiometry. CHEUI’s unique capability to identify two modification types in the same sample reveals a non-random co-occurrence of m6A and m5C in mRNA transcripts in cell lines and tissues. CHEUI unlocks an unprecedented potential to study RNA modification configurations and discover new epitranscriptome functions.
Y1  - 2024
UR  - http://publikationen.ub.uni-frankfurt.de/frontdoor/index/index/docId/84490
UR  - https://nbn-resolving.org/urn:nbn:de:hebis:30:3-844905
UR  - https://www.biorxiv.org/content/10.1101/2022.03.14.484124v5
IS  - 2022.03.14.484124 Version 5
PB  - bioRxiv
ER  -