Detection of a-to-i hyper-edited rna sequences

Roni Cohen-Fultheim; Erez Y. Levanon

doi:10.1007/978-1-0716-0787-9_13

Detection of a-to-i hyper-edited rna sequences

Roni Cohen-Fultheim, Erez Y. Levanon

The Mina and Everard Goodman Faculty of Life Sciences - at Bar-Ilan University

Research output: Chapter in Book/Report/Conference proceeding › Chapter › peer-review

3 Scopus citations

Abstract

Following A-to-I editing of double-stranded RNA (dsRNA) molecules, sequencing reactions interpret the edited inosine (I) as guanosine (G). For this reason, current methods to detect A-to-I editing sites work to align RNA sequences to their reference DNA sequence in order to reveal A-to-G mismatches. However, areas with heavily edited reads produce dense clusters of A-to-G mismatches that hinder alignment, and complicate correct identification of the sites. The presented approach employs prudent alignment and examination of excessive mismatch events, enabling high-accuracy detection of hyper-edited reads and sites.

Original language	English
Title of host publication	Methods in Molecular Biology
Publisher	Humana Press Inc.
Pages	213-227
Number of pages	15
DOIs	https://doi.org/10.1007/978-1-0716-0787-9_13
State	Published - 2021

Publication series

Name	Methods in Molecular Biology
Volume	2181
ISSN (Print)	1064-3745
ISSN (Electronic)	1940-6029

Bibliographical note

Publisher Copyright:
© Springer Science+Business Media, LLC, part of Springer Nature 2021.

Funding

The authors thank H.T. Porath and the Levanon laboratory members for fruitful discussions. EYL was supported by the International Collaboration Grant from the Jacki and Bruce Barron Cancer Research Scholars’ Program, a partnership of the Israel Cancer Research Fund and City of Hope, as supported by The Harvey L. Miller Family Foundation [grant number 205467].

Funders	Funder number
Israel Cancer Research Fund	205467

Keywords

ADAR
Hyper-editing
RNA editing

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10.1007/978-1-0716-0787-9_13

Cite this

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Detection of a-to-i hyper-edited rna sequences

Abstract

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Keywords

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