Identifying RNA editing sites in miRNAs by deep sequencing

Shahar Alon, Eli Eisenberg

Research output: Chapter in Book/Report/Conference proceedingChapterpeer-review

23 Scopus citations

Abstract

Deep sequencing has many possible applications; one of them is the identification and quantification of RNA editing sites. The most common type of RNA editing is adenosine to inosine (A-to-I) editing. A prerequisite for this editing process is a double-stranded RNA (dsRNA) structure. Such dsRNAs are formed as part of the microRNA (miRNA) maturation process, and it is therefore expected that miRNAs are affected by A-to-I editing. Indeed, tens of editing sites were found in miRNAs, some of which change the miRNA binding specificity. Here, we describe a protocol for the identification of RNA editing sites in mature miRNAs using deep sequencing data.

Original languageEnglish
Title of host publicationDeep Sequencing Data Analysis
Pages159-170
Number of pages12
DOIs
StatePublished - 2013
Externally publishedYes

Publication series

NameMethods in Molecular Biology
Volume1038
ISSN (Print)1064-3745

Keywords

  • A-to-I editing
  • Bioinformatics
  • Deep sequencing
  • Genomics
  • miRNA

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