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Nat Biotechnol. 2012 Feb 12;30(3):253-60. doi: 10.1038/nbt.2122.

Comprehensive analysis of RNA-Seq data reveals extensive RNA editing in a human transcriptome.

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  • 1BGI-Shenzhen, Shenzhen, China.

Abstract

RNA editing is a post-transcriptional event that recodes hereditary information. Here we describe a comprehensive profile of the RNA editome of a male Han Chinese individual based on analysis of ∼767 million sequencing reads from poly(A)(+), poly(A)(-) and small RNA samples. We developed a computational pipeline that carefully controls for false positives while calling RNA editing events from genome and whole-transcriptome data of the same individual. We identified 22,688 RNA editing events in noncoding genes and introns, untranslated regions and coding sequences of protein-coding genes. Most changes (∼93%) converted A to I(G), consistent with known editing mechanisms based on adenosine deaminase acting on RNA (ADAR). We also found evidence of other types of nucleotide changes; however, these were validated at lower rates. We found 44 editing sites in microRNAs (miRNAs), suggesting a potential link between RNA editing and miRNA-mediated regulation. Our approach facilitates large-scale studies to profile and compare editomes across a wide range of samples.

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  • A closer look at RNA editing. [Nat Biotechnol. 2012]
PMID:
22327324
[PubMed - indexed for MEDLINE]
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