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- Title
Comprehensive analysis of RNA-Seq data reveals extensive RNA editing in a human transcriptome.
- Authors
Peng, Zhiyu; Cheng, Yanbing; Tan, Bertrand Chin-Ming; Kang, Lin; Tian, Zhijian; Zhu, Yuankun; Zhang, Wenwei; Liang, Yu; Hu, Xueda; Tan, Xuemei; Guo, Jing; Dong, Zirui; Liang, Yan; Bao, Li; Wang, Jun
- 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.
- Publication
Nature biotechnology, 2012, Vol 30, Issue 3, p253
- ISSN
1546-1696
- Publication type
Journal Article
- DOI
10.1038/nbt.2122