@inbook{b7091d89e9a24b2c842cf595ad0de546,
title = "High-quality overlapping paired-end reads for the detection of A-to-I editing on small RNA",
abstract = "Paired-end RNA sequencing (RNA-seq) is usually applied to the quantification of long transcripts such as messenger or long non-coding RNAs, in which case overlapping pairs are discarded. In contrast, RNA-seq on short RNAs (≤ 200 nt) is typically carried out in single-end mode, as the additional cost associated with paired-end would only translate into redundant sequence information. Here, we exploit paired-end sequencing of short RNAs as a strategy to filter out sequencing errors and apply this method to the identification of adenosine-to-inosine (A-to-I) RNA editing events on human precursor microRNA (pre-miRNA) and mature miRNA. Combined with RNA immunoprecipitation sequencing (RIP-seq) of A-to-I RNA editing enzymes, this method takes full advantage of deep sequencing technology to identify RNA editing sites with unprecedented resolution in terms of editing efficiency.",
keywords = "Inosine, Paired-end sequencing, RNA editing, RNA-seq, Small RNA, microRNA",
author = "Josephine Galipon and Rintaro Ishii and Soh Ishiguro and Yutaka Suzuki and Shinji Kondo and Mariko Okada-Hatakeyama and Masaru Tomita and Kumiko Ui-Tei",
note = "Funding Information: This work was supported by grants from the Ministry of Education, Culture, Sports, Science and Technology (MEXT) of Japan to KU-T. Keio University Institute for Advanced Bioscience affiliates were supported by research funds from the Yamagata prefectural government and the City of Tsuruoka. Publisher Copyright: {\textcopyright} 2018, Springer Science+Business Media, LLC, part of Springer Nature.",
year = "2018",
doi = "10.1007/978-1-4939-8624-8_13",
language = "English",
series = "Methods in Molecular Biology",
publisher = "Humana Press Inc.",
pages = "167--183",
booktitle = "Methods in Molecular Biology",
}