@inbook{eb54f8d586d3451a9d8a409c7f8db0c0,
title = "Pseudouridine Identification and Functional Annotation with PIANO",
abstract = "Pseudouridine (Ψ) is the first-discovered RNA modification abundantly present in many classes of RNAs, which plays a pivotal role in a series of biological processes. Accurately identifying the location of Ψ sites is helpful for relevant downstream researches. In this chapter, we introduce a website PIANO—for pseudouridine site (Ψ) identification and functional annotation, which enables researchers to predict human putative Ψ sites with a high-accuracy (average AUC of 0.955 under the full transcript model and 0.838 under the mature mRNA model when testing on six independent datasets). The posttranscriptional regulatory mechanisms of putative Ψ sites including miRNA-targets, RBP-binding regions, and splicing sites were also annotated. A comprehensive query database was also provided to deposit over 4300 human Ψ modifications, which is currently the most complete collection of experimental-derived Ψ sites. The PIANO website is freely accessible at: http://piano.rnamd.com or http://180.208.58.19/Ψ-WHISTLE.",
keywords = "Functional annotation, Genome-derived feature, Pseudouridine sites, RNA modification, Web-server",
author = "Jiahui Yao and Cuiyueyue Hao and Kunqi Chen and Jia Meng and Bowen Song",
note = "Publisher Copyright: {\textcopyright} 2023, The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.",
year = "2023",
doi = "10.1007/978-1-0716-2962-8_11",
language = "English",
series = "Methods in Molecular Biology",
publisher = "Humana Press Inc.",
pages = "153--162",
booktitle = "Methods in Molecular Biology",
}