Chapter title |
Pseudouridine Identification and Functional Annotation with PIANO.
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Chapter number | 11 |
Book title |
Computational Epigenomics and Epitranscriptomics
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Published in |
Methods in molecular biology, January 2023
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DOI | 10.1007/978-1-0716-2962-8_11 |
Pubmed ID | |
Book ISBNs |
978-1-07-162961-1, 978-1-07-162962-8
|
Authors |
Yao, Jiahui, Hao, Cuiyueyue, Chen, Kunqi, Meng, Jia, Song, Bowen |
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 . |
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Members of the public | 1 | 100% |