iMRM:a platform for simultaneously identifying multiple kinds of RNA modifications

Bioinformatics
Kewei Liu, Wei Chen

Abstract

RNA modifications play critical roles in a series of cellular and developmental processes. Knowledge about the distributions of RNA modifications in the transcriptomes will provide clues to revealing their functions. Since experimental methods are time-consuming and laborious for detecting RNA modifications, computational methods have been proposed for this aim in the past five years. However, there are some drawbacks for both experimental and computational methods in simultaneously identifying modifications occurred on different nucleotides. To address such a challenge, in this paper, we developed a new predictor called iMRM, which is able to simultaneously identify m6A, m5C, m1A, ψ and A-to-I modifications in Homo sapiens, Mus musculus and Saccharomyces cerevisiae. In iMRM, the feature selection technique was used to pick out the optimal features. The results from both 10-fold cross validation and jackknife test demonstrated that the performance of iMRM is superior to existing methods for identifying RNA modifications. A user-friendly web server for iMRM was established at http://www.bioml.cn/XG_iRNA/home. The off-line command-line version is available at https://github.com/liukeweiaway/iMRM. Supplementary data are available ...Continue Reading

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Citations

Jul 17, 2020·Frontiers in Bioengineering and Biotechnology·Xingyue GuDonghua Wang
Jul 2, 2020·Database : the Journal of Biological Databases and Curation·Fulei NieWei Chen
Aug 15, 2020·Frontiers in Bioengineering and Biotechnology·Xianhai LiWei Chen
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Oct 1, 2021·Oncology Letters·Yang ZhouWeigan Shen
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