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m7GRegpred：基于测序特征的N7-甲基鸟苷（m7G）写入器和读取器的底物预测

m7GRegpred: substrate prediction of N7-methylguanosine (m7G) writers and readers based on sequencing features.

作者信息

Zheng Yu, Li Haipeng, Lin Shaofeng

机构信息

Key Laboratory of Ministry of Education for Gastrointestinal Cancer, School of Basic Medical Sciences, Fujian Medical University, Fuzhou, Fujian, China.

School of Medical Technology and Engineering, Fujian Medical University, Fuzhou, China.

出版信息

Front Genet. 2024 Aug 28;15:1469011. doi: 10.3389/fgene.2024.1469011. eCollection 2024.

DOI:10.3389/fgene.2024.1469011
PMID:39262420
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11387174/
Abstract

N7-Methylguanosine (m7G) is important RNA modification at internal and the cap structure of five terminal end of message RNA. It is essential for RNA stability of RNA, the efficiency of translation, and various intracellular RNA processing pathways. Given the significance of the m7G modification, numerous studies have been conducted to predict m7G sites. To further elucidate the regulatory mechanisms surrounding m7G, we introduce a novel bioinformatics framework, m7GRegpred, designed to forecast the targets of the m7G methyltransferases METTL1 and WDR4, and m7G readers QKI5, QKI6, and QKI7 for the first time. We integrated different features to build predictors, with AUROC scores of 0.856, 0.857, 0.780, 0.776, 0.818 for METTL1, WDR4, QKI5, QKI6, and QKI7, respectively. In addition, the effect of window lengths and algorism were systemically evaluated in this work. The finial model was summarized in a user-friendly webserver: http://modinfor.com/m7GRegpred/. Our research indicates that the substrates of m7G regulators can be identified and may potentially advance the study of m7G regulators under unique conditions.

摘要

N7-甲基鸟苷（m7G）是信使核糖核酸内部以及5'末端帽结构上重要的RNA修饰。它对于RNA的稳定性、翻译效率以及各种细胞内RNA加工途径至关重要。鉴于m7G修饰的重要性，已经开展了大量研究来预测m7G位点。为了进一步阐明围绕m7G的调控机制，我们首次引入了一种新颖的生物信息学框架m7GRegpred，旨在预测m7G甲基转移酶METTL1和WDR4以及m7G阅读蛋白QKI5、QKI6和QKI7的作用靶点。我们整合了不同特征来构建预测模型，METTL1、WDR4、QKI5、QKI6和QKI7的受试者工作特征曲线下面积（AUROC）得分分别为0.856、0.857、0.780、0.776和0.818。此外，本研究还系统评估了窗口长度和算法的影响。最终模型总结在一个用户友好的网络服务器中：http://modinfor.com/m7GRegpred/。我们的研究表明，可以识别m7G调控因子的底物，并且可能会推动在独特条件下对m7G调控因子的研究。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/80d0/11387174/c53bceaa900f/fgene-15-1469011-g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/80d0/11387174/9b1d7d5ddd39/fgene-15-1469011-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/80d0/11387174/fe86ebce17d5/fgene-15-1469011-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/80d0/11387174/8e3f2f689568/fgene-15-1469011-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/80d0/11387174/6f847e323922/fgene-15-1469011-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/80d0/11387174/c8548bcab6e3/fgene-15-1469011-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/80d0/11387174/2c8c37370937/fgene-15-1469011-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/80d0/11387174/ae2ff6cd228f/fgene-15-1469011-g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/80d0/11387174/c53bceaa900f/fgene-15-1469011-g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/80d0/11387174/9b1d7d5ddd39/fgene-15-1469011-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/80d0/11387174/fe86ebce17d5/fgene-15-1469011-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/80d0/11387174/8e3f2f689568/fgene-15-1469011-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/80d0/11387174/6f847e323922/fgene-15-1469011-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/80d0/11387174/c8548bcab6e3/fgene-15-1469011-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/80d0/11387174/2c8c37370937/fgene-15-1469011-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/80d0/11387174/ae2ff6cd228f/fgene-15-1469011-g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/80d0/11387174/c53bceaa900f/fgene-15-1469011-g008.jpg

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本文引用的文献

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Nucleic Acids Res. 2024 Jan 5;52(D1):D203-D212. doi: 10.1093/nar/gkad789.
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QKI shuttles internal mG-modified transcripts into stress granules and modulates mRNA metabolism.QKI 将内源性 mG 修饰的转录本穿梭到应激颗粒中，并调节 mRNA 代谢。
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Structural basis of regulated mG tRNA modification by METTL1-WDR4.
METTL1-WDR4 调控 mG tRNA 修饰的结构基础
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