iRNA-Methyl: Identifying N6-methyladenosine sites using pseudo nucleotide composition
iRNA-Methyl: Identifying N6-methyladenosine sites using pseudo nucleotide composition
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DOI：
10.1016/j.ab.2015.08.021
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发表时间：
2015-12-01
影响因子：
2.9
通讯作者：
Chou, Kuo-Chen
中科院分区：
文献类型：
--
作者：
Chen, Wei;Feng, Pengmian;Chou, Kuo-Chen
N-6-甲基腺苷(m(6)A)是RNA中含量最丰富的修饰之一，在许多生物过程中起着非常重要的作用。M(6)A位点在基因组中的不均匀分布意味着，为了更好地了解m(6)A的调节机制，在全基因组范围内描述其位点是必不可少的。虽然在这方面已经开发了一系列实验技术，但它们既耗时又昂贵。随着后基因组时代产生的RNA序列的雪崩，人们非常希望开发出计算方法来及时确定它们的m(6)A位点。有鉴于此，提出了一种称为“IRNA-甲基”的预测因子，它通过构造具有“伪二核苷酸组成”的RNA序列，其中结合了RNA的三个物理化学性质。严格的交叉验证测试表明，iRNA-甲基具有很高的潜力成为基因组分析的有用工具。为了方便大多数实验科学家，http://lin.uestc.edu.cniserverfiRNA-Methyl上已经建立了一个iRNA-甲基的网络服务器，用户可以通过它轻松地获得他们想要的结果，而不需要通过数学细节。(C)2015 Elsevier Inc.保留所有权利。
Occurring at adenine (A) with the consensus motif GAC, N-6-methyladenosine (m(6)A) is one of the most abundant modifications in RNA, which plays very important roles in many biological processes. The nonuniform distribution of m(6)A sites across the genome implies that, for better understanding the regulatory mechanism of m(6)A, it is indispensable to characterize its sites in a genome-wide scope. Although a series of experimental technologies have been developed in this regard, they are both time-consuming and expensive. With the avalanche of RNA sequences generated in the postgenomic age, it is highly desired to develop computational methods to timely identify their m(6)A sites. In view of this, a predictor called "iRNA-Methyl" is proposed by formulating RNA sequences with the "pseudo dinucleotide composition" into which three RNA physiochemical properties were incorporated. Rigorous cross-validation tests have indicated that iRNA-Methyl holds very high potential to become a useful tool for genome analysis. For the convenience of most experimental scientists, a web-server for iRNA-Methyl has been established at http://lin.uestc.edu.cniserverfiRNA-Methyl by which users can easily get their desired results without needing to go through the mathematical details. (C) 2015 Elsevier Inc. All rights reserved.