iDNA4mC：基于核苷酸化学性质鉴定 DNA N4-甲基胞嘧啶位点。
iDNA4mC: identifying DNA N4-methylcytosine sites based on nucleotide chemical properties.
机构信息
Department of Physics, School of Sciences, and Center for Genomics and Computational Biology, North China University of Science and Technology, Tangshan 063000, China.
Key Laboratory for Neuro-Information of Ministry of Education, School of Life Science and Technology, Center for Informational Biology, University of Electronic Science and Technology of China, Chengdu 610054, China.
出版信息
Bioinformatics. 2017 Nov 15;33(22):3518-3523. doi: 10.1093/bioinformatics/btx479.
MOTIVATION
DNA N4-methylcytosine (4mC) is an epigenetic modification. The knowledge about the distribution of 4mC is helpful for understanding its biological functions. Although experimental methods have been proposed to detect 4mC sites, they are expensive for performing genome-wide detections. Thus, it is necessary to develop computational methods for predicting 4mC sites.
RESULTS
In this work, we developed iDNA4mC, the first webserver to identify 4mC sites, in which DNA sequences are encoded with both nucleotide chemical properties and nucleotide frequency. The predictive results of the rigorous jackknife test and cross species test demonstrated that the performance of iDNA4mC is quite promising and holds high potential to become a useful tool for identifying 4mC sites.
AVAILABILITY AND IMPLEMENTATION
The user-friendly web-server, iDNA4mC, is freely accessible at http://lin.uestc.edu.cn/server/iDNA4mC.
CONTACT
动机
DNA N4-甲基胞嘧啶（4mC）是一种表观遗传修饰。了解 4mC 的分布有助于理解其生物学功能。尽管已经提出了一些实验方法来检测 4mC 位点，但这些方法在进行全基因组检测时成本较高。因此，有必要开发用于预测 4mC 位点的计算方法。
结果
在这项工作中，我们开发了 iDNA4mC，这是第一个用于识别 4mC 位点的网络服务器，其中 DNA 序列既可以用核苷酸化学性质编码，也可以用核苷酸频率编码。严格的交叉验证测试和跨物种测试的预测结果表明，iDNA4mC 的性能非常有前途，具有成为识别 4mC 位点的有用工具的潜力。
可用性和实现
用户友好的网络服务器 iDNA4mC 可在 http://lin.uestc.edu.cn/server/iDNA4mC 免费访问。
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