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首页> 外文期刊>Comparative and functional genomics >Lncident: A Tool for Rapid Identification of Long Noncoding RNAs Utilizing Sequence Intrinsic Composition and Open Reading Frame Information
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Lncident: A Tool for Rapid Identification of Long Noncoding RNAs Utilizing Sequence Intrinsic Composition and Open Reading Frame Information

机译:Lncident:利用序列固有组成和开放阅读框信息快速识别长非编码RNA的工具

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More and more studies have demonstrated that long noncoding RNAs (lncRNAs) play critical roles in diversity of biological process and are also associated with various types of disease. How to rapidly identify lncRNAs and messenger RNA is the fundamental step to uncover the function of lncRNAs identification. Here, we present a novel method for rapid identification of lncRNAs utilizing sequence intrinsic composition features and open reading frame information based on support vector machine model, named as Lncident (LncRNAs identification). The 10-fold cross-validation and ROC curve are used to evaluate the performance of Lncident. The main advantage of Lncident is high speed without the loss of accuracy. Compared with the exiting popular tools, Lncident outperforms Coding-Potential Calculator, Coding-Potential Assessment Tool, Coding-Noncoding Index, and PLEK. Lncident is also much faster than Coding-Potential Calculator and Coding-Noncoding Index. Lncident presents an outstanding performance on microorganism, which offers a great application prospect to the analysis of microorganism. In addition, Lncident can be trained by users’ own collected data. Furthermore, R package and web server are simultaneously developed in order to maximize the convenience for the users. The R package “Lncident” can be easily installed on multiple operating system platforms, as long as R is supported.
机译:越来越多的研究表明,长的非编码RNA(lncRNA)在生物过程的多样性中起着至关重要的作用,并且还与各种疾病相关。如何快速鉴定lncRNA和信使RNA是揭示lncRNA鉴定功能的基本步骤。在这里,我们提出了一种新的方法,用于利用序列内在组成特征和基于支持向量机模型的开放阅读框信息快速鉴定lncRNA,该模型称为Lncident(LncRNAs鉴定)。 10倍交叉验证和ROC曲线用于评估Lncident的性能。 Lncident的主要优点是高速而不会损失精度。与现有的流行工具相比,Lncident的表现优于编码潜力计算器,编码潜力评估工具,编码非编码索引和PLEK。 Lncident还比“编码潜能计算器”和“编码非编码索引”快得多。 Lncident在微生物方面表现突出,为微生物分析提供了广阔的应用前景。此外,可以通过用户自己收集的数据来训练Lncident。此外,R包和Web服务器是同时开发的,以便为用户带来最大的便利。只要支持R,就可以轻松地将R软件包“ Lncident”安装在多个操作系统平台上。

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