A novel genome signature based on inter-nucleotide distances profiles for visualization of metagenomic data
A novel genome signature based on inter-nucleotide distances profiles for visualization of metagenomic data
复制标题
基于核苷酸间距离概况的新型基因组特征，用于宏基因组数据的可视化
DOI：
10.1016/j.physa.2017.04.064
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发表时间：
2017-09-15
影响因子：
3.3
通讯作者：
Anh，Vo
中科院分区：
文献类型：
--
作者：
Xie，Xian-Hua;Yu，Zu-Guo;Anh，Vo
对宏基因组数据的可视化越来越感兴趣。本研究的重点是使用核苷酸间距离的宏基因组数据的可视化。我们首先将片段序列转换成核苷酸间距离谱。然后，我们分析这些配置文件的主成分分析。最后，利用主成分分析方法，根据物种来源，得到二维散点图。我们将这种方法命名为核苷酸间距离谱（INP）方法。我们的方法进行了评估，在以前发表的论文中使用的三个基准数据集。我们的研究结果表明，INP方法是良好的，替代和有效的宏基因组数据的可视化。
There has been a growing interest in visualization of metagenomic data. The present study focuses on the visualization of metagenomic data using inter-nucleotide distances profile. We first convert the fragment sequences into inter-nucleotide distances profiles. Then we analyze these profiles by principal component analysis. Finally the principal components are used to obtain the 2-D scattered plot according to their source of species. We name our method asinter-nucleotide distances profiles (INP)method. Our method is evaluated on three benchmark data sets used in previous published papers. Our results demonstrate that the INP method is good, alternative and efficient for visualization of metagenomic data.