miR plus Pathway: the integration and visualization of miRNA and KEGG pathways
miR plus Pathway: the integration and visualization of miRNA and KEGG pathways
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DOI：
10.1093/bib/bby128
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发表时间：
2020-03-01
影响因子：
9.5
通讯作者：
Li, Fei
中科院分区：
文献类型：
--
作者：
Pian, Cong;Zhang, Guangle;Li, Fei
mirna是一种非编码小分子RNA。许多研究表明，mirna广泛参与多种途径的调控。充分了解miRNAs调控功能的关键是确定miRNAs参与的途径。然而，主要的通路数据库如KEGG只包含有关蛋白质编码基因的信息。在这里，我们通过整合和可视化8882个人类实验验证的miRNA-target相互作用（MTIs）和150个KEGG途径，重新设计了一个通路数据库（称为miR+ pathway）。该数据库可在http://www.insect-genome.com/miR-pathway免费访问。研究人员可以直观地确定mirna调控的途径和途径中的基因，以及靶向这些途径的mirna。为了确定特定miRNA或多个miRNA的靶点富集的途径，我们使用超几何测试对miRNA进行了KEGG分析。此外，miR+Pathway还提供了mti、PubMed id和实验验证方法的相关信息。用户可以通过输入miRNA或基因的名称来检索由其调节的途径。
miRNAs represent a type of noncoding small molecule RNA. Many studies have shown that miRNAs are widely involved in the regulation of various pathways. The key to fully understanding the regulatory function of miRNAs is the determination of the pathways in which the miRNAs participate. However, the major pathway databases such as KEGG only include information regarding protein-coding genes. Here, we redesigned a pathway database (called miR+Pathway) by integrating and visualizing the 8882 human experimentally validated miRNA-target interactions (MTIs) and 150 KEGG pathways. This database is freely accessible at http://www.insect-genome.com/miR-pathway. Researchers can intuitively determine the pathways and the genes in the pathways that are regulated by miRNAs as well as the miRNAs that target the pathways. To determine the pathways in which targets of a certain miRNA or multiple miRNAs are enriched, we performed a KEGG analysis miRNAs by using the hypergeometric test. In addition, miR+Pathway provides information regarding MTIs, PubMed IDs and the experimental verification method. Users can retrieve pathways regulated by an miRNA or a gene by inputting its names.