Department of Mathematics and Statistics, Brookings, SD 57007, USA.
Severance Biomedical Science Institute, Yonsei University College of Medicine, Seoul 03722, South Korea.
Bioinformatics. 2020 Apr 15;36(8):2628-2629. doi: 10.1093/bioinformatics/btz931.
Gene lists are routinely produced from various omic studies. Enrichment analysis can link these gene lists with underlying molecular pathways and functional categories such as gene ontology (GO) and other databases.
To complement existing tools, we developed ShinyGO based on a large annotation database derived from Ensembl and STRING-db for 59 plant, 256 animal, 115 archeal and 1678 bacterial species. ShinyGO's novel features include graphical visualization of enrichment results and gene characteristics, and application program interface access to KEGG and STRING for the retrieval of pathway diagrams and protein-protein interaction networks. ShinyGO is an intuitive, graphical web application that can help researchers gain actionable insights from gene-sets.
Supplementary data are available at Bioinformatics online.
基因列表通常是从各种组学研究中产生的。富集分析可以将这些基因列表与潜在的分子途径和功能类别(如基因本体论(GO)和其他数据库)联系起来。
为了补充现有工具,我们基于来自 Ensembl 和 STRING-db 的大型注释数据库为 59 种植物、256 种动物、115 种古菌和 1678 种细菌物种开发了 ShinyGO。ShinyGO 的新功能包括富集结果和基因特征的图形可视化,以及对 KEGG 和 STRING 的应用程序接口访问,以检索途径图和蛋白质-蛋白质相互作用网络。ShinyGO 是一个直观的图形化网络应用程序,可以帮助研究人员从基因集中获得可操作的见解。
补充数据可在 Bioinformatics 在线获得。