苏晓泉 徐健：在整个菌群水平上对全球菌群进行物种分类和功能搜索的平台 | 热心肠日报
菌群搜索引擎2:一个能在整个菌群水平上对全球菌群进行物种分类和功能搜索的平台
10.1128/mSystems.00943-20
01-19, Article
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Metagenomic data sets from diverse environments have been growing rapidly. To ensure accessibility and reusability, tools that quickly and informatively correlate new microbiomes with existing ones are in demand. Here, we introduce Microbiome Search Engine 2 (MSE 2), a microbiome database platform for searching query microbiomes in the global metagenome data space based on the taxonomic or functional similarity of a whole microbiome to those in the database. MSE 2 consists of (i) a well-organized and regularly updated microbiome database that currently contains over 250,000 metagenomic shotgun and 16S rRNA gene amplicon samples associated with unified metadata collected from 798 studies, (ii) an enhanced search engine that enables real-time and fast (<0.5 s per query) searches against the entire database for best-matched microbiomes using overall taxonomic or functional profiles, and (iii) a Web-based graphical user interface for user-friendly searching, data browsing, and tutoring. MSE 2 is freely accessible via http://mse.ac.cn. For standalone searches of customized microbiome databases, the kernel of the MSE 2 search engine is provided at GitHub
First Authors:
Gongchao Jing
Correspondence Authors:
Jian Xu,Xiaoquan Su
All Authors:
Gongchao Jing,Lu Liu,Zengbin Wang,Yufeng Zhang,Li Qian,Chunxiao Gao,Meng Zhang,Min Li,Zhenkun Zhang,Xiaohan Liu,Jian Xu,Xiaoquan Su