Nature子刊:使用MicrobiomeAnalyst分析微生物组数据
  • MicrobiomeAnalyst是一个方便易用的可视化网页分析工具,常用于微生物组数据处理、统计和功能分析或与已知微生物组的比较,一次完整的分析可在70分钟内完成;
  • 该平台目前包含标记基因数据分析(MDP)、鸟枪数据分析(SDP)、公共数据投影(PPD)和分类集群富集分析(TSEA)四个模块;
  • MDP和SDP负责分析标记基因和鸟枪法宏基因组及转录组数据,PPD和TSEA负责视化用户和公共数据库的比较和检验特定菌群是否在统计学上表现过度。
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Nature protocol的这篇文章介绍了网页分析工具MicrobiomeAnalyst(https://www.microbiomeanalyst.ca/),原文中有详细的使用步骤介绍和故障排除方法,有需要或有兴趣的人士可使用自己或提供的案例数据(https://www.microbiomeanalyst.ca/MicrobiomeAnalyst/docs/Resources.xhtml)进行操作。
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Nature Protocols [IF:10.419]

Using MicrobiomeAnalyst for comprehensive statistical, functional, and meta-analysis of microbiome data

使用MicrobiomeAnalyst进行微生物组数据的全面性统计、功能性分析和元分析

10.1038/s41596-019-0264-1

01-15, Article

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MicrobiomeAnalyst is an easy-to-use, web-based platform for comprehensive analysis of common data outputs generated from current microbiome studies. It enables researchers and clinicians with little or no bioinformatics training to explore a wide variety of well-established methods for microbiome data processing, statistical analysis, functional profiling and comparison with public datasets or known microbial signatures. MicrobiomeAnalyst currently contains four modules: Marker-gene Data Profiling (MDP), Shotgun Data Profiling (SDP), Projection with Public Data (PPD), and Taxon Set Enrichment Analysis (TSEA). This protocol will first introduce the MDP module by providing a step-wise description of how to prepare, process and normalize data; perform community profiling; identify important features; and conduct correlation and classification analysis. We will then demonstrate how to perform predictive functional profiling and introduce several unique features of the SDP module for functional analysis. The last two sections will describe the key steps involved in using the PPD and TSEA modules for meta-analysis and visual exploration of the results. In summary, MicrobiomeAnalyst offers a one-stop shop that enables microbiome researchers to thoroughly explore their preprocessed microbiome data via intuitive web interfaces. The complete protocol can be executed in ~70 min.

First Authors:
Jasmine Chong

Correspondence Authors:
Jianguo Xia

All Authors:
Jasmine Chong,Peng Liu,Guangyan Zhou,Jianguo Xia

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MicrobiomeAnalyst 网页交互式分析微生物组数据神器

菌探Momics,2020-03-03

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