COMAN: a web server for comprehensive metatranscriptomics analysis

BMC Genomics

Software

Jun Li¹  Yueqiong Ni¹  Gianni Panagiotou¹ 

[1] Systems Biology & Bioinformatics Group, School of Biological Sciences, The University of Hong Kong, Pokfulam Road, Hong Kong, Hong Kong;

关键词: Metatranscriptomics;    Microbial RNA-Seq;    Web servers;    Microbial community;    Computational biology;   

DOI  :  10.1186/s12864-016-2964-z

 received in 2016-05-10, accepted in 2016-07-22,  发布年份 2016

来源: Springer

【 摘 要 】

BackgroundMicrobiota-oriented studies based on metagenomic or metatranscriptomic sequencing have revolutionised our understanding on microbial ecology and the roles of both clinical and environmental microbes. The analysis of massive metatranscriptomic data requires extensive computational resources, a collection of bioinformatics tools and expertise in programming.ResultsWe developed COMAN (Comprehensive Metatranscriptomics Analysis), a web-based tool dedicated to automatically and comprehensively analysing metatranscriptomic data. COMAN pipeline includes quality control of raw reads, removal of reads derived from non-coding RNA, followed by functional annotation, comparative statistical analysis, pathway enrichment analysis, co-expression network analysis and high-quality visualisation. The essential data generated by COMAN are also provided in tabular format for additional analysis and integration with other software. The web server has an easy-to-use interface and detailed instructions, and is freely available at http://sbb.hku.hk/COMAN/ConclusionsCOMAN is an integrated web server dedicated to comprehensive functional analysis of metatranscriptomic data, translating massive amount of reads to data tables and high-standard figures. It is expected to facilitate the researchers with less expertise in bioinformatics in answering microbiota-related biological questions and to increase the accessibility and interpretation of microbiota RNA-Seq data.

【 授权许可】

CC BY   
© The Author(s). 2016