ArticleBMC genomics2016
COMAN: a web server for comprehensive metatranscriptomics analysis.
Article in BMC genomics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
18 citing papers in PubMed.
- Resistant starch intake facilitates weight loss in humans by reshaping the gut microbiota.Nature metabolism · 2024Trial
- metaTP: a meta-transcriptome data analysis pipeline with integrated automated workflows.BMC bioinformatics · 2025Article
- Simultaneous acclimation to nitrogen and iron scarcity in open ocean cyanobacteria revealed by sparse tensor decomposition of metatranscriptomes.Science advances · 2025Article
- MetaPro: a scalable and reproducible data processing and analysis pipeline for metatranscriptomic investigation of microbial communities.Microbiome · 2023Article
- The hitchhikers' guide to RNA sequencing and functional analysis.Briefings in bioinformatics · 2023Article
- TbasCO: trait-based comparative 'omics identifies ecosystem-level and niche-differentiating adaptations of an engineered microbiome.ISME communications · 2022Article
- Multi-Omics Strategies for Investigating the Microbiome in Toxicology Research.Toxicological sciences : an official journal of the Society of Toxicology · 2022Review
- Statistical approaches for differential expression analysis in metatranscriptomics.Bioinformatics (Oxford, England) · 2021Article
- ASaiM-MT: a validated and optimized ASaiM workflow for metatranscriptomics analysis within Galaxy framework.F1000Research · 2021Article
- Gut-Brain Axis and Neurodegeneration: State-of-the-Art of Meta-Omics Sciences for Microbiota Characterization.International journal of molecular sciences · 2020Review
- Metatranscriptomics: an approach for retrieving novel eukaryotic genes from polluted and related environments.3 Biotech · 2020Review
- To assemble or not to resemble-A validated Comparative Metatranscriptomics Workflow (CoMW).GigaScience · 2019Article
- Advances and Challenges in Metatranscriptomic Analysis.Frontiers in genetics · 2019Review
- SAMSA2: a standalone metatranscriptome analysis pipeline.BMC bioinformatics · 2018Article
- Experimental design and quantitative analysis of microbial community multiomics.Genome biology · 2017Review
- TaxMapper: an analysis tool, reference database and workflow for metatranscriptome analysis of eukaryotic microorganisms.BMC genomics · 2017Article
- Toward a Metagenomic Understanding on the Bacterial Composition and Resistome in Hong Kong Banknotes.Frontiers in microbiology · 2017Article
- Current Knowledge and Computational Techniques for Grapevine Meta-Omics Analysis.Frontiers in plant science · 2017Review
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
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.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.