Distributed under Creative Commons Cc-by 4.0 Anvi'o: an Advanced Analysis and Visualization Platform for 'omics Data
Distributed under Creative Commons Cc-by 4.0 Anvi'o: an Advanced Analysis and Visualization Platform for 'omics Data
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5.3
通讯作者：
A. M. Eren;A. Murat Eren;Ozcan C Esen;C. Quince;Joseph H Vineis;H. Morrison;M. Sogin;Tom O. Delmont-Tom-O.-D
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作者：
A. M. Eren;A. Murat Eren;Ozcan C Esen;C. Quince;Joseph H Vineis;H. Morrison;M. Sogin;Tom O. Delmont-Tom-O.-D
高通量测序和组学技术的进步正在彻底改变对天然存在的微生物群落的研究。对微生物生活方式的全面调查需要能够交互式地组织和可视化遗传信息，并结合细微的差异，从而提高复杂数据的分辨率。在这里，我们介绍anvi'o，一个先进的分析和可视化平台，提供宏基因组组装中微生物基因组的自动化和人工指导的表征，具有交互式界面，可以将来自多个来源的组学数据链接到一个单一的，直观的显示。其可扩展的可视化方法提取了关于每个重叠群的多个维度的信息，为数据探索、操作和报告提供了动态和统一的工作环境。使用anvi'o，我们重新分析了公开可用的数据集，并通过单核苷酸变异的从头表征探索了自然发生的微生物种群内的时间基因组变化，并将栽培品种和单细胞基因组与宏基因组和元转录组数据相关联。Anvi'o是一个开源平台，使没有广泛生物信息学技能的研究人员能够对大型组学数据集进行深入分析和交流。
Advances in high-throughput sequencing and 'omics technologies are revolutionizing studies of naturally occurring microbial communities. Comprehensive investigations of microbial lifestyles require the ability to interactively organize and visualize genetic information and to incorporate subtle differences that enable greater resolution of complex data. Here we introduce anvi'o, an advanced analysis and visualization platform that offers automated and human-guided characterization of microbial genomes in metagenomic assemblies, with interactive interfaces that can link 'omics data from multiple sources into a single, intuitive display. Its extensible visualization approach distills multiple dimensions of information about each contig, offering a dynamic and unified work environment for data exploration, manipulation, and reporting. Using anvi'o, we re-analyzed publicly available datasets and explored temporal genomic changes within naturally occurring microbial populations through de novo characterization of single nucleotide variations, and linked cultivar and single-cell genomes with metagenomic and metatranscriptomic data. Anvi'o is an open-source platform that empowers researchers without extensive bioinformatics skills to perform and communicate in-depth analyses on large 'omics datasets.