The Microbiome Modeling Toolbox: from microbial interactions to personalized microbial communities
The Microbiome Modeling Toolbox: from microbial interactions to personalized microbial communities
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DOI：
10.1093/bioinformatics/bty941
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发表时间：
2019-07-01
期刊：
影响因子：
5.8
通讯作者：
Thiele, Ines
中科院分区：
文献类型：
--
作者：
Baldini, Federico;Heinken, Almut;Thiele, Ines
结果为解决这一问题，我们创建了一个综合工具箱来模拟(I)微生物-微生物和宿主-微生物的代谢相互作用，以及(Ii)利用微生物基因组规模的代谢重构和元基因组数据来模拟微生物群落。微生物组建模工具箱扩展了基于约束的重建和分析工具箱的功能。微生物组建模工具箱和https://git.io/microbiomeModelingToolbox.上的教程的可用性和实现
Motivation The application of constraint-based modeling to functionally analyze metagenomic data has been limited so far, partially due to the absence of suitable toolboxes.Results To address this gap, we created a comprehensive toolbox to model (i) microbe-microbe and host-microbe metabolic interactions, and (ii) microbial communities using microbial genome-scale metabolic reconstructions and metagenomic data. The Microbiome Modeling Toolbox extends the functionality of the constraint-based reconstruction and analysis toolbox.Availability and implementation The Microbiome Modeling Toolbox and the tutorials at https://git.io/microbiomeModelingToolbox.