一种用于模拟和优化微生物菌株的计算工具，该工具考虑了整合的代谢/调控信息。
A computational tool for the simulation and optimization of microbial strains accounting integrated metabolic/regulatory information.
作者信息
Vilaça Paulo, Rocha Isabel, Rocha Miguel
机构信息
Institute for Biotechnology and Bioengineering/Centre of Biological Engineering, University of Minho, Campus de Gualtar, Braga, Portugal.
出版信息
Biosystems. 2011 Mar;103(3):435-41. doi: 10.1016/j.biosystems.2010.11.012. Epub 2010 Dec 7.
BACKGROUND AND SCOPE
Recently, a number of methods and tools have been proposed to allow the use of genome-scale metabolic models for the phenotype simulation and optimization of microbial strains, within the field of Metabolic Engineering (ME). One of the limitations of most of these algorithms and tools is the fact that only metabolic information is taken into account, disregarding knowledge on regulatory events.
IMPLEMENTATION AND PERFORMANCES
This work proposes a novel software tool that implements methods for the phenotype simulation and optimization of microbial strains using integrated models, encompassing both metabolic and regulatory information. This tool is developed as a plug-in that runs over OptFlux, a computational platform that aims to be a reference tool for the ME community.
AVAILABILITY
The plug-in is made available in the OptFlux web site (www.optflux.org) together with examples and documentation.
背景与范围
最近，在代谢工程（ME）领域，已经提出了许多方法和工具，以允许使用基因组规模的代谢模型来进行微生物菌株的表型模拟和优化。这些算法和工具中的大多数存在的一个局限性是，它们仅考虑代谢信息，而忽略了调控事件方面的知识。
实现与性能
这项工作提出了一种新颖的软件工具，该工具使用整合了代谢和调控信息的模型来实现微生物菌株的表型模拟和优化方法。此工具是作为一个插件开发的，它运行在OptFlux之上，OptFlux是一个旨在成为ME社区参考工具的计算平台。
可用性
该插件与示例和文档一起在OptFlux网站（www.optflux.org）上提供。
Zotero 插件