期刊
METABOLIC ENGINEERING
卷 14, 期 3, 页码 270-280出版社
ACADEMIC PRESS INC ELSEVIER SCIENCE
DOI: 10.1016/j.ymben.2012.03.001
关键词
Metabolic engineering; Software; Genome-scale metabolic networks; Network visualization
资金
- NSF [0827592]
- NSF in Theoretical Biology [0827592]
- NIH/NIGMS [GM076692, GM081070]
- NHGRI [R42HG006737]
- NLM [R41LM010745]
- NSF Center for the Study of Evolution in Action [0939454]
- Div Of Biological Infrastructure
- Direct For Biological Sciences [0939454] Funding Source: National Science Foundation
- Emerging Frontiers
- Direct For Biological Sciences [0827592] Funding Source: National Science Foundation
A great variety of software applications are now employed in the metabolic engineering field. These applications have been created to support a wide range of experimental and analysis techniques. Computational tools are utilized throughout the metabolic engineering workflow to extract and interpret relevant information from large data sets, to present complex models in a more manageable form, and to propose efficient network design strategies. In this review, we present a number of tools that can assist in modifying and understanding cellular metabolic networks. The review covers seven areas of relevance to metabolic engineers. These include metabolic reconstruction efforts, network visualization, nucleic acid and protein engineering, metabolic flux analysis, pathway prospecting, post-structural network analysis and culture optimization. The list of available tools is extensive and we can only highlight a small, representative portion of the tools from each area. (C) 2012 Elsevier Inc. All rights reserved.
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