Mathematical optimization applications in metabolic networks

Ali R. Zomorrodi, Patrick Suthers, Sridhar Ranganathan, Costas D. Maranas

Research output: Contribution to journalShort survey

87 Citations (Scopus)

Abstract

Genome-scale metabolic models are increasingly becoming available for a variety of microorganisms. This has spurred the development of a wide array of computational tools, and in particular, mathematical optimization approaches, to assist in fundamental metabolic network analyses and redesign efforts. This review highlights a number of optimization-based frameworks developed towards addressing challenges in the analysis and engineering of metabolic networks. In particular, three major types of studies are covered here including exploring model predictions, correction and improvement of models of metabolism, and redesign of metabolic networks for the targeted overproduction of a desired compound. Overall, the methods reviewed in this paper highlight the diversity of queries, breadth of questions and complexity of redesigns that are amenable to mathematical optimization strategies.

Original languageEnglish (US)
Pages (from-to)672-686
Number of pages15
JournalMetabolic engineering
Volume14
Issue number6
DOIs
StatePublished - Nov 1 2012

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Metabolic Networks and Pathways
Metabolism
Microorganisms
Genes
Genome

All Science Journal Classification (ASJC) codes

  • Biotechnology
  • Bioengineering
  • Applied Microbiology and Biotechnology

Cite this

Zomorrodi, Ali R. ; Suthers, Patrick ; Ranganathan, Sridhar ; Maranas, Costas D. / Mathematical optimization applications in metabolic networks. In: Metabolic engineering. 2012 ; Vol. 14, No. 6. pp. 672-686.
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Mathematical optimization applications in metabolic networks. / Zomorrodi, Ali R.; Suthers, Patrick; Ranganathan, Sridhar; Maranas, Costas D.

In: Metabolic engineering, Vol. 14, No. 6, 01.11.2012, p. 672-686.

Research output: Contribution to journalShort survey

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