Predicting metabolic engineering knockout strategies for chemical production: accounting for competing pathways | Zendy

Naama Tepper | Zendy; Tomer Shlomi | Zendy

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Predicting metabolic engineering knockout strategies for chemical production: accounting for competing pathways

Author(s) -

Naama Tepper,

Tomer Shlomi

Publication year - 2009

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btp704

Subject(s) - metabolic engineering , metabolic network , computer science , production (economics) , constraint (computer aided design) , flux (metallurgy) , synthetic biology , metabolic pathway , biochemical engineering , systems biology , metabolic flux analysis , computational biology , network model , gene , chemistry , biology , artificial intelligence , metabolism , genetics , biochemistry , mathematics , engineering , geometry , organic chemistry , economics , macroeconomics

Computational modeling in metabolic engineering involves the prediction of genetic manipulations that would lead to optimized microbial strains, maximizing the production rate of chemicals of interest. Various computational methods are based on constraint-based modeling, which enables to anticipate the effect of genetic manipulations on cellular metabolism considering a genome-scale metabolic network. However, current methods do not account for the presence of competing pathways in a metabolic network that may diverge metabolic flux away from producing a required chemical, resulting in lower (or even zero) chemical production rates in reality-making these methods somewhat over optimistic.

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