Publications
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2016. BiGG Models: A platform for integrating, standardizing and sharing genome-scale models.. Nucleic Acids Res.
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2016. Multi-omic data integration enables discovery of hidden biological regularities.. Nat Commun. 7:13091.
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2015. Do genome-scale models need exact solvers or clearer standards? Mol Syst Biol. 11(10):831.
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2014. Reconstruction and modeling protein translocation and compartmentalization in Escherichia coli at the genome-scale.. BMC Syst Biol. 8(1):110.
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2013. COBRApy: COnstraints-Based Reconstruction and Analysis for Python.. BMC Syst Biol. 7(1):74.
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2013. The genome organization of Thermotoga maritima reflects its lifestyle.. PLoS Genet. 9(4):e1003485.
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2013. Genome-scale metabolic reconstructions of multiple Escherichia coli strains highlight strain-specific adaptations to nutritional environments.. Proc Natl Acad Sci U S A.
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2013. Genome-scale models of metabolism and gene expression extend and refine growth phenotype prediction.. Mol Syst Biol. 9:693.
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2013. Reconciling a Salmonella enterica metabolic model with experimental data confirms that overexpression of the glyoxylate shunt can rescue a lethal ppc deletion mutant.. FEMS Microbiol Lett. 342(1):62-9.
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2012. In silico method for modelling metabolism and gene product expression at genome scale. Nat Commun. 3:929.
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2012. Network context and selection in the evolution to enzyme specificity.. Science. 337(6098):1101-4.
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2012. Raloxifene attenuates Pseudomonas aeruginosa pyocyanin production and virulence.. Int J Antimicrob Agents.
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2011. A comprehensive genome-scale reconstruction of Escherichia coli metabolism--2011.. Mol Syst Biol. 7:535.
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2011. An experimentally-supported genome-scale metabolic network reconstruction for Yersinia pestis CO92.. BMC Syst Biol. 5:163.
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2010. Microbiology. Topping off a multiscale balancing act.. Science (New York, N.Y.). 330(6007):1058-9.
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2010. Omic data from evolved E. coli are consistent with computed optimal growth from genome-scale models.. Molecular systems biology. 6:390.
