Publications
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2016. Multi-omic data integration enables discovery of hidden biological regularities.. Nat Commun. 7:13091.
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2013. COBRApy: COnstraints-Based Reconstruction and Analysis for Python.. BMC Syst Biol. 7(1):74.
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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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1998. How will bioinformatics influence metabolic engineering? Biotechnology and bioengineering. 58(2-3):162-9.
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2000. Robustness analysis of the Escherichia coli metabolic network.. Biotechnology progress. 16(6):927-39.
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1999. Systems properties of the Haemophilus influenzae Rd metabolic genotype.. The Journal of biological chemistry. 274(25):17410-6.
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2001. In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data.. Nature biotechnology. 19(2):125-30.
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2002. Metabolic modelling of microbes: the flux-balance approach.. Environmental microbiology. 4(3):133-40.
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2000. The Escherichia coli MG1655 in silico metabolic genotype: its definition, characteristics, and capabilities.. Proceedings of the National Academy of Sciences of the United States of America. 97(10):5528-33.
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2002. Characterizing the metabolic phenotype: a phenotype phase plane analysis.. Biotechnology and bioengineering. 77(1):27-36.
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2000. Metabolic flux balance analysis and the in silico analysis of Escherichia coli K-12 gene deletions.. BMC bioinformatics. 1:1.
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2000. Multiple steady states in kinetic models of red cell metabolism.. Journal of theoretical biology. 207(1):125-7.
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2013. TFpredict and SABINE: sequence-based prediction of structural and functional characteristics of transcription factors.. PLoS One. 8(12):e82238.
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1995. Retroviral-mediated gene transfer in human bone marrow cells growth in continuous perfusion culture vessels.. Blood. 86(10):3754-62.
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2015. Networks of energetic and metabolic interactions define dynamics in microbial communities.. Proc Natl Acad Sci U S A.
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2013. Single-cell genome and metatranscriptome sequencing reveal metabolic interactions of an alkane-degrading methanogenic community.. ISME J.
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1995. In vitro expansion of hematopoietic cells for clinical application.. Cancer treatment and research. 76:215-23.
