Modeling complex cellular systems : from differential equations to constraint-based models
暂无分享,去创建一个
[1] Roded Sharan,et al. Genome-Scale Metabolic Modeling Elucidates the Role of Proliferative Adaptation in Causing the Warburg Effect , 2011, PLoS Comput. Biol..
[2] M. Salter,et al. Quantification of the importance of individual steps in the control of aromatic amino acid metabolism. , 1986, The Biochemical journal.
[3] F. Baneyx,et al. Recombinant protein folding and misfolding in Escherichia coli , 2004, Nature Biotechnology.
[4] T. Chou,et al. A simple generalized equation for the analysis of multiple inhibitions of Michaelis-Menten kinetic systems. , 1977, The Journal of biological chemistry.
[5] W. Pardridge,et al. Neutral amino acid transport at the human blood-brain barrier. , 1988, The Journal of biological chemistry.
[6] Zoran Nikoloski,et al. A novel approach for determining environment-specific protein costs: the case of Arabidopsis thaliana , 2010, Bioinform..
[7] A. Burgard,et al. Probing the performance limits of the Escherichia coli metabolic network subject to gene additions or deletions. , 2001, Biotechnology and bioengineering.
[8] A. H. Stouthamer. A theoretical study on the amount of ATP required for synthesis of microbial cell material , 2007, Antonie van Leeuwenhoek.
[9] U. Rinas,et al. Entry of Escherichia coli into stationary phase is indicated by endogenous and exogenous accumulation of nucleobases , 1995, Applied and environmental microbiology.
[10] D. Wei,et al. Optimization of culture on the overproduction of TRAIL in high-cell-density culture by recombinant Escherichia coli , 2006, Applied Microbiology and Biotechnology.
[11] A kinetic model to explain the maximum in α‐amylase activity measurements in the presence of small carbohydrates , 2006, Biotechnology and bioengineering.
[12] B. Palsson,et al. Biochemical production capabilities of escherichia coli , 1993, Biotechnology and bioengineering.
[13] Bernhard O. Palsson,et al. BiGG: a Biochemical Genetic and Genomic knowledgebase of large scale metabolic reconstructions , 2010, BMC Bioinformatics.
[14] R. Wagner,et al. Essential Steps in the ppGpp-dependent Regulation of Bacterial Ribosomal RNA Promoters Can Be Explained by Substrate Competition* , 2003, The Journal of Biological Chemistry.
[15] Joseph Shiloach,et al. Growing E. coli to high cell density--a historical perspective on method development. , 2005, Biotechnology advances.
[16] Douglas W. Raiford,et al. Amino acid cost and codon-usage biases in 6 prokaryotic genomes: a whole-genome analysis. , 2006, Molecular biology and evolution.
[17] Barbara M. Bakker,et al. How Molecular Competition Influences Fluxes in Gene Expression Networks , 2011, PloS one.
[18] B. Cravatt,et al. NNMT promotes epigenetic remodeling in cancer by creating a metabolic methylation sink , 2013, Nature chemical biology.
[19] Christoph Wittmann,et al. Metabolic pathway analysis for rational design of L-methionine production by Escherichia coli and Corynebacterium glutamicum. , 2006, Metabolic engineering.
[20] G W Luli,et al. Comparison of growth, acetate production, and acetate inhibition of Escherichia coli strains in batch and fed-batch fermentations , 1990, Applied and environmental microbiology.
[21] Control analysis of systems having two steps catalyzed by the same protein molecule in unbranched chains. , 1990, European journal of biochemistry.
[22] B. Palsson,et al. Stoichiometric flux balance models quantitatively predict growth and metabolic by-product secretion in wild-type Escherichia coli W3110 , 1994, Applied and environmental microbiology.
[23] S. Lee,et al. High cell-density culture of Escherichia coli. , 1996, Trends in biotechnology.
[24] J. R. Pomerening,et al. Uncovering mechanisms of bistability in biological systems. , 2008, Current opinion in biotechnology.
[25] Ursula Rinas,et al. Glucose and Acetate Metabolism in E. coli – System Level Analysis and Biotechnological Applications in Protein Production Processes , 2009 .
[26] V. Wendisch,et al. Metabolic engineering of Escherichia coli and Corynebacterium glutamicum for biotechnological production of organic acids and amino acids. , 2006, Current opinion in microbiology.
[27] Kwanghun Chung,et al. Gene regulation by MAPK substrate competition. , 2010, Developmental cell.
[28] Alexander Skupin,et al. Carbohydrate-active enzymes exemplify entropic principles in metabolism , 2011, Molecular systems biology.
[29] S. Makrides. Strategies for achieving high-level expression of genes in Escherichia coli , 1996 .
[30] Adam M. Feist,et al. The biomass objective function. , 2010, Current opinion in microbiology.
[31] J. Last,et al. Competitive metabolism of L-arginine: arginase as a therapeutic target in asthma , 2011, Journal of biomedical research.
[32] Ross P. Carlson,et al. Metabolic systems cost-benefit analysis for interpreting network structure and regulation , 2007, Bioinform..
[33] Adam M. Feist,et al. A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information , 2007, Molecular systems biology.
[34] A. Wolfe. The Acetate Switch , 2005, Microbiology and Molecular Biology Reviews.
[35] Takashi Gojobori,et al. Metabolic efficiency and amino acid composition in the proteomes of Escherichia coli and Bacillus subtilis , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[36] Peter D. Karp,et al. EcoCyc: a comprehensive database of Escherichia coli biology , 2010, Nucleic Acids Res..
[37] Lee Sp,et al. Substrate-length-dependent activities of human immunodeficiency virus type 1 integrase in vitro: differential DNA binding affinities associated with different lengths of substrates. , 1995 .
[38] Sang Yup Lee,et al. Metabolic pathways and fermentative production of L‐aspartate family amino acids , 2010, Biotechnology journal.
[39] T. Gaber,et al. Acute tryptophan depletion in accordance with body weight: influx of amino acids across the blood–brain barrier , 2012, Journal of Neural Transmission.
[40] Mudita Singhal,et al. COPASI - a COmplex PAthway SImulator , 2006, Bioinform..
[41] Volker Hecht,et al. Metabolic flux analysis of Escherichia coli in glucose-limited continuous culture. I. Growth-rate-dependent metabolic efficiency at steady state. , 2005, Microbiology.
[42] Jacob K. White,et al. Steady states and dynamics of urokinase-mediated plasmin activation in silico and in vitro. , 2011, Biophysical journal.
[43] G. Turchini,et al. Δ-6 Desaturase Substrate Competition: Dietary Linoleic Acid (18∶2n-6) Has Only Trivial Effects on α-Linolenic Acid (18∶3n-3) Bioconversion in the Teleost Rainbow Trout , 2013, PloS one.
[44] U. Rinas,et al. Simple fed-batch technique for high cell density cultivation of Escherichia coli. , 1995, Journal of biotechnology.
[45] D. Huster,et al. Optimization of Escherichia coli cultivation methods for high yield neuropeptide Y receptor type 2 production. , 2011, Protein expression and purification.
[46] B. Palsson,et al. Metabolic capabilities of Escherichia coli: I. synthesis of biosynthetic precursors and cofactors. , 1993, Journal of theoretical biology.
[47] W. Donachie,et al. Growth of the Bacterial Cell , 1970, Nature.
[48] Sang Yup Lee,et al. Fermentative production of branched chain amino acids: a focus on metabolic engineering , 2009, Applied Microbiology and Biotechnology.