相关参考文献
注意：仅列出部分参考文献，下载原文获取全部文献信息。Toward a Systems Biology Perspective on Enzyme Evolution
Shelley D. Copley
JOURNAL OF BIOLOGICAL CHEMISTRY (2012)
Role of Chemistry versus Substrate Binding in Recruiting Promiscuous Enzyme Functions
Olga Khersonsky et al.
BIOCHEMISTRY (2011)
The Moderately Efficient Enzyme: Evolutionary and Physicochemical Trends Shaping Enzyme Parameters
Arren Bar-Even et al.
BIOCHEMISTRY (2011)
Elimination of Thermodynamically Infeasible Loops in Steady-State Metabolic Models
Jan Schellenberger et al.
BIOPHYSICAL JOURNAL (2011)
The role of cellular objectives and selective pressures in metabolic pathway evolution
Hojung Nam et al.
CURRENT OPINION IN BIOTECHNOLOGY (2011)
Regulation and control of metabolic fluxes in microbes
Luca Gerosa et al.
CURRENT OPINION IN BIOTECHNOLOGY (2011)
Origins of Specificity and Promiscuity in Metabolic Networks
Pablo Carbonell et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2011)
Microbial laboratory evolution in the era of genome-scale science
Tom M. Conrad et al.
MOLECULAR SYSTEMS BIOLOGY (2011)
Metabolic network reconstruction of Chlamydomonas offers insight into light-driven algal metabolism
Roger L. Chang et al.
MOLECULAR SYSTEMS BIOLOGY (2011)
A comprehensive genome-scale reconstruction of Escherichia coli metabolism-2011
Jeffrey D. Orth et al.
MOLECULAR SYSTEMS BIOLOGY (2011)
Identification of lysine succinylation as a new post-translational modification
Zhihong Zhang et al.
NATURE CHEMICAL BIOLOGY (2011)
Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0
Jan Schellenberger et al.
NATURE PROTOCOLS (2011)
Systems-biology approaches for predicting genomic evolution
Balazs Papp et al.
NATURE REVIEWS GENETICS (2011)
Regulated proteolysis in Gram-negative bacteria - how and when?
Eyal Gur et al.
NATURE REVIEWS MICROBIOLOGY (2011)
EcoCyc: a comprehensive database of Escherichia coli biology
Ingrid M. Keseler et al.
NUCLEIC ACIDS RESEARCH (2011)
Measuring the Evolutionary Rewiring of Biological Networks
Chong Shou et al.
PLOS COMPUTATIONAL BIOLOGY (2011)
Enzyme Promiscuity: A Mechanistic and Evolutionary Perspective
Olga Khersonsky et al.
ANNUAL REVIEW OF BIOCHEMISTRY, VOL 79 (2010)
The Genomic Enzymology of Antibiotic Resistance
Mariya Morar et al.
ANNUAL REVIEW OF GENETICS, VOL 44 (2010)
Adaptive Evolution of Escherichia coli K-12 MG1655 during Growth on a Nonnative Carbon Source, L-1,2-Propanediol
Dae-Hee Lee et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2010)
The biomass objective function
Adam M. Feist et al.
CURRENT OPINION IN MICROBIOLOGY (2010)
Insight into human alveolar macrophage and M. tuberculosis interactions via metabolic reconstructions
Aarash Bordbar et al.
MOLECULAR SYSTEMS BIOLOGY (2010)
Omic data from evolved E-coli are consistent with computed optimal growth from genome-scale models
Nathan E. Lewis et al.
MOLECULAR SYSTEMS BIOLOGY (2010)
Large-scale in silico modeling of metabolic interactions between cell types in the human brain
Nathan E. Lewis et al.
NATURE BIOTECHNOLOGY (2010)
What is flux balance analysis?
Jeffrey D. Orth et al.
NATURE BIOTECHNOLOGY (2010)
Mutational effects and the evolution of new protein functions
Misha Soskine et al.
NATURE REVIEWS GENETICS (2010)
The evolution of gene duplications: classifying and distinguishing between models
Hideki Innan et al.
NATURE REVIEWS GENETICS (2010)
KEGG for representation and analysis of molecular networks involving diseases and drugs
Minoru Kanehisa et al.
NUCLEIC ACIDS RESEARCH (2010)
Design and analysis of synthetic carbon fixation pathways
Arren Bar-Even et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2010)
Quantifying E-coli Proteome and Transcriptome with Single-Molecule Sensitivity in Single Cells
Yuichi Taniguchi et al.
SCIENCE (2010)
Drug Off-Target Effects Predicted Using Structural Analysis in the Context of a Metabolic Network Model
Roger L. Chang et al.
PLOS COMPUTATIONAL BIOLOGY (2010)
Sampling the Solution Space in Genome-Scale Metabolic Networks Reveals Transcriptional Regulation in Key Enzymes
Sergio Bordel et al.
PLOS COMPUTATIONAL BIOLOGY (2010)
Connecting extracellular metabolomic measurements to intracellular flux states in yeast
Monica L. Mo et al.
BMC SYSTEMS BIOLOGY (2009)
Gene Expression Profiling and the Use of Genome-Scale In Silico Models of Escherichia coli for Analysis: Providing Context for Content
Nathan E. Lewis et al.
JOURNAL OF BACTERIOLOGY (2009)
Use of Randomized Sampling for Analysis of Metabolic Networks
Jan Schellenberger et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2009)
Lysine Acetylation Is a Highly Abundant and Evolutionarily Conserved Modification in Escherichia Coli
Junmei Zhang et al.
MOLECULAR & CELLULAR PROTEOMICS (2009)
Adaptive prediction of environmental changes by microorganisms
Amir Mitchell et al.
NATURE (2009)
Absolute metabolite concentrations and implied enzyme active site occupancy in Escherichia coli
Bryson D. Bennett et al.
NATURE CHEMICAL BIOLOGY (2009)
Three-Dimensional Structural View of the Central Metabolic Network of Thermotoga maritima
Ying Zhang et al.
SCIENCE (2009)
Genome-Scale Reconstruction of Escherichia coli's Transcriptional and Translational Machinery: A Knowledge Base, Its Mathematical Formulation, and Its Functional Characterization
Ines Thiele et al.
PLOS COMPUTATIONAL BIOLOGY (2009)
Is maximization of molar yield in metabolic networks favoured by evolution?
Stefan Schuster et al.
JOURNAL OF THEORETICAL BIOLOGY (2008)
The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli
Adam M. Feist et al.
NATURE BIOTECHNOLOGY (2008)
Phosphoproteome analysis of E-coli reveals evolutionary conservation of bacterial Ser/Thr/Tyr phosphorylation
Boris Macek et al.
MOLECULAR & CELLULAR PROTEOMICS (2008)
Systematic evaluation of objective functions for predicting intracellular fluxes in Escherichia coli
Robert Schuetz et al.
MOLECULAR SYSTEMS BIOLOGY (2007)
A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information
Adam M. Feist et al.
MOLECULAR SYSTEMS BIOLOGY (2007)
Energy costs constrain the evolution of gene expression
Andreas Wagner
JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION (2007)
Multiple knockout analysis of genetic robustness in the yeast metabolic network
David Deutscher et al.
NATURE GENETICS (2006)
Modeling methanogenesis with a genome-scale metabolic reconstruction of Methanosarcina barkeri
Adam M. Feist et al.
MOLECULAR SYSTEMS BIOLOGY (2006)
Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection
Tomoya Baba et al.
MOLECULAR SYSTEMS BIOLOGY (2006)
The activity reaction core and plasticity of metabolic networks
Eivind Almaas et al.
PLOS COMPUTATIONAL BIOLOGY (2005)
Parallel adaptive evolution cultures of Escherichia coli lead to convergent growth phenotypes with different gene expression states
SS Fong et al.
GENOME RESEARCH (2005)
Role of transcriptional regulation in controlling fluxes in central carbon metabolism of Saccharomyces cerevisiae -: A chemostat culture study
P Daran-Lapujade et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2004)
Global organization of metabolic fluxes in the bacterium Escherichia coli
E Almaas et al.
NATURE (2004)
Metabolic network analysis of the causes and evolution of enzyme dispensability in yeast
B Papp et al.
NATURE (2004)
Integrating high-throughput and computational data elucidates bacterial networks
MW Covert et al.
NATURE (2004)
The effects of alternate optimal solutions in constraint-based genome-scale metabolic models
R Mahadevan et al.
METABOLIC ENGINEERING (2003)
Thirteen years of building constraint-based in silico models of Escherichia coli
JL Reed et al.
JOURNAL OF BACTERIOLOGY (2003)
Escherichia coli K-12 undergoes adaptive evolution to achieve in silico predicted optimal growth
RU Ibarra et al.
NATURE (2002)
Energy balance for analysis of complex metabolic networks
DA Beard et al.
BIOPHYSICAL JOURNAL (2002)
L-Threonine aldolase, serine hydroxymethyltransferase and fungal alanine racemase - A subgroup of strictly related enzymes specialized for different functions
R Contestabile et al.
EUROPEAN JOURNAL OF BIOCHEMISTRY (2001)
The Escherichia coli MG1655 in silico metabolic genotype:: Its definition, characteristics, and capabilities
JS Edwards et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2000)
分享论文
