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。The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases
Ron Caspi et al.
NUCLEIC ACIDS RESEARCH (2016)
Software-aided cytochrome P450 reaction phenotyping and kinetic analysis in early drug discovery
Esra Nurten Cece-Esencan et al.
RAPID COMMUNICATIONS IN MASS SPECTROMETRY (2016)
Metabolite concentrations, fluxes and free energies imply efficient enzyme usage
Junyoung O. Park et al.
NATURE CHEMICAL BIOLOGY (2016)
2P2Idb v2: update of a structural database dedicated to orthosteric modulation of protein-protein interactions
Marie-Jeanne Basse et al.
DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION (2016)
Improving prediction fidelity of cellular metabolism with kinetic descriptions
Anupam Chowdhury et al.
CURRENT OPINION IN BIOTECHNOLOGY (2015)
13C metabolic flux analysis at a genome-scale
Saratram Gopalakrishnan et al.
METABOLIC ENGINEERING (2015)
Bricks and blueprints: methods and standards for DNA assembly
Arturo Casini et al.
NATURE REVIEWS MOLECULAR CELL BIOLOGY (2015)
A General Framework for Thermodynamically Consistent Parameterization and Efficient Sampling of Enzymatic Reactions
Pedro Saa et al.
PLOS COMPUTATIONAL BIOLOGY (2015)
Personalized Whole-Cell Kinetic Models of Metabolism for Discovery in Genomics and Pharmacodynamics
Aarash Bordbar et al.
CELL SYSTEMS (2015)
Pseudo-transition Analysis Identifies the Key Regulators of Dynamic Metabolic Adaptations from Steady-State Data
Luca Gerosa et al.
CELL SYSTEMS (2015)
CeCaFDB: a curated database for the documentation, visualization and comparative analysis of central carbon metabolic flux distributions explored by 13C-fluxomics
Zhengdong Zhang et al.
NUCLEIC ACIDS RESEARCH (2015)
The genome editing toolbox: a spectrum of approaches for targeted modification
Joseph K. Cheng et al.
CURRENT OPINION IN BIOTECHNOLOGY (2014)
Metabolic engineering of Saccharomyces cerevisiae for the production of triacetic acid lactone
Javier Cardenas et al.
METABOLIC ENGINEERING (2014)
A kinetic model of Escherichia coli core metabolism satisfying multiple sets of mutant flux data
Ali Khodayari et al.
METABOLIC ENGINEERING (2014)
d-OptCom: Dynamic Multi-level and Multi-objective Metabolic Modeling of Microbial Communities
All R. Zomorrodi et al.
ACS SYNTHETIC BIOLOGY (2014)
Pathway Thermodynamics Highlights Kinetic Obstacles in Central Metabolism
Elad Noor et al.
PLOS COMPUTATIONAL BIOLOGY (2014)
Towards kinetic modeling of genome-scale metabolic networks without sacrificing stoichiometric, thermodynamic and physiological constraints
Anirikh Chakrabarti et al.
BIOTECHNOLOGY JOURNAL (2013)
Somewhat in control - the role of transcription in regulating microbial metabolic fluxes
Karl Kochanowski et al.
CURRENT OPINION IN BIOTECHNOLOGY (2013)
BRENDA in 2013: integrated reactions, kinetic data, enzyme function data, improved disease classification: new options and contents in BRENDA
Ida Schomburg et al.
NUCLEIC ACIDS RESEARCH (2013)
EcoCyc: fusing model organism databases with systems biology
Ingrid M. Keseler et al.
NUCLEIC ACIDS RESEARCH (2013)
Improving Fatty Acid Availability for Bio-Hydrocarbon Production in Escherichia coli by Metabolic Engineering
Fengming Lin et al.
PLOS ONE (2013)
The MetaboLights repository: curation challenges in metabolomics
Reza M. Salek et al.
DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION (2013)
Thermodynamic constraints shape the structure of carbon fixation pathways
Arren Bar-Even et al.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS (2012)
Metabolic ensemble modeling for strain engineers
Yikun Tan et al.
BIOTECHNOLOGY JOURNAL (2012)
Parallel labeling experiments with [U-13C]glucose validate E. coli metabolic network model for 13C metabolic flux analysis
Robert W. Leighty et al.
METABOLIC ENGINEERING (2012)
De novo production of the flavonoid naringenin in engineered Saccharomyces cerevisiae
Frank Koopman et al.
MICROBIAL CELL FACTORIES (2012)
SABIO-RK-database for biochemical reaction kinetics
Ulrike Wittig et al.
NUCLEIC ACIDS RESEARCH (2012)
Modeling of Uncertainties in Biochemical Reactions
Ljubisa Miskovic et al.
BIOTECHNOLOGY AND BIOENGINEERING (2011)
Re-examination of metabolic fluxes in Escherichia coli during anaerobic fermentation of glucose using 13C labeling experiments and 2-dimensional nuclear magnetic resonance (NMR) spectroscopy
Madhuresh K. Choudhary et al.
BIOTECHNOLOGY AND BIOPROCESS ENGINEERING (2011)
Large-scale 13C-flux analysis reveals distinct transcriptional control of respiratory and fermentative metabolism in Escherichia coli
Bart R. B. Haverkorn van Rijsewijk et al.
MOLECULAR SYSTEMS BIOLOGY (2011)
Genome-scale metabolic network modeling results in minimal interventions that cooperatively force carbon flux towards malonyl-CoA
Peng Xu et al.
METABOLIC ENGINEERING (2011)
PRIDB: a protein-RNA interface database
Benjamin A. Lewis et al.
NUCLEIC ACIDS RESEARCH (2011)
Towards a genome-scale kinetic model of cellular metabolism
Kieran Smallbone et al.
BMC SYSTEMS BIOLOGY (2010)
Modeling and simulation of the main metabolism in Escherichia coli and its several single-gene knockout mutants with experimental verification
Tuty Asmawaty Abdul Kadir et al.
MICROBIAL CELL FACTORIES (2010)
OptForce: An Optimization Procedure for Identifying All Genetic Manipulations Leading to Targeted Overproductions
Sridhar Ranganathan et al.
PLOS COMPUTATIONAL BIOLOGY (2010)
Acyl-CoA synthetases: fatty acid uptake and metabolic channeling
Margarete Digel et al.
MOLECULAR AND CELLULAR BIOCHEMISTRY (2009)
Absolute metabolite concentrations and implied enzyme active site occupancy in Escherichia coli
Bryson D. Bennett et al.
NATURE CHEMICAL BIOLOGY (2009)
Ensemble Modeling of Metabolic Networks
Linh M. Tran et al.
BIOPHYSICAL JOURNAL (2008)
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)
Multiple high-throughput analyses monitor the response of E-coli to perturbations
Nobuyoshi Ishii et al.
SCIENCE (2007)
Effect of fadR gene knockout on the metabolism of Escherichia coli based on analyses of protein expressions, enzyme activities and intracellular metabolite concentrations
LF Peng et al.
ENZYME AND MICROBIAL TECHNOLOGY (2006)
Effect of ldhA gene deletion on the metabolism of Escherichia coli based on gene expression, enzyme activities, intracellular metabolite concentrations, and metabolic flux distribution
MM Kabir et al.
BIOCHEMICAL ENGINEERING JOURNAL (2005)
Quantitative estimation of channeling from early glycolytic intermediates to CO2 in intact Escherichia coli
G Shearer et al.
FEBS JOURNAL (2005)
Global metabolic response of Escherichia coli to gnd or zwf gene-knockout, based on 13C-labeling experiments and the measurement of enzyme activities
J Zhao et al.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY (2004)
Flux coupling analysis of genome-scale metabolic network reconstructions
AP Burgard et al.
GENOME RESEARCH (2004)
Metabolic regulation analysis of icd-gene knockout Escherichia coli based on 2D electrophoresis with MALDI-TOF mass spectrometry and enzyme activity measurements
MM Kabir et al.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY (2004)
Metabolic control analysis of gene-knockout Escherichia coli based on the inverse flux analysis with experimental verification
MA Hoque et al.
BIOCHEMICAL ENGINEERING JOURNAL (2004)
OptKnock: A bilevel programming framework for identifying gene knockout strategies for microbial strain optimization
AP Burgard et al.
BIOTECHNOLOGY AND BIOENGINEERING (2003)
Analysis of Escherichia coli anaplerotic metabolism and its regulation mechanisms from the metabolic responses to altered dilution rates and phosphoenolpyruvate carboxykinase knockout
C Yang et al.
BIOTECHNOLOGY AND BIOENGINEERING (2003)
The effects of alternate optimal solutions in constraint-based genome-scale metabolic models
R Mahadevan et al.
METABOLIC ENGINEERING (2003)
Global gene expression profiling in Escherichia coli K12 -: The effects of oxygen availability and FNR
K Salmon et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2003)
Metabolic flux analysis of Escherichia coli K12 grown on 13C-labeled acetate and glucose using GG-MS and powerful flux calculation method
J Zhao et al.
JOURNAL OF BIOTECHNOLOGY (2003)
Analysis of optimality in natural and perturbed metabolic networks
D Segrè et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2002)
Dynamic modeling of the central carbon metabolism of Escherichia coli
C Chassagnole et al.
BIOTECHNOLOGY AND BIOENGINEERING (2002)
分享论文
