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。Efficient parameterization of large-scale dynamic models based on relative measurements
Leonard Schmiester et al.
BIOINFORMATICS (2020)
Design and engineering of E. coli metabolic sensor strains with a wide sensitivity range for glycerate
Selcuk Aslan et al.
METABOLIC ENGINEERING (2020)
Automatic construction of metabolic models with enzyme constraints
Pavlos Stephanos Bekiaris et al.
BMC BIOINFORMATICS (2020)
Parameter balancing: consistent parameter sets for kinetic metabolic models
Timo Lubitz et al.
BIOINFORMATICS (2019)
Enhanced flux prediction by integrating relative expression and relative metabolite abundance into thermodynamically consistent metabolic models
Vikash Pandey et al.
PLOS COMPUTATIONAL BIOLOGY (2019)
Approaches to Computational Strain Design in the Multiomics Era
Peter C. St John et al.
FRONTIERS IN MICROBIOLOGY (2019)
Metabolic kinetic modeling provides insight into complex biological questions, but hurdles remain
Jonathan Strutz et al.
CURRENT OPINION IN BIOTECHNOLOGY (2019)
Kinetic model optimization and its application to mitigating the Warburg effect through multiple enzyme alterations
Conor O'Brien et al.
METABOLIC ENGINEERING (2019)
DMPy: a Python package for automated mathematical model construction of large-scale metabolic systems
Robert W. Smith et al.
BMC SYSTEMS BIOLOGY (2018)
A Map of Protein-Metabolite Interactions Reveals Principles of Chemical Communication
Ilaria Piazza et al.
CELL (2018)
Quantitative -omic data empowers bottom-up systems biology
James T. Yurkovich et al.
CURRENT OPINION IN BIOTECHNOLOGY (2018)
COBRAme: A computational framework for genome-scale models of metabolism and gene expression
Colton J. Lloyd et al.
PLOS COMPUTATIONAL BIOLOGY (2018)
Efficient Parameter Estimation Enables the Prediction of Drug Response Using a Mechanistic Pan-Cancer Pathway Model
Fabian Froehlich et al.
CELL SYSTEMS (2018)
PESTO: Parameter EStimation TOolbox
Paul Stapor et al.
BIOINFORMATICS (2018)
An automated Design-Build-Test-Learn pipeline for enhanced microbial production of fine chemicals
Pablo Carbonell et al.
COMMUNICATIONS BIOLOGY (2018)
Parameter estimation for dynamical systems with discrete events and logical operations
Fabian Froehlich et al.
BIOINFORMATICS (2017)
Improving the phenotype predictions of a yeast genome-scale metabolic model by incorporating enzymatic constraints
Benjamin J. Sanchez et al.
MOLECULAR SYSTEMS BIOLOGY (2017)
Scalable Parameter Estimation for Genome-Scale Biochemical Reaction Networks
Fabian Froehlich et al.
PLOS COMPUTATIONAL BIOLOGY (2017)
A Systematic Evaluation of Methods for Tailoring Genome-Scale Metabolic Models
Sjoerd Opdam et al.
CELL SYSTEMS (2017)
Integrating transcriptional activity in genome-scale models of metabolism
Daniel Trejo Banos et al.
BMC SYSTEMS BIOLOGY (2017)
Formulation, construction and analysis of kinetic models of metabolism: A review of modelling frameworks
Pedro A. Saa et al.
BIOTECHNOLOGY ADVANCES (2017)
A combined model reduction algorithm for controlled biochemical systems
Thomas J. Snowden et al.
BMC SYSTEMS BIOLOGY (2017)
A mixed-integer linear programming approach to the reduction of genome-scale metabolic networks
Annika Roehl et al.
BMC BIOINFORMATICS (2017)
The future of NMR-based metabolomics
John L. Markley et al.
CURRENT OPINION IN BIOTECHNOLOGY (2017)
Parameter estimation in large-scale systems biology models: a parallel and self-adaptive cooperative strategy
David R. Penas et al.
BMC BIOINFORMATICS (2017)
Time scale decomposition in complex reaction systems: A graph theoretic analysis
Udit Gupta et al.
COMPUTERS & CHEMICAL ENGINEERING (2016)
Identification of metabolic engineering targets for the enhancement of 1,4-butanediol production in recombinant E. coli using large-scale kinetic models
Stefano Andreozzi et al.
METABOLIC ENGINEERING (2016)
Metabolite concentrations, fluxes and free energies imply efficient enzyme usage
Junyoung O. Park et al.
NATURE CHEMICAL BIOLOGY (2016)
Systems-level analysis of mechanisms regulating yeast metabolic flux
Sean R. Hackett et al.
SCIENCE (2016)
Constrained Allocation Flux Balance Analysis
Matteo Mori et al.
PLOS COMPUTATIONAL BIOLOGY (2016)
Characterizing Strain Variation in Engineered E.coli Using a Multi-Omics-Based Workflow
Elizabeth Brunk et al.
CELL SYSTEMS (2016)
An algorithm for the reduction of genome-scale metabolic network models to meaningful core models
Philipp Erdrich et al.
BMC SYSTEMS BIOLOGY (2015)
Real-time metabolome profiling of the metabolic switch between starvation and growth
Hannes Link et al.
NATURE METHODS (2015)
Pseudo-transition Analysis Identifies the Key Regulators of Dynamic Metabolic Adaptations from Steady-State Data
Luca Gerosa et al.
CELL SYSTEMS (2015)
Toward metabolic engineering in the context of system biology and synthetic biology: advances and prospects
Yanfeng Liu et al.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY (2015)
A model reduction method for biochemical reaction networks
Shodhan Rao et al.
BMC SYSTEMS BIOLOGY (2014)
Layered decomposition for the model order reduction of timescale separated biochemical reaction networks
Thomas P. Prescott et al.
JOURNAL OF THEORETICAL BIOLOGY (2014)
Identifying Optimal Models to Represent Biochemical Systems
Mochamad Apri et al.
PLOS ONE (2014)
Lost in Transition: Start-Up of Glycolysis Yields Subpopulations of Nongrowing Cells
Johan H. van Heerden et al.
SCIENCE (2014)
Systematic Evaluation of Methods for Integration of Transcriptomic Data into Constraint-Based Models of Metabolism
Daniel Machado et al.
PLOS COMPUTATIONAL BIOLOGY (2014)
Fast Reconstruction of Compact Context-Specific Metabolic Network Models
Nikos Vlassis et al.
PLOS COMPUTATIONAL 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)
Quantitative Analysis of Glycerol Accumulation, Glycolysis and Growth under Hyper Osmotic Stress
Elzbieta Petelenz-Kurdziel et al.
PLOS COMPUTATIONAL BIOLOGY (2013)
A cooperative strategy for parameter estimation in large scale systems biology models
Alejandro F. Villaverde et al.
BMC SYSTEMS BIOLOGY (2012)
Shrinking the Metabolic Solution Space Using Experimental Datasets
Jennifer L. Reed
PLOS COMPUTATIONAL BIOLOGY (2012)
Modular rate laws for enzymatic reactions: thermodynamics, elasticities and implementation
Wolfram Liebermeister et al.
BIOINFORMATICS (2010)
Integrating quantitative proteomics and metabolomics with a genome-scale metabolic network model
Keren Yizhak et al.
BIOINFORMATICS (2010)
Parameter Balancing in Kinetic Models of Cell Metabolism
Timo Lubitz et al.
JOURNAL OF PHYSICAL CHEMISTRY B (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)
Production of biofuels and biochemicals: in need of an ORACLE
Ljubisa Miskovic et al.
TRENDS IN BIOTECHNOLOGY (2010)
Thermodynamics-based metabolic flux analysis
Christopher S. Henry et al.
BIOPHYSICAL JOURNAL (2007)
Non-linear reduction for kinetic models of metabolic reaction networks
ZP Gerdtzen et al.
METABOLIC ENGINEERING (2004)
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)
分享论文
