(Q38063161)

28 August 2017

1 reference

title

Genome-scale metabolic model in guiding metabolic engineering of microbial improvement (English)

1 reference

28 August 2017

Chuan Xu

1

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28 August 2017

Lili Liu

2

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28 August 2017

Zhao Zhang

3

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28 August 2017

Danfeng Jin

4

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28 August 2017

Juanping Qiu

5

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28 August 2017

Ming Chen

6

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28 August 2017

language of work or name

English

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publication date

28 November 2012

1 reference

Applied Microbiology and Biotechnology

28 August 2017

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28 August 2017

97

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28 August 2017

2

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28 August 2017

519-539

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https://scigraph.springernature.com/pub.10.1007/s00253-012-4543-9

28 August 2017

0 references

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In silico identification of gene amplification targets for improvement of lycopene production

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Computational tools for metabolic engineering.

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Development of a genetic system for Geobacter sulfurreducens

21 January 2018

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Expanding the chemical palate of cells by combining systems biology and metabolic engineering

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BioMet Toolbox: genome-wide analysis of metabolism

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Systems biology approaches to bioremediation

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AraGEM, a genome-scale reconstruction of the primary metabolic network in Arabidopsis

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Inverse flux analysis for reduction of acetate excretion in Escherichia coli.

21 January 2018

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Reconstruction and validation of Saccharomyces cerevisiae iND750, a fully compartmentalized genome-scale metabolic model

21 January 2018

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Global reconstruction of the human metabolic network based on genomic and bibliomic data

21 January 2018

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Engineering cyanobacteria to generate high-value products

21 January 2018

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Iterative reconstruction of a global metabolic model of Acinetobacter baylyi ADP1 using high-throughput growth phenotype and gene essentiality data

21 January 2018

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Genome-scale models of bacterial metabolism: reconstruction and applications

21 January 2018

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Systems properties of the Haemophilus influenzae Rd metabolic genotype

21 January 2018

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The Escherichia coli MG1655 in silico metabolic genotype: its definition, characteristics, and capabilities

21 January 2018

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Improving lycopene production in Escherichia coli by engineering metabolic control

21 January 2018

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21 January 2018

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A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information

21 January 2018

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Reconstruction of biochemical networks in microorganisms

21 January 2018

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Whole-genome random sequencing and assembly of Haemophilus influenzae Rd

21 January 2018

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In silico design and adaptive evolution of Escherichia coli for production of lactic acid.

21 January 2018

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Genome-scale reconstruction of the Saccharomyces cerevisiae metabolic network

21 January 2018

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21 January 2018

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Increased malonyl coenzyme A biosynthesis by tuning the Escherichia coli metabolic network and its application to flavanone production

21 January 2018

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The potential role of lycopene for human health

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21 January 2018

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Applications of systems biology towards microbial fuel production

21 January 2018

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Advanced sequencing technologies and their wider impact in microbiology

21 January 2018

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De novo biosynthesis of vanillin in fission yeast (Schizosaccharomyces pombe) and baker's yeast (Saccharomyces cerevisiae)

21 January 2018

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Exploring the diversity of complex metabolic networks.

21 January 2018

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iBsu1103: a new genome-scale metabolic model of Bacillus subtilis based on SEED annotations

21 January 2018

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High-throughput generation, optimization and analysis of genome-scale metabolic models

21 January 2018

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Genome-scale analysis of Saccharomyces cerevisiae metabolism and ethanol production in fed-batch culture

21 January 2018

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MyBioNet: interactively visualize, edit and merge biological networks on the web.

21 January 2018

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Antimalarial drug targets in Plasmodium falciparum predicted by stage-specific metabolic network analysis

21 January 2018

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iRsp1095: a genome-scale reconstruction of the Rhodobacter sphaeroides metabolic network

21 January 2018

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Characterizing the metabolism of Dehalococcoides with a constraint-based model

21 January 2018

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Geobacter sulfurreducens strain engineered for increased rates of respiration

21 January 2018

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Engineering of microorganisms for the production of biofuels and perspectives based on systems metabolic engineering approaches

21 January 2018

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Algae biofuels: versatility for the future of bioenergy

21 January 2018

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https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Metabolic engineering of Escherichia coli for the production of polylactic acid and its copolymers

21 January 2018

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From genomics to chemical genomics: new developments in KEGG

21 January 2018

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21 January 2018

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Systems-level engineering of nonfermentative metabolism in yeast

21 January 2018

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OptORF: Optimal metabolic and regulatory perturbations for metabolic engineering of microbial strains

21 January 2018

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Metabolite essentiality elucidates robustness of Escherichia coli metabolism

21 January 2018

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Metabolic flux analysis and metabolic engineering of microorganisms

21 January 2018

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Strategies for systems-level metabolic engineering

21 January 2018

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Large-scale bi-level strain design approaches and mixed-integer programming solution techniques

21 January 2018

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Cell structure and dynamics.

21 January 2018

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Metabolic network modeling and simulation for drug targeting and discovery

21 January 2018

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Recent advances in reconstruction and applications of genome-scale metabolic models

21 January 2018

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In silico genome-scale reconstruction and validation of the Corynebacterium glutamicum metabolic network

21 January 2018

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Genetic aspects of targeted insertion mutagenesis in yeasts

21 January 2018

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Web-based metabolic network visualization with a zooming user interface

21 January 2018

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MetaFluxNet: the management of metabolic reaction information and quantitative metabolic flux analysis

21 January 2018

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Metabolic engineering of Escherichia coli for enhanced production of succinic acid, based on genome comparison and in silico gene knockout simulation

21 January 2018

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Genome-scale reconstruction and in silico analysis of the Clostridium acetobutylicum ATCC 824 metabolic network

21 January 2018

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Metabolic engineering of microorganisms for biofuels production: from bugs to synthetic biology to fuels

21 January 2018

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Metabolic engineering of Clostridium acetobutylicum M5 for highly selective butanol production

21 January 2018

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Metabolic engineering of microorganisms: general strategies and drug production

21 January 2018

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https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

The genome-scale metabolic network analysis of Zymomonas mobilis ZM4 explains physiological features and suggests ethanol and succinic acid production strategies

21 January 2018

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Microbial production of building block chemicals and polymers

21 January 2018

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https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Systems metabolic engineering for chemicals and materials

21 January 2018

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https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Systems metabolic engineering of microorganisms for natural and non-natural chemicals

21 January 2018

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Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy

21 January 2018

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Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods

21 January 2018

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Rational improvement of the engineered isobutanol-producing Bacillus subtilis by elementary mode analysis

21 January 2018

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An experimentally validated genome-scale metabolic reconstruction of Klebsiella pneumoniae MGH 78578, iYL1228.

21 January 2018

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Use of genome-scale metabolic models for understanding microbial physiology

21 January 2018

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Dissimilatory Fe(III) and Mn(IV) reduction

21 January 2018

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Characterization of metabolism in the Fe(III)-reducing organism Geobacter sulfurreducens by constraint-based modeling

21 January 2018

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Next-generation DNA sequencing methods

21 January 2018

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Genome of Geobacter sulfurreducens: Metal Reduction in Subsurface Environments

21 January 2018

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Accomplishments in genome-scale in silico modeling for industrial and medical biotechnology

21 January 2018

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Metabolic network reconstruction and genome-scale model of butanol-producing strain Clostridium beijerinckii NCIMB 8052.

21 January 2018

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Reconstruction of Arabidopsis metabolic network models accounting for subcellular compartmentalization and tissue-specificity

21 January 2018

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https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Reconstruction and analysis of genome-scale metabolic model of a photosynthetic bacterium

21 January 2018

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Flux coupling and transcriptional regulation within the metabolic network of the photosynthetic bacterium Synechocystis sp. PCC6803.

21 January 2018

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Importance of systems biology in engineering microbes for biofuel production

21 January 2018

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https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Production of 2,3-butanediol in Saccharomyces cerevisiae by in silico aided metabolic engineering

21 January 2018

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A genome-scale metabolic reconstruction of Pseudomonas putida KT2440: iJN746 as a cell factory

21 January 2018

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Detailing the optimality of photosynthesis in cyanobacteria through systems biology analysis

21 January 2018

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Accelerating the reconstruction of genome-scale metabolic networks

21 January 2018

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Applications of genome-scale metabolic reconstructions

21 January 2018

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Reconciliation of genome-scale metabolic reconstructions for comparative systems analysis

21 January 2018

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A dynamic, genome-scale flux model of Lactococcus lactis to increase specific recombinant protein expression

21 January 2018

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Genome-scale reconstruction of metabolic network in Bacillus subtilis based on high-throughput phenotyping and gene essentiality data

21 January 2018

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https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Modeling Lactococcus lactis using a genome-scale flux model

21 January 2018

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What is flux balance analysis?

21 January 2018

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A comprehensive genome-scale reconstruction of Escherichia coli metabolism--2011.

21 January 2018

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Fifteen years of large scale metabolic modeling of yeast: developments and impacts

21 January 2018

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Metabolic systems biology

21 January 2018

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Use of genome-scale metabolic models in evolutionary systems biology

21 January 2018

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Towards systems metabolic engineering of microorganisms for amino acid production

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Metabolic engineering of Escherichia coli for the production of L-valine based on transcriptome analysis and in silico gene knockout simulation

21 January 2018

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https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Constraints-based genome-scale metabolic simulation for systems metabolic engineering

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Prediction of metabolic fluxes by incorporating genomic context and flux-converging pattern analyses

21 January 2018

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https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Fed-batch culture of Escherichia coli for L-valine production based on in silico flux response analysis

21 January 2018

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https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Genome-scale model of Streptococcus thermophilus LMG18311 for metabolic comparison of lactic acid bacteria

21 January 2018

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Use of genome-scale microbial models for metabolic engineering

21 January 2018

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Evolutionary programming as a platform for in silico metabolic engineering

21 January 2018

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An optimization framework for identifying reaction activation/inhibition or elimination candidates for overproduction in microbial systems

21 January 2018

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OptStrain: a computational framework for redesign of microbial production systems.

21 January 2018

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https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Constraint-based model of Shewanella oneidensis MR-1 metabolism: a tool for data analysis and hypothesis generation

21 January 2018

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https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

metaSHARK: software for automated metabolic network prediction from DNA sequence and its application to the genomes of Plasmodium falciparum and Eimeria tenella

21 January 2018

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https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Computational methods for metabolic reconstruction

21 January 2018

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Reconstruction and flux-balance analysis of the Plasmodium falciparum metabolic network.

21 January 2018

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A genome-scale metabolic model of Arabidopsis and some of its properties

21 January 2018

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Genome-scale models of microbial cells: evaluating the consequences of constraints

21 January 2018

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Genome-scale reconstruction and analysis of the Pseudomonas putida KT2440 metabolic network facilitates applications in biotechnology

21 January 2018

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Microbial 1-butanol production: Identification of non-native production routes and in silico engineering interventions

21 January 2018

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OptForce: an optimization procedure for identifying all genetic manipulations leading to targeted overproductions

21 January 2018

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An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR)

21 January 2018

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Genome-scale comparison and constraint-based metabolic reconstruction of the facultative anaerobic Fe(III)-reducer Rhodoferax ferrireducens

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Genome-scale metabolic analysis of Clostridium thermocellum for bioethanol production

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Design and application of genome-scale reconstructed metabolic models.

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

OptFlux: an open-source software platform for in silico metabolic engineering

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Comparative metabolic capabilities for Micrococcus luteus NCTC 2665, the "Fleming" strain, and actinobacteria.

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Zea mays iRS1563: a comprehensive genome-scale metabolic reconstruction of maize metabolism

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Improved triacylglycerol production in Acinetobacter baylyi ADP1 by metabolic engineering

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Optimization based automated curation of metabolic reconstructions

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Metabolic reconstruction of the archaeon methanogen Methanosarcina Acetivorans.

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Database resources of the National Center for Biotechnology Information

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

BRENDA, the enzyme information system in 2011

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Next-generation sequencing transforms today's biology

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Analysis of optimality in natural and perturbed metabolic networks

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Genome-scale model for Clostridium acetobutylicum: Part I. Metabolic network resolution and analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Modeling hybridoma cell metabolism using a generic genome-scale metabolic model of Mus musculus

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Development and experimental verification of a genome-scale metabolic model for Corynebacterium glutamicum

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Regulatory on/off minimization of metabolic flux changes after genetic perturbations

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

A detailed genome-wide reconstruction of mouse metabolism based on human Recon 1.

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

In silico genome-scale metabolic analysis of Pseudomonas putida KT2440 for polyhydroxyalkanoate synthesis, degradation of aromatics and anaerobic survival.

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Challenges in engineering microbes for biofuels production.

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Genome-scale constraint-based modeling of Geobacter metallireducens

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Constraint-based modeling analysis of the metabolism of two Pelobacter species

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Analysis of growth of Lactobacillus plantarum WCFS1 on a complex medium using a genome-scale metabolic model.

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Systems biology of lactic acid bacteria: a critical review.

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

A protocol for generating a high-quality genome-scale metabolic reconstruction

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Automated metabolic reconstruction for Methanococcus jannaschii

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Toward design-based engineering of industrial microbes

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Improved L-lysine production with Corynebacterium glutamicum and systemic insight into citrate synthase flux and activity.

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Genome-scale metabolic representation of Amycolatopsis balhimycina

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Genome-scale in silico aided metabolic analysis and flux comparisons of Escherichia coli to improve succinate production.

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Genome-scale modeling and in silico analysis of ethanologenic bacteria Zymomonas mobilis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Modeling and simulation: tools for metabolic engineering

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Genome-scale metabolic network modeling results in minimal interventions that cooperatively force carbon flux towards malonyl-CoA.

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Biosynthesis of polylactic acid and its copolymers using evolved propionate CoA transferase and PHA synthase

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

EMILiO: a fast algorithm for genome-scale strain design.

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Metabolic engineering of Escherichia coli for direct production of 1,4-butanediol

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Malic acid production by Saccharomyces cerevisiae: engineering of pyruvate carboxylation, oxaloacetate reduction, and malate export.

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Understanding the industrial application potential of lactic acid bacteria through genomics

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Size-exclusion chromatography of heparin oligosaccharides at high and low pressure

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

From zero to hero—Design-based systems metabolic engineering of Corynebacterium glutamicum for l-lysine production

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

Systems-level analysis of genome-scalein silico metabolic models using MetaFluxNet

21 January 2018

1 reference

https://api.crossref.org/works/10.1007%2FS00253-012-4543-9

10.1007/S00253-012-4543-9

21 January 2018

Identifiers

DOI

1 reference

Dimensions Publication ID

28 August 2017

0 references

1 reference