Prediction of Metabolic Flux Distribution from Gene Expression Data Based on the Flux Minimization Principle

Bridging the gap between gene expression and metabolic phenotype via kinetic models

(2013) Francisco G Vital-Lopez et al.   BMC Systems Biology

Basic and applied uses of genome-scale metabolic network reconstructions of Escherichia coli

(2013) D. McCloskey et al.   Molecular Systems Biology

Inferring Metabolic States in Uncharacterized Environments Using Gene-Expression Measurements

(2013) Sergio Rossell et al.   PLoS Computational Biology

Dynamic models of metabolism: Review of the cybernetic approach

(2012) Doraiswami Ramkrishna et al.   AICHE JOURNAL

Improving metabolic flux predictions using absolute gene expression data

(2012) Dave Lee et al.   BMC Systems Biology

Yeast 5 – an expanded reconstruction of the Saccharomyces cerevisiae metabolic network

(2012) Benjamin D Heavner et al.   BMC Systems Biology

Predicting Drug Targets and Biomarkers of Cancer via Genome-Scale Metabolic Modeling

(2012) L. Jerby et al.   CLINICAL CANCER RESEARCH

Scheffersomyces stipitis: a comparative systems biology study with the Crabtree positive yeast Saccharomyces cerevisiae

(2012) Marta Papini et al.   Microbial Cell Factories

Analysis of omics data with genome-scale models of metabolism

(2012) Daniel R. Hyduke et al.   Molecular BioSystems

Multiscale Modeling of Metabolism and Macromolecular Synthesis in E. coli and Its Application to the Evolution of Codon Usage

(2012) Ines Thiele et al.   PLoS One

Multidimensional Optimality of Microbial Metabolism

(2012) R. Schuetz et al.   SCIENCE

Modeling Phenotypic Metabolic Adaptations of Mycobacterium tuberculosis H37Rv under Hypoxia

(2012) Xin Fang et al.   PLoS Computational Biology

Integration of expression data in genome-scale metabolic network reconstructions

(2012) Anna S. Blazier et al.   Frontiers in Physiology

From cancer metabolism to new biomarkers and drug targets

(2011) F. Chiaradonna et al.   BIOTECHNOLOGY ADVANCES

Metabolic network modeling and simulation for drug targeting and discovery

(2011) Hyun Uk Kim et al.   Biotechnology Journal

A multi-tissue type genome-scale metabolic network for analysis of whole-body systems physiology

(2011) Aarash Bordbar et al.   BMC Systems Biology

TIGER: Toolbox for integrating genome-scale metabolic models, expression data, and transcriptional regulatory networks

(2011) Paul A Jensen et al.   BMC Systems Biology

iMAT: an integrative metabolic analysis tool

(2010) Hadas Zur et al.   BIOINFORMATICS

BiGG: a Biochemical Genetic and Genomic knowledgebase of large scale metabolic reconstructions

(2010) Jan Schellenberger et al.   BMC BIOINFORMATICS

What is flux balance analysis?

(2010) Jeffrey D Orth et al.   NATURE BIOTECHNOLOGY

Ethanol production from xylose in engineered Saccharomyces cerevisiae strains: current state and perspectives

(2009) Akinori Matsushika et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Applications of genome-scale metabolic reconstructions

(2009) Matthew A Oberhardt et al.   Molecular Systems Biology

13C-based metabolic flux analysis

(2009) Nicola Zamboni et al.   Nature Protocols

The application of flux balance analysis in systems biology

(2009) Erwin P. Gianchandani et al.   Wiley Interdisciplinary Reviews-Systems Biology and Medicine

Interpreting Expression Data with Metabolic Flux Models: Predicting Mycobacterium tuberculosis Mycolic Acid Production

(2009) Caroline Colijn et al.   PLoS Computational Biology

Network-based prediction of human tissue-specific metabolism

(2008) Tomer Shlomi et al.   NATURE BIOTECHNOLOGY

Context-Specific Metabolic Networks Are Consistent with Experiments

(2008) Scott A. Becker et al.   PLoS Computational Biology

Is maximization of molar yield in metabolic networks favoured by evolution?

(2007) Stefan Schuster et al.   JOURNAL OF THEORETICAL BIOLOGY