Double and multiple knockout simulations for genome-scale metabolic network reconstructions

Constraint-based models predict metabolic and associated cellular functions

(2014) Aarash Bordbar et al.   NATURE REVIEWS GENETICS

Enumeration of Smallest Intervention Strategies in Genome-Scale Metabolic Networks

(2014) Axel von Kamp et al.   PLoS Computational Biology

Flux balance impact degree: a new definition of impact degree to properly treat reversible reactions in metabolic networks

(2013) Yang Zhao et al.   BIOINFORMATICS

FastPros: screening of reaction knockout strategies for metabolic engineering

(2013) Satoshi Ohno et al.   BIOINFORMATICS

Comparison and improvement of algorithms for computing minimal cut sets

(2013) Christian Jungreuthmayer et al.   BMC BIOINFORMATICS

Comparing methods for metabolic network analysis and an application to metabolic engineering

(2013) Namrata Tomar et al.   GENE

F2C2: a fast tool for the computation of flux coupling in genome-scale metabolic networks

(2012) Abdelhalim Larhlimi et al.   BMC BIOINFORMATICS

An in silico re-design of the metabolism in Thermotoga maritima for increased biohydrogen production

(2012) Juan Nogales et al.   INTERNATIONAL JOURNAL OF HYDROGEN ENERGY

Mathematical optimization applications in metabolic networks

(2012) Ali R. Zomorrodi et al.   METABOLIC ENGINEERING

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

(2010) Jan Schellenberger et al.   BMC BIOINFORMATICS

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

(2010) Isabel Rocha et al.   BMC Systems Biology

What is flux balance analysis?

(2010) Jeffrey D Orth et al.   NATURE BIOTECHNOLOGY

Predicting metabolic engineering knockout strategies for chemical production: accounting for competing pathways

(2009) N. Tepper et al.   BIOINFORMATICS