ArticleNPJ systems biology and applications2019
Flux sampling is a powerful tool to study metabolism under changing environmental conditions.
Article in NPJ systems biology and applications, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 58 papers.
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Who cites it
58 citing papers in PubMed.
- Genome-scale metabolic modelling identifies vaginal microbiome members as potential probiotics.Nature microbiology · 2026Article
- Flux sampling and graph neural networks for improved gene essentiality prediction in mammalian genome-scale metabolic models.NPJ systems biology and applications · 2026Article
- CellTarget: a convex optimisation approach to discover cellular objectives.NPJ systems biology and applications · 2026Article
- Cancer-associated fibroblasts drive metabolic heterogeneity in colorectal cancer cells: predictions from metabolic modeling.NPJ systems biology and applications · 2026Article
- COBRAxy: constraint-based metabolic modeling in Galaxy.Bioinformatics (Oxford, England) · 2026Article
- Flux sampling and context-specific genome-scale metabolic models for biotechnological applications.Trends in biotechnology · 2026Review
- Model-driven exploration of lactose and galactose metabolism via an oxidoreductive pathway in Sungouiella intermedia for cell factory applications.Microbial cell factories · 2026Article
- Spatial FBA reveals heterogeneous Warburg niches in renal tumors and lactate consumption in colorectal cancer.NPJ systems biology and applications · 2026Article
- From Genome to Function: Metabolism-Wide Models of Lifecycle Stages of Parasites.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Genome-scale Metabolic Modeling Guided Escherichia coli Engineering for De Novo Biosynthesis of Chrysanthemic Acid.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Mechanistically informed machine learning links non-canonical TCA cycle activity to Warburg metabolism and hallmarks of malignancy.PLoS computational biology · 2025Article
- Neuronal subtype-specific metabolic changes in neurodegenerative and neuropsychiatric diseases predicted via a systems biology-based approach.bioRxiv : the preprint server for biology · 2025Article
- Integrative systems biology approaches for analyzing microbiome dysbiosis and species interactions.Briefings in bioinformatics · 2025Review
- Metabolic modeling identifies determinants of thermal growth responses in Arabidopsis thaliana.The New phytologist · 2025Article
- Flux Sampling Suggests Metabolic Signatures of High Antibody-Producing CHO Cells.Biotechnology and bioengineering · 2025Article
- Genome-scale metabolic modelling identifies reactions mediated by SNP-SNP interactions associated with yeast sporulation.NPJ systems biology and applications · 2025Article
- Article
- Implementation of aComputational and structural biotechnology journal · 2025Article
- MitoMAMMAL: a genome scale model of mammalian mitochondria predicts cardiac and BAT metabolism.Bioinformatics advances · 2025Article
- Wheels turning: CHO cell modeling moves into a digital biomanufacturing era: Subtitle: CHO Metabolic Modeling.Computational and structural biotechnology journal · 2025Review
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5 authors.
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Abstract
The development of high-throughput 'omic techniques has sparked a rising interest in genome-scale metabolic models, with applications ranging from disease diagnostics to crop adaptation. Efficient and accurate methods are required to analyze large metabolic networks. Flux sampling can be used to explore the feasible flux solutions in metabolic networks by generating probability distributions of steady-state reaction fluxes. Unlike other methods, flux sampling can be used without assuming a particular cellular objective. We have undertaken a rigorous comparison of several sampling algorithms and concluded that the coordinate hit-and-run with rounding (CHRR) algorithm is the most efficient based on both run-time and multiple convergence diagnostics. We demonstrate the power of CHRR by using it to study the metabolic changes that underlie photosynthetic acclimation to cold of
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