ArticleNPJ systems biology and applications2018
Flux-dependent graphs for metabolic networks.
Article in NPJ systems biology and applications, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
- A community reconstruction of Chinese hamster metabolism and structural systems biology elucidate metabolic rewiring in lactate-free CHO cells.Cell systems · 2026Article
- A Novel Network Approach to Identify Sample-Specific Context-Informed Metabolic Signatures During Developmental Processes.bioRxiv : the preprint server for biology · 2026Article
- Flux sampling and graph neural networks for improved gene essentiality prediction in mammalian genome-scale metabolic models.NPJ systems biology and applications · 2026Article
- Metabolic reconstruction reveals ATP salvage as a key response to trimethoprim treatment.iScience · 2026Article
- Optimization-based framework with flux balance analysis (FBA) and metabolic pathway analysis (MPA) for identifying metabolic objective functions.PLoS computational biology · 2025Article
- Chemical and transcriptomic diversity do not correlate with ascending levels of social complexity in the insect order Blattodea.Ecology and evolution · 2024Article
- Integration of graph neural networks and genome-scale metabolic models for predicting gene essentiality.NPJ systems biology and applications · 2024Article
- Metabolic Connectome and Its Role in the Prediction, Diagnosis, and Treatment of Complex Diseases.Metabolites · 2024Review
- Machine learning methods for predicting essential metabolic genes from Plasmodium falciparum genome-scale metabolic network.PloS one · 2024Article
- Genome-scale flux balance analysis reveals redox trade-offs in the metabolism of the thermoacidophileFrontiers in systems biology · 2024Article
- Robustness and Complexity of Directed and Weighted Metabolic Hypergraphs.Entropy (Basel, Switzerland) · 2023Article
- Immuno-metabolic signaling in leishmaniasis: insights gained from mathematical modeling.Bioinformatics advances · 2023Article
- Exploring the expressiveness of abstract metabolic networks.PloS one · 2023Article
- Flows of Substances in Networks and Network Channels: Selected Results and Applications.Entropy (Basel, Switzerland) · 2022Review
- Searching for the Metabolic Signature of Cancer: A Review from Warburg's Time to Now.Biomolecules · 2022Review
- Review
- Controlling network ensembles.Nature communications · 2021Article
- Physicochemical and metabolic constraints for thermodynamics-based stoichiometric modelling under mesophilic growth conditions.PLoS computational biology · 2021Article
- Article
- Computational System Level Approaches for Discerning Reciprocal Regulation of IL10 and IL12 in Leishmaniasis.Frontiers in genetics · 2021Article
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Cells adapt their metabolic fluxes in response to changes in the environment. We present a framework for the systematic construction of flux-based graphs derived from organism-wide metabolic networks. Our graphs encode the directionality of metabolic flows via edges that represent the flow of metabolites from source to target reactions. The methodology can be applied in the absence of a specific biological context by modelling fluxes probabilistically, or can be tailored to different environmental conditions by incorporating flux distributions computed through constraint-based approaches such as Flux Balance Analysis. We illustrate our approach on the central carbon metabolism of
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