ReviewJournal of biomedicine & biotechnology2010
Which metabolic pathways generate and characterize the flux space? A comparison among elementary modes, extreme pathways and minimal generators.
Review in Journal of biomedicine & biotechnology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Partial enumeration of extreme rays in metabolic networks using bit pattern trees.Frontiers in bioinformatics · 2026Article
- Accelerated enumeration of extreme rays through a positive-definite elementarity test.Bioinformatics (Oxford, England) · 2024Article
- Article
- In Silico Analysis of Functionalized Hydrocarbon Production Using Ehrlich Pathway and Fatty Acid Derivatives in an Endophytic Fungus.Journal of fungi (Basel, Switzerland) · 2021Article
- Novel column generation-based optimization approach for poly-pathway kinetic model applied to CHO cell culture.Metabolic engineering communications · 2019Article
- From elementary flux modes to elementary flux vectors: Metabolic pathway analysis with arbitrary linear flux constraints.PLoS computational biology · 2017Review
- Stoichiometric modelling of assimilatory and dissimilatory biomass utilisation in a microbial community.Environmental microbiology · 2016Article
- A principal components method constrained by elementary flux modes: analysis of flux data sets.BMC bioinformatics · 2016Article
- Elementary Vectors and Conformal Sums in Polyhedral Geometry and their Relevance for Metabolic Pathway Analysis.Frontiers in genetics · 2016Article
- On dynamically generating relevant elementary flux modes in a metabolic network using optimization.Journal of mathematical biology · 2015Article
- Predicting internal cell fluxes at sub-optimal growth.BMC systems biology · 2015Article
- Metabolomics integrated elementary flux mode analysis in large metabolic networks.Scientific reports · 2015Article
- Minimal metabolic pathway structure is consistent with associated biomolecular interactions.Molecular systems biology · 2014Article
- Complete enumeration of elementary flux modes through scalable demand-based subnetwork definition.Bioinformatics (Oxford, England) · 2014Article
- Experimental evidence suggests the existence of evolutionary conserved global operation principles governing microbial metabolism.Scientific reports · 2013Article
- Metabolic analyses elucidate non-trivial gene targets for amplifying dihydroartemisinic acid production in yeast.Frontiers in microbiology · 2013Article
- Identification of metabolic engineering targets through analysis of optimal and sub-optimal routes.PloS one · 2013Article
- Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods.Nature reviews. Microbiology · 2012Review
- Enumerating metabolic pathways for the production of heterologous target chemicals in chassis organisms.BMC systems biology · 2012Article
- Symbolic flux analysis for genome-scale metabolic networks.BMC systems biology · 2011Article
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2 authors.
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Abstract
Important efforts are being done to systematically identify the relevant pathways in a metabolic network. Unsurprisingly, there is not a unique set of network-based pathways to be tagged as relevant, and at least four related concepts have been proposed: extreme currents, elementary modes, extreme pathways, and minimal generators. Basically, there are two properties that these sets of pathways can hold: they can generate the flux space--if every feasible flux distribution can be represented as a nonnegative combination of flux through them--or they can comprise all the nondecomposable pathways in the network. The four concepts fulfill the first property, but only the elementary modes fulfill the second one. This subtle difference has been a source of errors and misunderstandings. This paper attempts to clarify the intricate relationship between the network-based pathways performing a comparison among them.
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