SynthesisGenome biology2012
MetaMerge: scaling up genome-scale metabolic reconstructions with application to Mycobacterium tuberculosis.
Synthesis in Genome biology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed.
- Selecting methods for draft GEM generation in multicellular eukaryotes: a comparative analysis.BMC bioinformatics · 2026Article
- Reducing redundancy and enhancing accuracy through a phylogenetically-informed microbial community metabolic modeling approach.Bioinformatics (Oxford, England) · 2025Article
- Differential producibility analysis reveals drug-associated carbon and nitrogen metabolite expressions in Mycobacterium tuberculosis.The Journal of biological chemistry · 2025Article
- Enhancing genome-scale metabolic models with kinetic data: resolving growth and citramalate production trade-offs inBioinformatics advances · 2025Article
- Comparative analysis of metabolic models of microbial communities reconstructed from automated tools and consensus approaches.NPJ systems biology and applications · 2024Article
- Article
- Microbiome modeling: a beginner's guide.Frontiers in microbiology · 2024Review
- From Spatial-Temporal Multiscale Modeling to Application: Bridging the Valley of Death in Industrial Biotechnology.Bioengineering (Basel, Switzerland) · 2023Review
- COMMIT: Consideration of metabolite leakage and community composition improves microbial community reconstructions.PLoS computational biology · 2022Article
- A systematic evaluation of Mycobacterium tuberculosis Genome-Scale Metabolic Networks.PLoS computational biology · 2020Article
- Towards dynamic genome-scale models.Briefings in bioinformatics · 2019Article
- Article
- Updated and standardized genome-scale reconstruction of Mycobacterium tuberculosis H37Rv, iEK1011, simulates flux states indicative of physiological conditions.BMC systems biology · 2018Article
- Metabolic adaptation of two in silico mutants of Mycobacterium tuberculosis during infection.BMC systems biology · 2017Article
- Efficient Reconstruction of Predictive Consensus Metabolic Network Models.PLoS computational biology · 2016Article
- Metabolic modeling predicts metabolite changes in Mycobacterium tuberculosis.BMC systems biology · 2015Article
- Systems Biology Approaches to Understand Natural Products Biosynthesis.Frontiers in bioengineering and biotechnology · 2015Review
- Reconciliation of metabolites and biochemical reactions for metabolic networks.Briefings in bioinformatics · 2014Review
- Functional genomics of Plasmodium falciparum using metabolic modelling and analysis.Briefings in functional genomics · 2013Article
- Consensus and conflict cards for metabolic pathway databases.BMC systems biology · 2013Article
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
Reconstructed models of metabolic networks are widely used for studying metabolism in various organisms. Many different reconstructions of the same organism often exist concurrently, forcing researchers to choose one of them at the exclusion of the others. We describe MetaMerge, an algorithm for semi-automatically reconciling a pair of existing metabolic network reconstructions into a single metabolic network model. We use MetaMerge to combine two published metabolic networks for Mycobacterium tuberculosis into a single network, which allows many reactions that could not be active in the individual models to become active, and predicts essential genes with a higher positive predictive value.
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Registered trials
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