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Impact of the species compartment definition on quantitative modeling of microbial communities

https://doi.org/10.1101/018010
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Outgoing claims: the papers this work cites, builds on, or argues with.

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Dynamic flux balance modeling of microbial co‐cultures for efficient batch fermentation of glucose and xylose mixtures
inferredcites →https://doi.org/10.1007/s00285-013-0731-1openalex-snapshot
Flux modules in metabolic networks
inferredcites →https://doi.org/10.1016/j.copbio.2011.04.018openalex-snapshot
Ecosystems biology of microbial metabolism
inferredcites →https://doi.org/10.1016/j.copbio.2012.10.001openalex-snapshot
A systems biology approach to studying the role of microbes in human health
inferredcites →https://doi.org/10.1021/sb4001307openalex-snapshot
d-OptCom: Dynamic Multi-level and Multi-objective Metabolic Modeling of Microbial Communities
inferredcites →https://doi.org/10.1038/msb.2010.66openalex-snapshot
Emergent cooperation in microbial metabolism
inferredcites →https://doi.org/10.1038/msb.2011.6openalex-snapshot
Toward molecular trait‐based ecology through integration of biogeochemical, geographical and metagenomic data
inferredcites →https://doi.org/10.1038/msb4100131openalex-snapshot
Metabolic modeling of a mutualistic microbial community
inferredcites →https://doi.org/10.1038/nbt.2870openalex-snapshot
Optimizing genome-scale network reconstructions
inferredcites →https://doi.org/10.1038/nrmicro2763openalex-snapshot
A road map for the development of community systems (CoSy) biology
inferredcites →https://doi.org/10.1038/srep00580openalex-snapshot
Optimal flux spaces of genome-scale stoichiometric models are determined by a few subnetworks
inferredcites →https://doi.org/10.1038/srep02532openalex-snapshot
Understanding the interactions between bacteria in the human gut through metabolic modeling
inferredcites →https://doi.org/10.1073/pnas.1100358109openalex-snapshot
Reconstruction of Arabidopsis metabolic network models accounting for subcellular compartmentalization and tissue-specificity
inferredcites →https://doi.org/10.1111/mec.12670openalex-snapshot
A metabolic approach to study algal–bacterial interactions in changing environments
inferredcites →https://doi.org/10.1142/9781848165786_0005openalex-snapshot
THE IMPORTANCE OF COMPARTMENTALIZATION IN METABOLIC FLUX MODELS: YEAST AS AN ECOSYSTEM OF ORGANELLES
inferredcites →https://doi.org/10.1146/annurev-marine-120709-142848openalex-snapshot
Modeling Diverse Communities of Marine Microbes
inferredcites →https://doi.org/10.1186/1471-2105-11-213openalex-snapshot
BiGG: a Biochemical Genetic and Genomic knowledgebase of large scale metabolic reconstructions
inferredcites →https://doi.org/10.1186/1752-0509-3-114openalex-snapshot
In silico approaches to study mass and energy flows in microbial consortia: a syntrophic case study
inferredcites →https://doi.org/10.1186/1752-0509-5-167openalex-snapshot
A computational exploration of bacterial metabolic diversity identifying metabolic interactions and growth-efficient strain communities
inferredcites →https://doi.org/10.1186/1752-0509-5-180openalex-snapshot
A multi-tissue type genome-scale metabolic network for analysis of whole-body systems physiology
inferredcites →https://doi.org/10.1371/journal.pbio.1001177openalex-snapshot
A Holistic Approach to Marine Eco-Systems Biology
inferredcites →https://doi.org/10.1371/journal.pcbi.1002363openalex-snapshot
OptCom: A Multi-Level Optimization Framework for the Metabolic Modeling and Analysis of Microbial Communities
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