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Kreimer, A., Department of Biomedical Informatics, Columbia University, New York, NY 10032, United States
Doron-Faigenboim, A., Institute of Plant Science, Agricultural Research Organization, Bet Dagan, Israel
Borenstein, E., Department of Genome Sciences, University of Washington, Seattle, WA 98195, United States, Department of Computer Science and Engineering, University of Washington, Seattle, WA 98195, United States, Santa Fe Institute, Santa Fe, NM 87501, United States
Freilich, S., Department of Computer Science and Engineering, University of Washington, Seattle, WA 98195, United States
Summary: NetCmpt is a tool for calculating the competitive potential between pairs of bacterial species. The score describes the effective metabolic overlap (EMO) between two species, derived from analyzing the topology of the corresponding metabolic models. NetCmpt is based on the EMO algorithm, developed and validated in previous studies. It takes as input lists of species-specific enzymatic reactions (EC numbers) and generates a matrix of the potential competition scores between all pairwise combinations. © The Author 2012. Published by Oxford University Press. All rights reserved.
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NetCmpt: A network-based tool for calculating the metabolic competition between bacterial species
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Kreimer, A., Department of Biomedical Informatics, Columbia University, New York, NY 10032, United States
Doron-Faigenboim, A., Institute of Plant Science, Agricultural Research Organization, Bet Dagan, Israel
Borenstein, E., Department of Genome Sciences, University of Washington, Seattle, WA 98195, United States, Department of Computer Science and Engineering, University of Washington, Seattle, WA 98195, United States, Santa Fe Institute, Santa Fe, NM 87501, United States
Freilich, S., Department of Computer Science and Engineering, University of Washington, Seattle, WA 98195, United States
NetCmpt: A network-based tool for calculating the metabolic competition between bacterial species
Summary: NetCmpt is a tool for calculating the competitive potential between pairs of bacterial species. The score describes the effective metabolic overlap (EMO) between two species, derived from analyzing the topology of the corresponding metabolic models. NetCmpt is based on the EMO algorithm, developed and validated in previous studies. It takes as input lists of species-specific enzymatic reactions (EC numbers) and generates a matrix of the potential competition scores between all pairwise combinations. © The Author 2012. Published by Oxford University Press. All rights reserved.
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