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Master Thesis Year : 2019

Linear programming for metabolic network completion

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Abstract

Metabolic networks are a helpful tool to represent cells. They contain information about every reaction occurring inside an organism. However, metabolic networks of poorly studied species are incomplete. It is possible to complete these networks with knowledge of other well-known species. In this paper, we present a new linear programming approach for the problem of topological activation in metabolic networks based on flows and MTZ. We developed our tool Flutampl with AMPL. Flutampl completes draft networks thanks to the hybrid completion method as formulated by C. Frioux et al [4]. It returns optimal solutions for the hybrid completion directly from sbml files, data format used for modelling metabolic networks.
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Dates and versions

hal-02408003 , version 1 (12-12-2019)

Identifiers

  • HAL Id : hal-02408003 , version 1

Cite

Kerian Thuillier. Linear programming for metabolic network completion. Bioinformatics [q-bio.QM]. 2019. ⟨hal-02408003⟩
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