KEGGconverter: a tool for the in-silico modelling of metabolic networks of the KEGG Pathways database |
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| Authors: | Konstantinos Moutselos Ioannis Kanaris Aristotelis Chatziioannou Ilias Maglogiannis and Fragiskos N Kolisis |
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| Institution: | (1) Department of Informatics with Applications in Biomedicine, University of Central Greece., Papasiopoulou 2-4, 35100 Lamia, Greece;(2) Department of Information and Communication Systems Engineering, University of the Aegean, 83200 Karlovasi, Samos, Greece;(3) Metabolic Engineering and Bioinformatics Group, Institute of Biological Research and Biotechnology, National Hellenic Research Foundation, Vassileos Konstantinou 48, 11635, Athens, Greece |
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| Abstract: | Background The KEGG Pathway database is a valuable collection of metabolic pathway maps. Nevertheless, the production of simulation capable
metabolic networks from KEGG Pathway data is a challenging complicated work, regardless the already developed tools for this
scope. Originally used for illustration purposes, KEGG Pathways through KGML (KEGG Markup Language) files, can provide complete
reaction sets and introduce species versioning, which offers advantages for the scope of cellular metabolism simulation modelling.
In this project, KEGGconverter is described, implemented also as a web-based application, which uses as source KGML files,
in order to construct integrated pathway SBML models fully functional for simulation purposes. |
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