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Conception d'outils bioinformatiques pour la modélisation de voies métaboliques et de leur régulation

Abstract : Current systems biology relies on high-throughput biological analysis techniques such as transcriptomics or metabolomics. However, these techniques may generate errors. By crossing results from different analysis techniques, we hope to avoid at least part of these limits. For that purpose, we started to develop a modeling platform, MPSA (Metabolic Pathways Software Analyzer). MPSA allows integrating biological data on metabolic pathways. MPSA also ensures the display of metabolic pathways graphs, the simulation of models based on ordinary differential equations systems solving and the study of network structures using elementary flux modes. We have developed several web applications allowing on the one hand to interpret biological results by using databases, and on the other hand to export these data to MPSA. The main database of this work is myKegg. It includes all human KEGG metabolic pathways and a list of synonyms for human KEGG entries. This base allows to identify metabolic pathways from a list of biological compounds and to import them in MPSA. Another database, BioNMR, has been developed to organize the data extracted from NMR spectra. Another web application named GeneProm has been developed to analyze gene promoters. A promotology protocol was developed and tested on a set of four genes coding for the four ANT (adenine nucleotide translocator) protein isoforms. Each ANT isoform has a specific expression profile and role in cell bioenergetics. The promotology study of these four genes led us to construct specific regulatory models from identified regulatory elements in their promoter sequence. Potentially co-regulated genes were deduced from these models. Then they can be exported to our MPSA platform. This whole development will be included in the project of Integrative Biology platform in the INRA Human Nutrition Unit.
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Submitted on : Wednesday, May 29, 2019 - 9:47:08 AM
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  • HAL Id : tel-02143038, version 1



Pierre-Yves Dupont. Conception d'outils bioinformatiques pour la modélisation de voies métaboliques et de leur régulation. Médecine humaine et pathologie. Université d'Auvergne - Clermont-Ferrand I, 2011. Français. ⟨NNT : 2011CLF1MM27⟩. ⟨tel-02143038⟩



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