2021
[36] Fine-tuning mitochondrial activity in Yarrowia lipolytica for citrate overproduction (da Veiga Moreira J., Jolicoeur M., Schwartz L., Peres S.) In Scientific Reports, volume accepted, 2021. [bib]
2020
[35] Cancer and Alzheimer's disease: intracellular pH scales the metabolic disorders (Schwartz L., Peres S., Jolicoeur M., da Veiga Moreira J.) In Biogerontology, volume 21, 2020. [bib] [pdf] [doi]
[34] Answer Set Programming for Computing Constraints-Based Elementary Flux Modes: Application to Escherichia coli Core Metabolism (Mahout M., Carlson R. P., Peres S.) In Processes, volume 8, 2020. [bib] [pdf] [doi]
2019
[33] Metabolic therapy inhibits tumor growth extitin extitvivo and extitin extitsilico (Da Veiga Moreira J., Hamraz M., Abolhassani M., Schwartz L., Jolicoeur M., Peres S.) In Scientific Reports, volume 9, 2019. [bib]
[32] Thermodynamic approaches in flux analysis (Peres S., Fromion V.) In Methods in Molecular Biology, 2019. [bib]
[31] Using a Hybrid Approach to Model Central Carbon Metabolism Across the Cell Cycle (Moulin Cecile, Tournier Laurent, Peres Sabine) In Hybrid Systems Biology, 2019. [bib]
[30] A kinetic metabolic study of lipid production in Chlorella protothecoides under heterotrophic condition (Ren Xiaojie, Deschenes Jean-Sebastien, Tremblay Rejean, Peres Sabine, Jolicoeur Mario) In Microbial Cell Factories, volume 18, 2019. [bib] [pdf] [doi]
2018
[29] Identifying Biomarkers of Wharton's Jelly Mesenchymal Stromal Cells Using a Dynamic Metabolic Model: The Cell Passage Effect (Laflaquiere B., Leclercq G. , Choey C., Chen J. , Peres S. , Ito C., Jolicoeur M.) In Metabolites, volume 8, 2018. [bib]
[28] Thermodynamic constraints for identifying the elementary flux modes (Peres S., Schuster S., Dague P.) In Biochemical Society Transactions, volume 46, 2018. [bib]
2017
[27] A dynamic metabolic flux analysis of ABE (acetone-butanol-ethanol) fermentation by it Clostridium acetobutylicum ATCC 824 with riboflavin as a by-product. (X. Zhao M. Kasbi J. Chen S. Peres M. Jolicoeur.) In Biotechnology \& Bioengineering, volume missing volume, 2017. [bib]
[26] How important is thermodynamics for identifying elementary flux modes ? (Peres S., Jolicoeur M., Moulin C., Dague P., Schuster S.) In Plos one, volume 12, 2017. [bib]
[25] HSM a reduced model of Central Carbon Metabolism: a dynamical approach (Beauvoit B., Colombie S., Issa R., Mazat J-P., Nazaret C. , Peres S.) In advances in Systems and Synthetic Biology, 2017. [bib]
2016
[24] The Redox Status of Cancer Cells Supports Mechanisms behind the Warburg Effect (da Veiga Moreira J., Hamraz M., Abolhassani M., Bigan E., Peres S., Pauleve L., Levy M., Steyaert J-M. , Schwartz L.) In Metabolites, volume 6, 2016. [bib]
[23] Human-Scale Metabolic Network of Central Carbon Metabolism: application to serine metabolism from glutamine in Cancer Cells (Beauvoit B., Colombie S., Issa R., Mazat J-P., Nazaret C. , Peres S.) In advances in Systems and Synthetic Biology, 2016. [bib]
[22] Minimality of Metabolic Flux Modes under Boolean Regulation Constraints (Morterol M., Dague P., Peres S., Simon L.) In Proceedings of the 12th International Workshop on Constraint-Based Methods for Bioinformatics (WCB'16), 2016. [bib]
[21] Representation systemique multi-echelle des processus biologiques de la bacterie (Henry V., Ferre A., Froidevaux C., Goelzer A., Fromion V., Cohen-Boulakia S., Derozier S., Dinh M., Fievet G., Fischer S., Gibrat J.-F., Loux V., Peres S.) In Journees francophones d'Ingenierie des Connaissances, 2016. [bib]
2015
[20] Cell Cycle Progression is Regulated by Intertwined Redox Oscillators (da Veiga Moreira J., Peres S., Steyaert J-M., Bigan E., Pauleve L., Levy M., Schwartz L.) In Theoretical biology and medical modelling, volume 12, 2015. [bib]
2014
[19] SAT-Based Metabolics Pathways Analysis without Compilation (Peres S., Morterol M., Simon L.) In Lecture Note in Bioinformatics, 2014. [bib]
[18] Systematic study of a metabolic network (Beauvoit B., Colombie S., Mazat J.P. Nazaret C., Peres S.) In advances in Systems and Synthetic Biology, 2014. [bib]
2013
[17] Elementary flux modes analysis of functional domain networks allows a better metabolic pathway interpretation (Peres S., Felicori L., Molina F.) In Plos One, volume 8, 2013. [bib]
[16] Analysis of metabolic networks using elementary flux modes (Peres S.) In advances in Systems and Synthetic Biology, 2013. [bib]
2012
[15] Global network reorganization during dynamic adaptations of Bacillus subtilis metabolism (Buescher JM, Liebermeister W, Jules M, Uhr M, Muntel J, Botella E, Hessling B, Kleijn RJ, Le Chat L, Lecointe F, Mader U, Nicolas P, Piersma S, Rugheimer F, Becher D, Bessieres P, Bidnenko E, Denham EL, Dervyn E, Devine KM, Doherty G, Drulhe S, Felicori L, Fogg MJ, Goelzer A, Hansen A, Harwood CR, Hecker M, Hubner S, Hultschig C, Jarmer H, Klipp E, Leduc A, Lewis P, Molina F, Noirot P, Peres S, Pigeonneau N, Pohl S, Rasmussen S, Rinn B, Schaffer M, Schnidder J, Schwikowski B, Van Dijl JM, Veiga P, Walsh S, Wilkinson AJ, Stelling J, Aymerich S, Sauer U.) In Science, volume 335, 2012. [bib]
2011
[14] Analysis of the variability of human normal urine by 2D-GE reveals a public and a private proteome (Molina L., Salvetat N., Ben Ameur R., Peres S., Sommerer N., Jarraya F., Ayadi H., Molina F., Granier C.) In Journal of proteomics, volume 75, 2011. [bib]
[13] ACoM: a classification method for elementary flux modes based on motif finding (Peres S., Vallee F., Beurton-Aimar M., Mazat J.P.) In Biosystems, volume 103, 2011. [bib]
2010
[12] Computing biological functions using BioPsi a formal description of biological processes based on elementary bricks of actions (Peres S., Felicori L., Rialle S., Jobard E., Molina F.) In Bioinformatics, volume 26, 2010. [bib]