Clémence Frioux

Elham Karimi, Enora Geslain, Arnaud Belcour, Clémence Frioux, Méziane Aite, et al.. Robustness analysis of metabolic predictions in algal microbial communities based on different annotation pipelines. PeerJ, PeerJ, 2021, 9, pp.1-24. ⟨10.7717/peerj.11344⟩. ⟨hal-03223662⟩

Falk Hildebrand, Toni Gossmann, Clémence Frioux, Ezgi Özkurt, Pernille Neve Myers, et al.. Dispersal strategies shape persistence and evolution of human gut bacteria. Cell Host & Microbe, 2021, 29 (7), pp.1167-1176.e9. ⟨10.1016/j.chom.2021.05.008⟩. ⟨hal-03438942⟩

Arnaud Belcour, Clémence Frioux, Méziane Aite, Anthony Bretaudeau, Falk Hildebrand, et al.. Metage2Metabo, microbiota-scale metabolic complementarity for the identification of key species. eLife, eLife Sciences Publication, 2020, 9, ⟨10.1101/803056⟩. ⟨hal-02395024v2⟩

Bertille Burgunter-Delamare, Hetty Kleinjan, Clémence Frioux, Enora Fremy, Margot Wagner, et al.. Metabolic Complementarity Between a Brown Alga and Associated Cultivable Bacteria Provide Indications of Beneficial Interactions. Frontiers in Marine Science, Frontiers Media, 2020, 7, pp.1-11. ⟨10.3389/fmars.2020.00085⟩. ⟨hal-02866101⟩

Mohammad Bahram, Tarquin Netherway, Clémence Frioux, Pamela Ferretti, Luis Pedro Coelho, et al.. Metagenomic assessment of the global distribution of bacteria and fungi. Environmental Microbiology, Society for Applied Microbiology and Wiley-Blackwell, 2020, ⟨10.1111/1462-2920.15314⟩. ⟨hal-03033570⟩

Clémence Frioux, Dipali Singh, Tamas Korcsmaros, Falk Hildebrand. From bag-of-genes to bag-of-genomes: metabolic modelling of communities in the era of metagenome-assembled genomes. Computational and Structural Biotechnology Journal, Elsevier, 2020, ⟨10.1016/j.csbj.2020.06.028⟩. ⟨hal-02883309⟩

Clémence Frioux, Simon Dittami, Anne Siegel. Using automated reasoning to explore the metabolism of unconventional organisms: a first step to explore host–microbial interactions. Biochemical Society Transactions, Portland Press, 2020, 48 (3), pp.901-913. ⟨10.1042/BST20190667⟩. ⟨hal-02569935⟩

Simon Dittami, Erwan Corre, Loraine Brillet-Guéguen, Agnieszka Lipinska, Noé Pontoizeau, et al.. The genome of Ectocarpus subulatus – A highly stress-tolerant brown alga. Marine Genomics, Elsevier, 2020, 52, pp.100740. ⟨10.1016/j.margen.2020.100740⟩. ⟨hal-02866117⟩

Delphine Nègre, Méziane Aite, Arnaud Belcour, Clémence Frioux, Loraine Brillet-Guéguen, et al.. Genome–Scale Metabolic Networks Shed Light on the Carotenoid Biosynthesis Pathway in the Brown Algae Saccharina japonica and Cladosiphon okamuranus. Antioxidants , MDPI, 2019, 8 (11), pp.564. ⟨10.3390/antiox8110564⟩. ⟨hal-02395080⟩

Clémence Frioux, Enora Fremy, Camille Trottier, Anne Siegel. Scalable and exhaustive screening of metabolic functions carried out by microbial consortia. Bioinformatics, Oxford University Press (OUP), 2018, 34 (17), pp.i934 - i943. ⟨10.1093/bioinformatics/bty588⟩. ⟨hal-01871600⟩

Méziane Aite, Marie Chevallier, Clémence Frioux, Camille Trottier, Jeanne Got, et al.. Traceability, reproducibility and wiki-exploration for "à-la-carte" reconstructions of genome-scale metabolic models. PLoS Computational Biology, Public Library of Science, 2018, 14 (5), pp.e1006146. ⟨10.1371/journal.pcbi.1006146⟩. ⟨hal-01807842⟩

Clémence Frioux, Torsten Schaub, Sebastian Schellhorn, Anne Siegel, Philipp Wanko. Hybrid Metabolic Network Completion. Theory and Practice of Logic Programming, Cambridge University Press (CUP), 2018, pp.1-23. ⟨10.1017/S1471068418000455⟩. ⟨hal-01936778⟩

Julie Laniau, Clémence Frioux, Jacques Nicolas, Caroline Baroukh, Maria-Paz Cortés, et al.. Combining graph and flux-based structures to decipher phenotypic essential metabolites within metabolic networks. PeerJ, PeerJ, 2017, 5, pp.e3860. ⟨10.7717/peerj.3860⟩. ⟨hal-01635688⟩

Clémence Frioux, Arnaud Belcour, Méziane Aite, Anthony Bretaudeau, Falk Hildebrand, et al.. Metabolic complementarity applied to the screening of microbiota and the identification of key species. CMSB 2021 - 19th International Conference on Computational Methods in Systems Biology, Sep 2021, Bordeaux, France. pp.1-27. ⟨hal-03440212⟩

Maxime Lecomte, David James Sherman, Hélène Falentin, Clémence Frioux, Simon Labarthe. Metabolic modelling deciphers interactions in a cheese bacterial community. Metaboday 2021, Mar 2021, Bordeaux, France. ⟨hal-03531761⟩

Clémence Frioux. Logic modelling of metabolism: from individual networks to communities. Workshop Modélisation du Métabolisme, Nov 2021, Bordeaux, France. ⟨hal-03440196⟩

Clémence Frioux, Arnaud Belcour, Meziane Aite, Anthony Bretaudeau, Falk Hildebrand, et al.. Metabolic complementarity applied to the screening of microbiota and the identification of key species. JOBIM 2021 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2021, Paris, France. ⟨hal-03440232⟩

Clémence Frioux, Arnaud Belcour, Méziane Aite, Anthony Bretaudeau, Falk Hildebrand, et al.. Metabolic complementarity applied to the screening of microbiota and the identification of key species. MPA 2021 - 8th Metabolic Pathway Analysis, Aug 2021, Knoxville, TN, United States. pp.1-27. ⟨hal-03440221⟩

Clémence Frioux, Enora Fremy, Camille Trottier, Anne Siegel. Scalable and exhaustive screening of metabolic functions carried out by microbial consortia. ECCB - 2018 - 17th European Conference on Computational Biology, Sep 2018, Athènes, Greece. pp.i934-i943. ⟨hal-01946860⟩

Claire Lippold, Camille Trottier, Clémence Frioux, Marie Chevallier, Simon M Dittami, et al.. Toward the study of metabolic functions in algal holobionts. 4ème Colloque de Génomique Environnementale, Sep 2017, Marseille, France. ⟨hal-01576484⟩

Clémence Frioux, Torsten Schaub, Sebastian Schellhorn, Anne Siegel, Philipp Wanko. Hybrid Metabolic Network Completion. 14th International Conference on Logic Programming and Nonmonotonic Reasoning - LPNMR 2017, Jul 2017, Espoo, Finland. pp.308-321. ⟨hal-01557347⟩

Marie Chevallier, Méziane Aite, Jeanne Got, Guillaume Collet, Nicolas Loira, et al.. Handling the heterogeneity of genomic and metabolic networks data within flexible workflows with the PADMet toolbox. Jobim 2016 : 17ème Journées Ouvertes en Biologie, Informatique et Mathématiques, Jun 2016, Lyon, France. ⟨hal-01377844⟩

Maxime Lecomte, David James Sherman, Hélène Falentin, Clémence Frioux, Simon Labarthe. Modelling metabolic network dynamics in a cheese bacterial community. JOBIM,Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2021, Paris, France. ⟨hal-03533781⟩

Maxime Lecomte, David James Sherman, Hélène Falentin, Clémence Frioux, Simon Labarthe. Modelling metabolic network dynamics in a cheese bacterial community. MPA, Metabolic Pathway Analysis, Aug 2021, Knoxville, United States. ⟨hal-03533786⟩

Maxime Lecomte, David James Sherman, Hélène Falentin, Clémence Frioux, Simon Labarthe. Modelling metabolic network dynamics in a cheese bacterial community. CMSB, The 19th conference on Computational Methods in Systems Biology, Sep 2021, Bordeaux, France. ⟨hal-03533795⟩

Clémence Frioux, Arnaud Belcour, Méziane Aite, Anthony Bretaudeau, Falk Hildebrand, et al.. Assessment of metabolic complementarity in large-scale microbiotas for the identification of key species. IHMC 2021 - 8th International Human Microbiome Consortium Congress, Jun 2021, Barcelone, Spain. pp.1. ⟨hal-03438983⟩

Arnaud Belcour, Clémence Frioux, Méziane Aite, Anthony Bretaudeau, Falk Hildebrand, et al.. Metage2Metabo: metabolic complementarity applied to genomes of large-scale microbiotas for the identification of keystone species. JOBIM 2020 - Journées Ouvertes de Biologie, Informatique et Mathématique, Jun 2020, Montpellier / Virtual, France. ⟨10.1101/803056⟩. ⟨hal-03151934⟩

Clémence Frioux, Sylvie Huet, Simon Labarthe, Julien Martinelli, Thibault Malou, et al.. Accelerating metabolic models evaluation with statistical metamodels: application to Salmonella infection models. 2022. ⟨hal-03635862⟩

Simon Dittami, Erwan Corre, Loraine Brillet-Guéguen, Agnieszka Lipinska, Méziane Aite, et al.. The genome of Ectocarpus subulatus -a highly stress-tolerant brown alga. 2019. ⟨hal-02333021⟩

Bertille Burgunter-Delamare, Hetty Kleinjan, Clémence Frioux, Enora Fremy, Margot Wagner, et al.. Metabolic complementarity between a brown alga and associated 1 cultivable bacteria provide indications of beneficial interactions. 2019. ⟨hal-02333039⟩