Clémence Frioux Research scientist at Inria

Identifiants chercheurs

IdHAL :

clemence-frioux

ORCID :

0000-0003-2114-0697

IdRef :

234416432

Publications

Article dans une revue (25)

Seed2LP: seed inference in metabolic networks for reverse ecology applications Chabname Ghassemi Nedjad,Mathieu Bolteau,Lucas Bourneuf,Loïc Paulevé,Clémence Frioux Bioinformatics, 2025, 41 (4), pp.btaf140. ⟨10.1093/bioinformatics/btaf140⟩ Article dans une revue hal-04713829v1
Detecting signatures underlying the composition of biological data Anthony Duncan,Wing Koon,Katarzyna Sidorczuk,Christopher Quince,Clémence Friouxet al. Nucleic Acids Research, 2025, 53 (22), pp.gkaf1388. ⟨10.1093/nar/gkaf1388⟩ Article dans une revue hal-05451323v1
Modeling the emergent metabolic potential of soil microbiomes in Atacama landscapes Constanza M Andreani-Gerard,Natalia E Jiménez,Ricardo Palma,Coralie Muller,Pauline Hamon-Giraudet al. Environmental Microbiome, 2025, 20 (142), pp.1-19. ⟨10.1186/s40793-025-00749-8⟩ Article dans une revue hal-05368332v1
Mapler: a pipeline for assessing assembly quality in taxonomically rich metagenomes sequenced with HiFi reads Nicolas Maurice,Claire Lemaitre,Riccardo Vicedomini,Clémence Frioux Bioinformatics, 2025, 41 (6), pp.btaf334. ⟨10.1093/bioinformatics/btaf334⟩ Article dans une revue hal-05288241v1
Revealing the dynamics and mechanisms of bacterial interactions in cheese production with metabolic modelling Maxime Lecomte,Wenfan Cao,Julie Aubert,David James Sherman,Hélène Falentinet al. Metabolic Engineering, 2024, 83, pp.24 - 38. ⟨10.1016/j.ymben.2024.02.014⟩ Article dans une revue hal-04509395v1
Community-scale models of microbiomes: articulating metabolic modelling and metagenome sequencing Klara Cerk,Pablo Ugalde-Salas,Chabname Ghassemi Nedjad,Maxime Lecomte,Coralie Mulleret al. Microbial Biotechnology, 2024, ⟨10.1111/1751-7915.14396⟩ Article dans une revue hal-04409251v1
Insights into the potential for mutualistic and harmful host‐microbe interactions affecting brown alga freshwater acclimation Hetty Kleinjan,Clémence Frioux,Gianmaria Califano,Méziane Aite,Enora Fremyet al. Molecular Ecology, In press, 32 (3), pp.703-723. ⟨10.1111/mec.16766⟩ Article dans une revue hal-03868898v1
Inferring and comparing metabolism across heterogeneous sets of annotated genomes using AuCoMe Arnaud Belcour,Jeanne Got,Méziane Aite,Ludovic Delage,Jonas Collénet al. Genome Research, 2023, 33, pp.972 - 987. ⟨10.1101/gr.277056.122⟩ Article dans une revue hal-04192851v3
Enterosignatures define common bacterial guilds in the human gut microbiome Clémence Frioux,Rebecca Ansorge,Ezgi Özkurt,Chabname Ghassemi Nedjad,Joachim Fritscheret al. Cell Host & Microbe, 2023, 31 (7), pp.1111. ⟨10.1016/j.chom.2023.05.024⟩ Article dans une revue hal-04141300v1
The functional microbiome of grapevine throughout plant evolutionary history and lifetime Paola Fournier,Lucile Pellan,Didac Barroso-Bergadà,David Bohan,Thierry Candresseet al. Advances in Ecological Research, 2022, Advances in Ecological Research, 67, pp.27-99. ⟨10.1016/bs.aecr.2022.09.001⟩ Article dans une revue (article de synthèse) hal-03858395v1
Dispersal strategies shape persistence and evolution of human gut bacteria Falk Hildebrand,Toni I Gossmann,Clémence Frioux,Ezgi Özkurt,Pernille Neve Myerset al. Cell Host & Microbe, 2021, 29 (7), pp.1167-1176.e9. ⟨10.1016/j.chom.2021.05.008⟩ Article dans une revue hal-03438942v1
Robustness analysis of metabolic predictions in algal microbial communities based on different annotation pipelines Elham Karimi,Enora Geslain,Arnaud Belcour,Clémence Frioux,Méziane Aiteet al. PeerJ, 2021, 9, pp.1-24. ⟨10.7717/peerj.11344⟩ Article dans une revue hal-03223662v1
Metagenomic assessment of the global distribution of bacteria and fungi Mohammad Bahram,Tarquin Netherway,Clémence Frioux,Pamela Ferretti,Luis Pedro Coelhoet al. Environmental Microbiology, 2020, ⟨10.1111/1462-2920.15314⟩ Article dans une revue hal-03033570v1
Metabolic Complementarity Between a Brown Alga and Associated Cultivable Bacteria Provide Indications of Beneficial Interactions Bertille Burgunter-Delamare,Hetty Kleinjan,Clémence Frioux,Enora Fremy,Margot Wagneret al. Frontiers in Marine Science, 2020, 7, pp.1-11. ⟨10.3389/fmars.2020.00085⟩ Article dans une revue hal-02866101v2
From bag-of-genes to bag-of-genomes: metabolic modelling of communities in the era of metagenome-assembled genomes Clémence Frioux,Dipali Singh,Tamas Korcsmaros,Falk Hildebrand Computational and Structural Biotechnology Journal, 2020, ⟨10.1016/j.csbj.2020.06.028⟩ Article dans une revue hal-02883309v1
Metage2Metabo, microbiota-scale metabolic complementarity for the identification of key species Arnaud Belcour,Clémence Frioux,Méziane Aite,Anthony Bretaudeau,Falk Hildebrandet al. eLife, 2020, 9, ⟨10.7554/eLife.61968⟩ Article dans une revue hal-02395024v2
The genome of Ectocarpus subulatus – A highly stress-tolerant brown alga Simon M. Dittami,Erwan Corre,Loraine Brillet-Guéguen,Agnieszka Lipinska,Noé Pontoizeauet al. Marine Genomics, 2020, 52, pp.100740. ⟨10.1016/j.margen.2020.100740⟩ Article dans une revue hal-02866117v1
Using automated reasoning to explore the metabolism of unconventional organisms: a first step to explore host–microbial interactions Clémence Frioux,Simon Dittami,Anne Siegel Biochemical Society Transactions, 2020, 48 (3), pp.901-913. ⟨10.1042/BST20190667⟩ Article dans une revue hal-02569935v1
Genome–Scale Metabolic Networks Shed Light on the Carotenoid Biosynthesis Pathway in the Brown Algae Saccharina japonica and Cladosiphon okamuranus Delphine Nègre,Méziane Aite,Arnaud Belcour,Clémence Frioux,Loraine Brillet-Guéguenet al. Antioxidants , 2019, 8 (11), pp.564. ⟨10.3390/antiox8110564⟩ Article dans une revue hal-02395080v1
Hybrid Metabolic Network Completion Clémence Frioux,Torsten Schaub,Sebastian Schellhorn,Anne Siegel,Philipp Wanko Theory and Practice of Logic Programming, 2018, pp.1-23. ⟨10.1017/S1471068418000455⟩ Article dans une revue hal-01936778v1
Traceability, reproducibility and wiki-exploration for &quot;à-la-carte&quot; reconstructions of genome-scale metabolic models Méziane Aite,Marie Chevallier,Clémence Frioux,Camille Trottier,Jeanne Gotet al. PLoS Computational Biology, 2018, 14 (5), pp.e1006146. ⟨10.1371/journal.pcbi.1006146⟩ Article dans une revue hal-01807842v1
Scalable and exhaustive screening of metabolic functions carried out by microbial consortia Clémence Frioux,Enora Fremy,Camille Trottier,Anne Siegel Bioinformatics, 2018, 34 (17), pp.i934-i943. ⟨10.1093/bioinformatics/bty588⟩ Article dans une revue hal-01871600v1
Combining graph and flux-based structures to decipher phenotypic essential metabolites within metabolic networks Julie Laniau,Clémence Frioux,Jacques Nicolas,Caroline Baroukh,Maria-Paz Cortéset al. PeerJ, 2017, 5, pp.e3860. ⟨10.7717/peerj.3860⟩ Article dans une revue hal-01635688v1
Meneco, a Topology-Based Gap-Filling Tool Applicable to Degraded Genome-Wide Metabolic Networks Sylvain Prigent,Clémence Frioux,Simon M Dittami,Sven Thiele,Abdelhalim Larhlimiet al. PLoS Computational Biology, 2017, 13 (1), pp.32. ⟨10.1371/journal.pcbi.1005276⟩ Article dans une revue hal-01449100v1
Crystal structure and biochemical characterization of a manganese superoxide dismutase from Chaetomium thermophilum Teemu Haikarainen,Clémence Frioux,Li-Qing Zhnag,Duo-Chuan Li,Anastassios Papageorgiou Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, 2014, 1844 (2), pp.422-429. ⟨10.1016/j.bbapap.2013.11.014⟩ Article dans une revue hal-04678021v1

Communication dans un congrès (23)

Seed Inference in Interacting Microbial Communities Using Combinatorial Optimization Chabname Ghassemi Nedjad,Sebastián Nelson Mendoza,Clémence Frioux,Loïc Paulevé CMSB 2025 - 23rd International Conference on Computational Methods in Systems Biology, François Fages, Inria Saclay, co-PC chair; Sabine Peres, Univ. Lyon, co-PC chair, Sep 2025, Villeurbanne - Lyon, France. pp.370-387, ⟨10.1007/978-3-032-01436-8_20⟩ Communication dans un congrès hal-05230510v1
Cross-Feeding interaction within microcystis phycosphere: New perspectives from the combination of metagenomics, metametabolomics and genome-scale metabolic modeling approaches Juliette Audemard,Mohamed Mouffok,Charlotte Duval,Jeanne Got,Sebastien Halaryet al. METABOLOMICS 2025 - 21st Annual International Conference of the Metabolomics Society, METABOLOMICS SOCIETY, Jun 2025, Prague, Czech Republic Communication dans un congrès hal-05498130v1
Development of a microfluidic quantitative PCR chip to monitor the dynamics of a synthetic microbial community on grapevine with potential biocontrol effects against downy mildew Manon Chargy,Marie-Cecile Dufour,Aarti Jaswa,Valerie Martin,Sarah Audureauet al. Apéro VITAE - webinaire interne, VITAE (Léa Cabrol-Froget), Feb 2025, Villenave-d'Ornon, France Communication dans un congrès hal-05108055v1
Metagenome-scale metabolic modelling for the characterization of cross-feeding interactions in freshwater cyanobacteria-associated microbial communities Juliette Audemard,Nicolas Creusot,Julie Leloup,Charlotte Duval,Sébastien Halaryet al. JOBIM 2025 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2025, Bordeaux, France Communication dans un congrès hal-05281552v1
Revealing the dynamics and mechanisms of bacterial interactions in cheese production with metabolic modelling 6 may 2025 / Modélisation du microbiome David James Sherman,Hélène Falentin,Clémence Frioux,Simon Labarthe,Maxime Lecomte NEM 2025 - Journées Nutrition & Ecologie Microbienne, workshop modélisation du microbiome, May 2025, Rennes (Distanciel), France Communication dans un congrès hal-05059688v1
Investigating pre-assembly clustering of HiFi reads for de novo assembly of complex metagenomes Nicolas Maurice,Claire Lemaitre,Clémence Frioux,Riccardo Vicedomini SeqBIM, Nov 2025, Nantes, France Communication dans un congrès hal-05444605v1
Assessing assembly quality in metagenomes of increasing complexity sequenced with HiFi long reads Nicolas Maurice,Clémence Frioux,Claire Lemaitre,Riccardo Vicedomini 2024 - 24th Genome Informatics meeting, Nov 2024, Hinxton, United Kingdom. pp.1-21 Communication dans un congrès hal-04822870v1
Modelling the dynamics of Salmonella infection in the gut at the bacterial and host levels Coralie Muller,Pablo Ugalde Salas,Rafael Kaempfer,Arie Wortsman,Simon Labartheet al. SBMI 2023 - 7th International Symposium on Systems Biology of Microbial Infection, Sep 2023, Jena, Germany Communication dans un congrès hal-04229116v1
Accelerating metabolic models evaluation with statistical metamodels: application to Salmonella infection models Clémence Frioux,Sylvie Huet,Simon Labarthe,Julien Martinelli,Thibault Malouet al. CEMRACS 2021 - Data Assimilation and Reduced Modeling for High Dimensional Problems, Jul 2021, Luminy (CIRM, Centre International de Rencontres Mathématiques), France. pp.187-217, ⟨10.1051/proc/202373187⟩ Communication dans un congrès hal-03635862v2
A logic programming exploration of metabolic networks to explain microbial community models Chabname Ghassemi Nedjad,Loïc Paulevé,Clémence Frioux GT Bioss 2022 - Journée annuelle du Groupe de Travail sur la Biologie Systémique Symbolique, Nov 2022, Nantes, France Communication dans un congrès hal-03910483v1
Metatranscriptomics and metabolic modeling to identify bacterial metabolic interactions during the manufacture of a model pressed cheese. Wenfan Cao,Maxime Lecomte,Solène Le Fur,Julie J. Aubert,Marie-Bernadette Maillardet al. FOODMICRO 2022, Aug 2022, Athènes, Greece Communication dans un congrès hal-03781287v1
Métatranscriptomique et modèle métabolique pour identifier la succession des métabolismes bactériens en interaction lors de la fabrication d’un fromage modèle à pâte pressée. Wenfan Cao,Maxime Lecomte,Solène Le Fur,Julie J. Aubert,Marie-Bernadette Maillardet al. 23ème édition du colloque du Club des Bactéries Lactiques, UMR INRAE - Institut Agro STLO (Science et Technologie du Lait et de l’Œuf), Jun 2022, Rennes, France Communication dans un congrès hal-03694338v1
Characterizing microbial interactions in controlled and natural microbial communities Maxime Lecomte,Simon Labarthe,David James Sherman,Hélène Falentin,Clémence Frioux Workshop SymBioDiversity, May 2022, Santiago, Chile Communication dans un congrès hal-03857848v2
Reasoning approaches for the characterization of cooperation and competition in large-scale microbial communities Maxime Lecomte,David James Sherman,Hélène Falentin,Clémence Frioux Journée GT Bioss 2022, Nov 2022, Nantes, France Communication dans un congrès hal-03857781v1
Logic modelling of metabolism: from individual networks to communities Clémence Frioux Workshop Modélisation du Métabolisme, Nov 2021, Bordeaux, France Communication dans un congrès hal-03440196v1
Metabolic complementarity applied to the screening of microbiota and the identification of key species Clémence Frioux,Arnaud Belcour,Méziane Aite,Anthony Bretaudeau,Falk Hildebrandet al. CMSB 2021 - 19th International Conference on Computational Methods in Systems Biology, Sep 2021, Bordeaux, France. pp.1-27 Communication dans un congrès hal-03440212v1
Metabolic modelling deciphers interactions in a cheese bacterial community Maxime Lecomte,David James Sherman,Hélène Falentin,Clémence Frioux,Simon Labarthe Metaboday 2021, Mar 2021, Bordeaux, France Communication dans un congrès hal-03531761v1
Metabolic complementarity applied to the screening of microbiota and the identification of key species Clémence Frioux,Arnaud Belcour,Méziane Aite,Anthony Bretaudeau,Falk Hildebrandet al. MPA 2021 - 8th Metabolic Pathway Analysis, Aug 2021, Knoxville, TN, United States. pp.1-27 Communication dans un congrès hal-03440221v1
Metabolic complementarity applied to the screening of microbiota and the identification of key species Clémence Frioux,Arnaud Belcour,Meziane Aite,Anthony Bretaudeau,Falk Hildebrandet al. JOBIM 2021 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2021, Paris, France Communication dans un congrès hal-03440232v1
Scalable and exhaustive screening of metabolic functions carried out by microbial consortia Clémence Frioux,Enora Fremy,Camille Trottier,Anne Siegel ECCB - 2018 - 17th European Conference on Computational Biology, Sep 2018, Athènes, Greece. pp.i934-i943, ⟨10.1093/bioinformatics/bty588⟩ Communication dans un congrès hal-01946860v1
Hybrid Metabolic Network Completion Clémence Frioux,Torsten Schaub,Sebastian Schellhorn,Anne Siegel,Philipp Wanko 14th International Conference on Logic Programming and Nonmonotonic Reasoning - LPNMR 2017, Jul 2017, Espoo, Finland. pp.308-321 Communication dans un congrès hal-01557347v1
Toward the study of metabolic functions in algal holobionts Claire Lippold,Camille Trottier,Clémence Frioux,Marie Chevallier,Simon M Dittamiet al. 4ème Colloque de Génomique Environnementale, Sep 2017, Marseille, France Communication dans un congrès hal-01576484v1
Handling the heterogeneity of genomic and metabolic networks data within flexible workflows with the PADMet toolbox Marie Chevallier,Méziane Aite,Jeanne Got,Guillaume Collet,Nicolas Loiraet al. Jobim 2016 : 17ème Journées Ouvertes en Biologie, Informatique et Mathématiques, Jun 2016, Lyon, France Communication dans un congrès hal-01377844v1

Poster de conférence (27)

Seed2LP: seed inference in metabolic networks for reverse ecology applications Chabname Ghassemi Nedjad,Clémence Frioux,Loïc Paulevé JOBIM 2025 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2025, Bordeaux, France Poster de conférence hal-05446736v1
Mapler: Assessing assembly quality in taxonomically-rich metagenomes sequenced with HiFi reads Nicolas Maurice,Clémence Frioux,Claire Lemaitre,Riccardo Vicedomini 2025 - Journées scientifiques Agroécologie et Numérique, Jan 2025, Dijon, France. , pp.1-1, 2025 Poster de conférence hal-04941137v1
Generation of metabolomic-informed models of metabolism for microbial communities Coralie Muller,Sylvain Prigent,Clémence Frioux COMPSYSBIO 2025 - Advanced Lecture Course on Computational Systems Biology, Oct 2025, Aussois, France. Poster de conférence hal-05304541v1
Generation of metabolomic-informed models of metabolism in complex microbial communities Coralie Muller,Sylvain Prigent,Clémence Frioux Journées scientifiques Agroécologie et Numérique 2025, Jan 2025, Dijon, France. Poster de conférence hal-04919231v1
Enhancing Microbial Genome Reconstruction in Complex Environments by combining Short-and Long-read Sequencing Carole Belliardo,Arthur Péré,Alain Franc,Jean-Marc Frigerio,Nicolas Mauriceet al. 2025 - Journées scientifiques Agroécologie et Numérique, Jan 2025, Dijon, France. , pp.1-1, 2025 Poster de conférence hal-04920790v1
Generation of metabolomic-informed models of metabolism for microbial communities Coralie Muller,Sylvain Prigent,Clémence Frioux JOBIM 2025 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2025, Talence, France Poster de conférence hal-05161904v1
Generation of metabolomic-informed models of metabolism for microbial communities Coralie Muller,Sylvain Prigent,Clémence Frioux Metaboday 2025, Sep 2025, Talence (33), France. Poster de conférence hal-05304536v1
Generation of metabolomic-informed models of metabolism in complex microbial communities Coralie Muller,Sylvain Prigent,Clémence Frioux Journées Jeunes Chercheurs Chercheuses du département BAP de INRAE, May 2025, Villenave d'Ornon, France Poster de conférence hal-05073304v1
Metage2Metabo-PostAViz: exploring and visualising the wealth of metabolic modelling predictions to compare microbial communities Léonard Brindel,Clémence Frioux JOBIM 2025 – Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2025, Bordeaux, France Poster de conférence hal-05447268v1
Unraveling gut microbiome latent structures: enterosignatures and microbial guilds Mathilde Sola,Emmanuelle Le Chatelier,Florian Plaza Oñate,. Le French Gut Consortium,Patrick Veigaet al. JOBIM 2025 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2025, Bordeaux, France Poster de conférence hal-05304291v1
Exploring and quantifying the soil genetic diversity captured by long and short-read shotgun metagenomic sequencing Carole Belliardo,Samuel Mondy,Arthur Pere,Claire Lemaitre,Riccardo Vicedominiet al. Journées 2024 du programme Agroécologie et Numérique, Jan 2024, Rennes, France. , pp.1-1, 2024 Poster de conférence hal-04423917v1
Metagenomic assembly of complex ecosystems with highly accurate long-reads Nicolas Maurice,Claire Lemaitre,Clémence Frioux,Riccardo Vicedomini Journées 2024 du PEPR Agroécologie et Numérique, Jan 2024, Rennes, France. pp.1-1, 2024 Poster de conférence hal-04425626v1
Metagenome-scale metabolic modelling for the characterization of cross-feeding interactions in Microcystis-associated microbial communities, in the context of freshwater cyanobacterial blooms Juliette Audemard,Sébastien Halary,Gabriel Markov,Jeanne Got,Anne Siegelet al. JOBIM 2024 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jun 2024, Toulouse, France. pp.1-1, 2024 Poster de conférence hal-04654522v1
Unlocking the Soil Microbiome: Unraveling Soil Microbial Complexity Using Long-Read Metagenomics Carole Belliardo,Nicolas Maurice,Clémence Frioux,Claire Lemaitre,Riccardo Vicedominiet al. EAGS 2024 - The International Environmental and Agronomical Genomics symposium, Feb 2024, Toulouse, France. , pp.1-1, 2024 Poster de conférence hal-04509213v1
Modelling the dynamics of Salmonella infection in the gut at the bacterial and host levels Coralie Muller,Pablo Ugalde Salas,Rafael Kaempfer,Arie Wortsman,Simon Labartheet al. ISMB/ECCB 2023 - 31st Annual Intelligent Systems For Molecular Biology and the 22nd Annual European Conference on Computational Biology, Jul 2023, Lyon, France. Poster de conférence hal-04183811v1
Logic and linear programming for seed identiﬁcation in metabolic networks Chabname Ghassemi Nedjad,Clémence Frioux,Loïc Paulevé Biorégul 2023 - Modélisation Formelle de Réseaux de Régulation Biologique, Jun 2023, Porquerolles (Hyères), France. pp.1-1, 2023 Poster de conférence hal-04328778v1
Modelling the dynamics of Salmonella infection in the gut at the bacterial and host levels Coralie Muller,Pablo Ugalde Salas,Rafael Kaempfer,Arie Wortsman,Simon Labartheet al. SBMI 2023 - 7th International Symposium on Systems Biology of Microbial Infection, Sep 2023, Jena, Germany. Poster de conférence hal-04229130v1
Dynamic Flux Balance Analysis with Metamodels Clémence Frioux,Sylvie Huet,Simon Labarthe,Julien Martinelli,Thibault Malouet al. JOBIM 2022 - Les Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2022, Rennes, France. Poster de conférence hal-04236775v1
Modelling the dynamics of Salmonella infection in the gut at the bacterial and the host level Coralie Muller,Arie Wortsman,Pablo Ugalde-Salas,Clémence Frioux,Simon Labarthe Microbial communities: current approaches and open challenges, Oct 2022, Cambridge, United Kingdom Poster de conférence hal-03839405v1
Analyzing and modelling functions carried by key species in minimal microbial communities Chabname Ghassemi Nedjad,Clémence Frioux JOBIM 2022 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2022, Rennes, France Poster de conférence hal-03910438v1
Characterising competition and cooperation potentials in microbial communities using discrete models of metabolism. An exploratory analysis Maxime Lecomte,David James Sherman,Hélène Falentin,Clémence Frioux JOBIM 2022 - JOURNÉES OUVERTES EN BIOLOGIE, INFORMATIQUE ET MATHÉMATIQUES, Jul 2022, Rennes, France Poster de conférence hal-03839337v1
Modelling the dynamics of Salmonella infection in the gut at the bacterial and host levels Coralie Muller,Arie Wortsman,Pablo Ugalde-Salas,Clémence Frioux,Simon Labarthe JOBIM 2022 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2022, Rennes, France Poster de conférence hal-03839374v1
Modelling metabolic network dynamics in a cheese bacterial community Maxime Lecomte,David James Sherman,Hélène Falentin,Clémence Frioux,Simon Labarthe CMSB, The 19th conference on Computational Methods in Systems Biology, Sep 2021, Bordeaux, France Poster de conférence hal-03533795v1
Modelling metabolic network dynamics in a cheese bacterial community Maxime Lecomte,David James Sherman,Hélène Falentin,Clémence Frioux,Simon Labarthe MPA, Metabolic Pathway Analysis, Aug 2021, Knoxville, United States Poster de conférence hal-03533786v1
Assessment of metabolic complementarity in large-scale microbiotas for the identification of key species Clémence Frioux,Arnaud Belcour,Méziane Aite,Anthony Bretaudeau,Falk Hildebrandet al. IHMC 2021 - 8th International Human Microbiome Consortium Congress, Jun 2021, Barcelone, Spain. pp.1 Poster de conférence hal-03438983v1
Modelling metabolic network dynamics in a cheese bacterial community Maxime Lecomte,David James Sherman,Hélène Falentin,Clémence Frioux,Simon Labarthe JOBIM,Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2021, Paris, France Poster de conférence hal-03533781v1
Metage2Metabo: metabolic complementarity applied to genomes of large-scale microbiotas for the identification of keystone species Arnaud Belcour,Clémence Frioux,Méziane Aite,Anthony Bretaudeau,Falk Hildebrandet al. JOBIM 2020 - Journées Ouvertes de Biologie, Informatique et Mathématique, Jun 2020, Montpellier / Virtual, France. ⟨10.1101/803056⟩ Poster de conférence hal-03151934v1

Chapitre d'ouvrage (1)

Problèmes d'optimisation combinatoire pour l'étude du métabolisme Clémence Frioux,Anne Siegel Approches symboliques de la modélisation et de l’analyse des systèmes biologiques, ISTE éditions, 2022, Encyclopédie Sciences, 9781789480290. ⟨10.51926/ISTE.9029.ch2⟩ Chapitre d'ouvrage hal-03885249v1

Pré-publication, Document de travail (9)

MetaNetMap: automatic mapping of metabolomic data onto metabolic networks Coralie Muller,Juliette Audemard,Sylvain Prigent,Clémence Frioux 2026 Pré-publication, Document de travail hal-05447092v1
Prediction of source nutrients for microorganisms using metabolic networks Olivia Bulka,Chabname Ghassemi Nedjad,Loïc Paulevé,Sylvain Prigent,Clémence Frioux 2026 Pré-publication, Document de travail hal-05533988v1
Mapler: Assessing assembly quality in taxonomically rich metagenomes sequenced with HiFi reads Nicolas Maurice,Claire Lemaitre,Clémence Frioux,Riccardo Vicedomini 2025 Pré-publication, Document de travail hal-04993862v1
Estimating consensus proteomes and metabolic functions from taxonomic affiliations Arnaud Belcour,Pauline Hamon-Giraud,Alice Mataigne,Baptiste Ruiz,Yann Le Cunffet al. 2025 Pré-publication, Document de travail hal-03697249v2
NeighborFinder: an R package inferring local microbial network around a species of interest Mathilde Sola,Adrien Paravel,Sandrine Auger,Jean-Marc Chatel,Florian Plaza-Oñateet al. 2026 Pré-publication, Document de travail hal-05408767v2
Accurate MAG reconstruction from complex soil microbiome through combined short- and HiFi long-reads metagenomics Carole Belliardo,Nicolas Maurice,Arthur Pere,Samuel Mondy,Alain Francet al. 2025 Pré-publication, Document de travail hal-05340126v1
Modeling the emergent metabolic potential of soil microbiomes in Atacama landscapes Constanza M Andreani-Gerard,Natalia E Jiménez,Ricardo Palma,Coralie Muller,Pauline Hamon-Giraudet al. 2024 Pré-publication, Document de travail hal-04854948v1
Revealing the dynamics and mechanisms of bacterial interactions in cheese production with metabolic modelling Maxime Lecomte,Wenfan Cao,Julie J. Aubert,David James Sherman,Hélène Falentinet al. 2023 Pré-publication, Document de travail hal-04088301v2
The genome of Ectocarpus subulatus -a highly stress-tolerant brown alga Simon M. Dittami,Erwan Corre,Loraine Brillet-Guéguen,Agnieszka Lipinska,Méziane Aiteet al. 2019 Pré-publication, Document de travail hal-02333021v1

HDR (1)

Machine reasoning, dimensionality reduction, and numerical modelling for exploring microbial community metabolism Clémence Frioux Computer Science [cs]. Université de Bordeaux, 2025 HDR tel-05285483v1