Simon Labarthe Directeur de recherche INRAE

Identifiants chercheurs

IdHAL :

simon-labarthe

ORCID :

0000-0002-5463-7256

IdRef :

175410852

Présentation

https://slabarthe.pages-forge.inrae.fr/website/

2024 - ... : directeur de recherche dans l'équipe Pléiade. Inrae (Biogeco) - Inria (Bordeaux Sud-Ouest) team.

2020 - 2024 : chargé de recherche dans l'équipe Pléiade. Inrae (Biogeco) - Inria (Bordeaux Sud-Ouest) team.

2019-2020 : visteur à UC Davis dans le laboratoire d'A.Bäumler.

2014-2019 : chargé de recherche à MaIAGE. Inrae (Jouy-en-Josas).

2010-2014 : Phd + ATER dans l'équipe Carmen (Inria Bordeaux sud-Ouest).

Publications

Article dans une revue (23)

Pest localization through sequential data assimilation with pheromone sensors Thibault Malou,Simon Labarthe,Philippe Lucas,Nicolas Parisey Computers and Electronics in Agriculture, 2026, 246, pp.111594. ⟨10.1016/j.compag.2026.111594⟩ Article dans une revue hal-05556696v1
Modeling thermophilic syntrophic VFA oxidation using thermodynamic principles: Insights from enrichment cultures Sahak Yeghiazaryan,Gabriel Capson-Tojo,Jean-Philippe Steyer,Maria Westerholm,Nicolas Bernetet al. Bioresource Technology, 2026, 449, pp.134365. ⟨10.1016/j.biortech.2026.134365⟩ Article dans une revue hal-05579012v1
Biology-Informed inverse problems for insect pests detection using pheromone sensors Thibault Malou,Nicolas Parisey,Katarzyna Adamczyk-Chauvat,Elisabeta Vergu,Béatrice Larocheet al. Peer Community Journal, 2025, 5, pp.e19. ⟨10.24072/pcjournal.520⟩ Article dans une revue hal-04982331v1
Revealing microbial consortia that interfere with grapevine downy mildew through microbiome epidemiology Paola Fournier,Lucile Pellan,Aarti Jaswa,Marine C. Cambon,Alexandre Chataigneret al. Environmental Microbiome, 2025, 20, pp.37. ⟨10.1186/s40793-025-00691-9⟩ Article dans une revue hal-05025610v1
Design of a proteolytic module for improved metabolic modeling of Bacteroides caccae Amandine Paulay,Ghjuvan M Grimaud,Raphaël Caballero,Béatrice Laroche,Marion Leclercet al. mSystems, 2024, 9 (4), ⟨10.1128/msystems.00153-24⟩ Article dans une revue hal-04540116v1
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
Pherosensor-toolbox: a Python package for Biology-Informed Data Assimilation Thibault Malou,Simon Labarthe Journal of Open Source Software, 2024, ⟨10.21105/joss.06863⟩ Article dans une revue hal-04669546v2
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
Four functional profiles for fibre and mucin metabolism in the human gut microbiome Simon Labarthe,Sandra Plancade,Sébastien Raguideau,Florian Plaza Oñate,Emmanuelle Le Chatelieret al. Microbiome, 2023, 11 (1), pp.231. ⟨10.1186/s40168-023-01667-y⟩ Article dans une revue hal-03918193v2
Migration of surface-associated microbial communities in spaceflight habitats Daniele Marra,Thodoris Karapantsios,Sergio Caserta,Eleonora Secchi,Malgorzata Holynskaet al. Biofilm, 2023, 5, pp.100109. ⟨10.1016/j.bioflm.2023.100109⟩ Article dans une revue hal-04004802v2
Inferring characteristics of bacterial swimming in biofilm matrix from time-lapse confocal laser scanning microscopy Guillaume Ravel,Michel Bergmann,Alain Trubuil,Julien Deschamps,Romain Briandetet al. eLife, 2022, 11, ⟨10.7554/eLife.76513⟩ Article dans une revue hal-03695580v4
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
A PDMP model of the epithelial cell turn-over in the intestinal crypt including microbiota-derived regulations Léo Darrigade,Marie Haghebaert,Claire Cherbuy,Simon Labarthe,Béatrice Laroche Journal of Mathematical Biology, 2022, 84 (7), pp.1-67. ⟨10.1007/s00285-022-01766-8⟩ Article dans une revue hal-03379023v2
Exploring the Bacterial Impact on Cholesterol Cycle: A Numerical Study Mélanie Bourgin,Simon Labarthe,Aicha Kriaa,Marie Lhomme,Philippe Gérardet al. Frontiers in Microbiology, 2020, 11, pp.1121. ⟨10.3389/fmicb.2020.01121⟩ Article dans une revue hal-02863236v1
A Multi-Scale Epidemic Model of Salmonella Infection With Heterogeneous Shedding Simon Labarthe,Béatrice Laroche,Thi Nhu Tao Nguyen,Bastien Polizzi,Florian Patoutet al. ESAIM: Proceedings and Surveys, 2020, 67, pp.261-284. ⟨10.1051/proc/202067015⟩ Article dans une revue hal-02043742v2
A mathematical model to investigate the key drivers of the biogeography of the colon microbiota. Simon Labarthe,Bastien Polizzi,Thuy Phan,Thierry Goudon,Magali Ribotet al. Journal of Theoretical Biology, 2019, 462 (7), pp.552-581. ⟨10.1016/j.jtbi.2018.12.009⟩ Article dans une revue hal-01761191v3
An asymptotic two-layer monodomain model of cardiac electrophysiology in the atria: derivation and convergence * Yves Coudière,Jacques Henry,Simon Labarthe SIAM Journal on Applied Mathematics, 2017, 77 (2), pp.409 - 429. ⟨10.1137/15M1016886⟩ Article dans une revue hal-00922717v4
Spatial organization plasticity as an adaptive driver of surface microbial communities Arnaud Bridier,Jean-Christophe Piard,Caroline Pandin,Simon Labarthe,Florence Dubois-Brissonnetet al. Frontiers in Microbiology, 2017, 8, pp.1364. ⟨10.3389/fmicb.2017.01364⟩ Article dans une revue (article de synthèse) hal-01605872v1
The contribution of intestinal gluconeogenesis to glucose homeostasis Is low in 2-day-old pigs1–3 Claire Cherbuy,Pierre Vaugelade,Simon Labarthe,Edith Honvo Houeto,Beatrice Darcy Vrillonet al. Journal of Nutrition, 2017, 147 (3), pp.361-366. ⟨10.3945/jn.116.242131⟩ Article dans une revue hal-01608162v1
A mixture model for the dynamic of the gut mucus layer Tamara El Bouti,Thierry Goudon,Simon Labarthe,Béatrice Laroche,Bastien Polizziet al. ESAIM: Proceedings, 2016, 55 (décembre), pp.111-130. ⟨10.1051/proc/201655111⟩ Article dans une revue hal-01421708v2
Challenges in microbial ecology: building predictive understanding of community function and dynamics. Stefanie Widder,Rosalind J Allen,Thomas Pfeiffer,Thomas P Curtis,Carsten Wiufet al. The International Society of Microbiologial Ecology Journal, 2016, 10, pp.1-12. ⟨10.1038/ismej.2016.45⟩ Article dans une revue (article de synthèse) hal-01512087v1
A two layers monodomain model of cardiac electrophysiology of the atria Yves Coudière,Jacques Henry,Simon Labarthe Journal of Mathematical Biology, 2015, 71 (6-7), pp.35. ⟨10.1007/s00285-015-0861-8⟩ Article dans une revue hal-01132889v1
A bilayer model of human atria: mathematical background, construction, and assessment Simon Labarthe,Jason Bayer,Yves Coudière,Jacques Henry,Hubert Cochetet al. EP-Europace, 2014, 16 (suppl 4), pp.29. ⟨10.1093/europace/euu256⟩ Article dans une revue hal-01132905v1

Communication dans un congrès (45)

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
Thermodynamic-based modeling of syntrophic organic acid oxidation in anaerobic digestion Sahak Yeghiazaryan,Gabriel Capson-Tojo,Jean-Philippe Steyer,Nicolas Bernet,Simon Labartheet al. Microbes 2025 - 20e congrès national de la SFM « Microbes dans un monde de transition », Société Française de Microbiologuie (SFM), Sep 2025, Bordeaux, France Communication dans un congrès hal-05344908v1
Révéler les consortiums microbiens qui interfèrent avec le mildiou de la vigne grâce à l'épidémiologie du microbiome. Paola Fournier,Lucile Pellan,Aarti Jaswa,Marine C. Cambon,Alexandre Chataigneret al. 17e rencontres Plantes-Bactéries 2025, Jan 2025, Aussois, France Communication dans un congrès hal-05290878v1
Mining belowground and aboveground microbiome data to identify microbial biomarkers of grapevine health and yield Corinne Vacher,Paola Fournier,Lucile Pellan,Aarti Jaswa,Valérie Martinet al. 20. Congrès national de la SFM : Microbes dans un monde de transition (MICROBES 2025), Société Française de Microbiologie (SFM), Sep 2025, Bordeaux, France Communication dans un congrès hal-05300289v1
Developing a microfluidic qPCR chip to quantify microbial taxa with a potential biocontrol activity against grapevine downy mildew Manon Chargy,Marie-Cecile Dufour,Aarti Jaswa,Valerie Martin,Jessica Vallanceet al. GiESCO 2025 - 23rd international GiESCO conference, Jul 2025, Geisenheim, Germany Communication dans un congrès hal-05193281v1
Mining microbiota data to identify antagonists of grapevine downy mildew. Paola Fournier,Lucile Pellan,Aarti Jaswa,Marine C. Cambon,Alexandre Chataigneret al. E3GP3 2025 - Webinaire “Microbiome & Santé des Plantes”, Jun 2025, Online, France Communication dans un congrès hal-05290797v1
cMFA for multi-omics data integration in microbial community models Sthyve Junior Tatho Djeanou,Simon Labarthe,Valentina Baldazzi Population Dynamics : From Data to Models 2025, Mar 2025, Sophia antipolis, France Communication dans un congrès hal-04996155v1
Vers une viticulture sans pesticides : analyse du microbiote des vignes et des sols viticoles pour développer le biocontrôle microbien du mildiou Paola Fournier,Lucile Pellan,Aarti Jaswa,Marine Cambon,Alexandre Chataigneret al. 23ème Matinée des Œnologues de Bordeaux : "Grains de Génie – s’adapter, se réinventer, se diversifier", Mar 2026, Bordeaux, France. pp.37 Communication dans un congrès hal-05564808v1
Modeling Microbial Communities: Toward Digital Twins Simon Labarthe Microbes 2025 - 20e congrès national de la SFM « Microbes dans un monde de transition », SFM, Sep 2025, Bordeaux, France Communication dans un congrès hal-05459251v1
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
Exploration des données du microbiote pour identifier les antagonistes du mildiou de la vigne Paola Fournier,Lucile Pellan,Aarti Jaswa,Marine Cambon,Alexandre Chataigneret al. Journée Scientifique Vigne & Vin 2025 – Les communautés microbiennes en œnologie, May 2025, Montpellier, France Communication dans un congrès hal-05290835v1
Four functional profiles for fibre and mucin metabolism in the human gut microbiome Simon Labarthe 65th ISI World Statistics Congress 2025, Oct 2025, The Hague, Netherlands Communication dans un congrès hal-05459337v1
cMFA Inference method for multi-omics data integration in microbial community models Sthyve Junior Tatho Djeanou,Simon Labarthe,Valentina Baldazzi SMAI 2025 - 12ème Biennale Française des Mathématiques Appliquées et Industrielles, SMAI, Jun 2025, Carcans-Maubuisson (Gironde), France Communication dans un congrès hal-05105572v1
cMFA for multi-omics data integration in microbial community models Sthyve Junior Tatho Djeanou,Simon Labarthe,Valentina Baldazzi 25e Forum des jeunes mathématiciennes et mathématiciens 2025, Nov 2025, Bordeaux, France Communication dans un congrès hal-05469230v1
Apport des recherches sur le microbiote aux futures stratégies de biocontrôle - Résultats du projet VITAE Corinne Vacher,Paola Fournier,Lucile Pellan,Aarti Jaswa,Valérie Martinet al. Séminaire Chaire ASVV & INNO’VIN – « Vins & Environnement » #8 | Le biocontrôle est-il opérant ?, Apr 2025, Villenave d'Ornon, France Communication dans un congrès hal-05069786v1
Towards pesticide-free viticulture: analysing the microbiota of grapevines and vineyard soils to develop microbial biocontrol of downy mildew Paola Fournier,Lucile Pellan,Aarti Jaswa,Marine Cambon,Alexandre Chataigneret al. IW 2025 - International scientific workshop French Priority Research Programme 'Growing and Protecting crops Differently', Sep 2025, Online, France Communication dans un congrès hal-05290767v1
Mining belowground and aboveground microbiome data to identify microbial biomarkers of grapevine health and yield Paola Fournier,Lucile Pellan,Aarti Jaswa,Valérie Martin,Marine C Cambonet al. 23. GiESCO 2025 - 23. Group of International Experts of vitivinicultural Systems for CoOperation, Jul 2025, Geisenheim, Germany Communication dans un congrès hal-05303323v1
Pest detection from a biology-informed inverse problem and pheromone sensors Thibault Malou,Simon Labarthe,Béatrice Laroche,Katarzyna Adamczyk,Nicolas Pariseyet al. EGU General Assembly 2025, Apr 2025, Vienna, Austria. ⟨10.5194/egusphere-egu25-5850⟩ Communication dans un congrès hal-05049572v1
Monitor and steer the microbiota to protect grapevines against downy mildew Corinne Vacher,Simon Labarthe 2025 Annual Meeting of the VITAE project, PPR 'Growing and Protecting Differently', Mar 2025, Angers, France Communication dans un congrès hal-05300025v1
Deciphering microbial interactions protecting grapevine against downy mildew: Integrating field studies and synthetic community approaches Corinne Vacher,Paola Fournier,Lucile Pellan,Aarti Jaswa,Valerie Martinet al. miCROPe 2024 - International Symposium on Microbe-assisted crop production: opprtunities, challenges and needs, Jul 2024, Vienne, Austria Communication dans un congrès hal-05297196v1
Pesticide-Free viticulture: towards agroecological wine-producing socioecosystems François Delmotte,Hervé Hannin,Corinne Vacher,Simon Labarthe,Pere Mestreet al. 45. World Congress of Vine and Wine, Oct 2024, Dijon, France Communication dans un congrès hal-04732866v1
Pest detection from a biology-informed inverse problem and pheromone sensors Thibault Malou,Simon Labarthe,Béatrice Laroche,Katarzyna Adamczyk,Nicolas Parisey DSABNS 2024 - 15th Conference on Dynamical Systems Applied to Biology and Natural Sciences, Feb 2024, Lisbonne, Portugal Communication dans un congrès hal-04481765v1
Mining microbiome data to identify antagonists of grapevine downy mildew (Plasmopara viticola) Paola Fournier,Lucile Pellan,Aarti Jaswa,Jessica Vallance,Emilie Chancerelet al. Open GPB 2024 - Open Conference on Grapevine Physiology and Biotechnology, Jul 2024, Logrono La Riora, Spain Communication dans un congrès hal-05296422v1
Gérer le microbiote de la vigne pour réduire l’utilisation des pesticides - Synthèse des résultats du WP1 du projet VITAE et perspectives Corinne Vacher,Simon Labarthe,Thierry Candresse,Manon Chargy,Marie-Cécile Dufouret al. Assemblée générale du projet VITAE, PPR "Cultiver et Protéger Autrement", Mar 2024, Cognac, France Communication dans un congrès hal-05298248v1
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
Vers un jumeau numérique du métabolisme bactérien pendant la production de fromage Simon Labarthe Ferment'IA, Sep 2023, Saclay, France Communication dans un congrès hal-05169258v1
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
Towards microbiota-based disease management: analysis of grapevine microbiota in plots with contrasted levels of downy mildew infection Paola Fournier,Aarti Jaswa,Lucile Pellan,Jessica Vallance,Emilie Chancerelet al. 22nd GiESCO (Group of international Experts for Cooperation on Vitivinicultural Systems) 2023, Jul 2023, Ithaca, New York, United States Communication dans un congrès hal-04180612v2
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
Inferring characteristics of bacterial swimming in biofilm matrix from time-lapse confocal laser scanning microscopy Guillaume Ravel,Michel Bergmann,Alain Trubuil,Julien Deschamps,Romain Briandetet al. IbSB 2022 - 6th International Symposium "Image-based Systems Biology", Sep 2022, Jena, Germany. ⟨10.7554/eLife.76513⟩ Communication dans un congrès hal-03753533v1
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
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
Modeling and inference of bacterial swimmers in biofilms Simon Labarthe CEMRACS 2021, Jul 2021, Marseille, France Communication dans un congrès hal-03352441v1
Identification de la fraction active des bactéries du microbiote améliorant la résistance à la colonisation intestinale contre les entérocoques résistants à la vancomycine Lionel Rigottier-Gois,Perrine Bayle,Simon Labarthe,Béatrice Laroche,Pascale Serror Webinaire MICA-INRAE : Comprendre et valoriser les communautés microbiennes, Sep 2020, Distanciel, France Communication dans un congrès hal-04305004v1
Omic-based model of the gut microbiota Simon Labarthe Workshop 'Transport in the digestive tract : experiments, modeling, applications to microbiology', Oct 2020, Paris, France Communication dans un congrès hal-03352438v1
MISTIFY PROJECT. ECOLOGY OF SALMONELLA TYPHIMURIUM INFECTION: A MATHEMATICAL MODELING INSIGHT Simon Labarthe Annual meeting of Agreenskills program, Apr 2019, Bruxelles, Belgium Communication dans un congrès hal-03352429v1
Parameter estimation for dynamical systems using an FDA approach Nicolas Brunel,D Goujot,S Labarthe,B. Laroche 11th International Conference of the ERCIM WG on Computational and Methodological Statistics (CMStatistics 2018), Dec 2018, Pise, Italy Communication dans un congrès hal-02045430v1
Influence of Transmural Slow-Conduction Zones on the Long- Time Behaviour Of Atrial Arrhythmia. A Numerical Study with a Human Bilayer Atrial Model Simon Labarthe,Edward Vigmond,Yves Coudière,Jacques Henry,Hubert Cochetet al. CINC - Computing in Cardiology 2013, Sep 2013, Zaragoza, Spain. pp.1187-1190 Communication dans un congrès hal-00921262v1
A computational bilayer surface model of human atria Simon Labarthe,Edward Vigmond,Yves Coudière,Jacques Henry,Hubert Cochetet al. FIMH 2013 - 7th International Conference on Functional Imaging and Modeling of the Heart, Jun 2013, London, United Kingdom. pp.27-34, ⟨10.1007/978-3-642-38899-6_4⟩ Communication dans un congrès hal-01606999v1
A Computational Bilayer Surface Model of Human Atria Simon Labarthe,Edward Vigmond,Yves Coudière,Jacques Henry,Hubert Cochetet al. FIMH 2013 - 7th International Conference on Fonctional Imaging and Modeling of the Heart, S.Ourselin, D.Ruecker, N.Smith, Jun 2013, London, United Kingdom Communication dans un congrès hal-00802104v2
A Bilayer Representation of the Human Atria Edward Vigmond,Simon Labarthe,Hubert Cochet,Yves Coudière,Jacques Henryet al. EMBC - 35th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC), 2013, EMBS, Jul 2013, Osaka, Japan. pp.1530-1533, ⟨10.1109/EMBC.2013.6609804⟩ Communication dans un congrès hal-00837671v1
A Semi-Automatic Method To Construct Atrial Fibre Structures : a Tool for Atrial Simulations Simon Labarthe,Yves Coudière,Jacques Henry,Hubert Cochet CinC 2012 - Computing in Cardiology, Sep 2012, Krakow, Poland. pp.881-884 Communication dans un congrès hal-00759191v2
Global and Directional Activation Maps for Cardiac Mapping in Electrophysiology Rémi Dubois,Simon Labarthe,Yves Coudière,Mélèze Hocini,Michel Haïssaguerre CINC 2012 - Computing In Cardiology - 2012, Sep 2012, Krakow, Poland. pp.349-352 Communication dans un congrès hal-00760451v1
From Body Surface Potential to Activation Maps on the Atria: a Machine Learning Technique Nejib Zemzemi,Simon Labarthe,Rémi Dubois,Yves Coudière CINC - Computing in Cardiology 2012, Sep 2012, Krakow, Poland. pp.125-128 Communication dans un congrès hal-00759210v1

Poster de conférence (24)

cMFA for multi-omics data integration in microbial community models Sthyve Junior Tatho Djeanou,Simon Labarthe,Valentina Baldazzi CompSysBio 2025 - Advanced lecture course on computational systems biology, Oct 2025, Aussois, France Poster de conférence hal-05318560v1
cMFA for multi-omics data integration in microbial community models Sthyve Junior Tatho Djeanou,Simon Labarthe,Valentina Baldazzi CMSB 2025 - 23rd International Conference on Computational Methods in Systems Biology, Sep 2025, Lyon, France Poster de conférence hal-05261543v1
cMFA for multi-omics data integration in microbial community models Sthyve Junior Tatho Djeanou,Simon Labarthe,Valentina Baldazzi DSABNS 2025 - 16th Dynamical Systems applied on Biology and Natural Sciences, Jan 2025, Naples, Italy Poster de conférence hal-04939527v1
Statistical method inference cMFA for multi-omics data integration in microbial community models Sthyve Junior Tatho Djeanou,Simon Labarthe,Valentina Baldazzi JOBIM 2025 - Journées Ouvertes en Biologie Informatique et mathématiques, Jul 2025, Bordeaux, France Poster de conférence hal-05163368v1
cMFA for multi-omics data integration in microbial community models Sthyve Junior Tatho Djeanou,Simon Labarthe,Valentina Baldazzi Journées scientifiques 2025 Agroécologie et Numérique, Jan 2025, Dijon, France Poster de conférence hal-04939529v1
cMFA for multi-omics data integration in microbial community models Sthyve Junior Tatho Djeanou,Simon Labarthe,Valentina Baldazzi Population Dynamics : From Data to Models 2025, Mar 2025, Sophia Antipolis, France Poster de conférence hal-04996135v1
Developing a culturomic approach to build a collection of grapevine foliar microorganisms with potential biocontrol activity against downy mildew Aarti Jaswa,Paola Fournier,Valérie Martin,Isabelle Masneuf-Pomarède,Guilherme Martinset al. 14. Journées Jean Chevaugeon - Rencontres de Phytopathologie - Mycologie, Jan 2024, Aussois, France. Poster de conférence hal-04842411v1
cMFA for multi-omics data integration in microbial community models Sthyve Junior Tatho Djeanou,Simon Labarthe,Valentina Baldazzi CJC MA2024 - Congrès des Jeunes Chercheur.e.s en Mathématiques Appliquées, Oct 2024, Lyon, France. Poster de conférence hal-04874275v1
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
Towards microbiota-based disease management: analysis of grapevine microbiota in plots with contrasted levels of downy mildew infection Paola Fournier,Aarti Jaswa,Lucile Pellan,Jessica Vallance,Emilie Chancerelet al. 22. GiESCO International Meeting, Jul 2023, Ithaca, United States. , 2023, IVES Conference Series Vine & Wine Poster de conférence hal-04180613v1
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
A multi-scale epidemic model of enteric infection with heterogeneous shedding resulting from host-microbiota-pathogen interactions Simon Labarthe,Béatrice Laroche,Bastien Polizzi,Florian Patout,Magali Ribot ECMTB 2022 - 12th European Conference on Mathematical and Theoretical Biology, Sep 2022, Heidelberg, Germany. Poster de conférence hal-03834709v1
Pest detection by inversion of a pheromone dispersion model Thibault Malou,Simon Labarthe,Béatrice Laroche,Elisabeta Vergu,François Deslandes ECMTB 2022 - 12th European Conference on Mathematical and Theoretical Biology, Sep 2022, Heidelberg, Germany Poster de conférence hal-03777604v1
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
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
A spatially structured model to investigate key drivers of the gut microbiota biogeography in humans S Labarthe,Bastien Polizzi,T Phan,T Goudon,Magali Ribotet al. 11th European Conference on Mathematical and Theoretical Biology (ECMTB 2018) https://www.ecmtb2018.org/, Jul 2018, Lisbon, Portugal. Poster de conférence hal-04278352v1
Numerical modeling of the electrical activity of the atria and the pulmonary veins Simon Labarthe,Yves Coudière,Jacques Henry Workshop IHU Liryc, Oct 2013, Pessac, France Poster de conférence hal-00926441v1
Superposition de couches de fibres et propagations anormales : une étude numérique Simon Labarthe,Yves Coudière,Jacques Henry Printemps de la Cardiologie, Apr 2013, Marseille, France Poster de conférence hal-00926480v1
Simulation numérique de l'activité électrique dans l'oreillette gauche et les veines pulmonaires Simon Labarthe,Yves Coudière,Jacques Henry Printemps de la Cardiologie, Apr 2012, Bordeaux, France Poster de conférence hal-00785607v1
Modélisation bidimensionnelle d'un problème de réaction-diffusion anisotrope hétérogène en couche mince appliquée à la cardiologie Simon Labarthe,Yves Coudière,Jacques Henry CANUM - 2012, May 2012, Super-Besse, France Poster de conférence hal-00785621v1

Chapitre d'ouvrage (1)

Mathématiques et cardiologie : modéliser pour mieux comprendre les arythmies auriculaires Simon Labarthe 5 jeunes chercheurs d'avenir 2015, 1, Editions le Pommier, pp.192, 2015, Promesses de la Science, 978-2-7465-0937-5 Chapitre d'ouvrage hal-02795569v1

Autre publication scientifique (3)

Coupling microbial communities models with data Simon Labarthe 2025 Autre publication scientifique hal-05459304v1
Revealing microbial consortia that interfere with grapevine downy mildew through microbiome epidemiology Paola Fournier,Lucile Pellan,Aarti Jaswa,Martine Cambon,Alexandre Chataigneret al. 2025 Autre publication scientifique hal-05084268v1
Mathematical models in microbial ecology Simon Labarthe 2019 Autre publication scientifique hal-03352423v1

Pré-publication, Document de travail (6)

Inference Method cMFA for multi-omics data integration in microbial community models Sthyve Junior Tatho Djeanou,Valentina Baldazzi,Simon Labarthe 2025 Pré-publication, Document de travail hal-05105798v1
Biology-Informed inverse problems for insect pests detection using pheromone sensors Thibault Malou,Nicolas Parisey,Katarzyna Adamczyk-Chauvat,Elisabeta Vergu,Béatrice Larocheet al. 2025 Pré-publication, Document de travail hal-04572831v3
Pest localization through sequential data assimilation with pheromone sensors Thibault Malou,Simon Labarthe,Philippe Lucas,Nicolas Parisey 2025 Pré-publication, Document de travail hal-05340937v1
Deterministic limit of a stochastic individual-based model of biological tissue interacting with diffusing chemicals Léo Darrigade,Simon Labarthe,Béatrice Laroche 2025 Pré-publication, Document de travail hal-04336174v3
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
A mixture model for the dynamic of the gut mucus layer Thierry Goudon,Tamara El Bouti,Simon Labarthe,Béatrice Laroche,Tison Remiet al. 2015 Pré-publication, Document de travail hal-01270350v1

Thèse (1)

Modélisation de l'activité électrique des oreillettes et des veines pulmonaires Simon Labarthe Modélisation et simulation. Université Victor Segalen - Bordeaux II, 2013. Français. ⟨NNT : ⟩ Thèse tel-00925253v1

HDR (1)

Contributions à la modélisation mathématiques en écologie microbienne, des données aux modèles Simon Labarthe Mathématiques [math]. Université de bordeaux, 2024 HDR tel-04654712v1