Simon Labarthe

Directeur de recherche INRAE
100
Documents
Affiliations actuelles
  • Pleiade, from patterns to models in computational biodiversity and biotechnology (PLEIADE)
  • Biodiversité, Gènes & Communautés (BioGeCo)
Identifiants chercheurs
Contact

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

Publications

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Biology-Informed inverse problems for insect pests detection using pheromone sensors

Thibault Malou , Nicolas Parisey , Katarzyna Adamczyk-Chauvat , Elisabeta Vergu , Béatrice Laroche et al.
Peer Community Journal, 2025, 5, pp.e19. ⟨10.24072/pcjournal.520⟩
Article dans une revue hal-04982331 v1
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Revealing microbial consortia that interfere with grapevine downy mildew through microbiome epidemiology

Paola Fournier , Lucile Pellan , Aarti Jaswa , Marine C. Cambon , Alexandre Chataigner et al.
Environmental Microbiome, 2025, 20, pp.37. ⟨10.1186/s40793-025-00691-9⟩
Article dans une revue hal-05025610 v1
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Design of a proteolytic module for improved metabolic modeling of Bacteroides caccae

Amandine Paulay , Ghjuvan M Grimaud , Raphaël Caballero , Béatrice Laroche , Marion Leclerc et al.
mSystems, 2024, 9 (4), ⟨10.1128/msystems.00153-24⟩
Article dans une revue hal-04540116 v1
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Revealing the dynamics and mechanisms of bacterial interactions in cheese production with metabolic modelling

Maxime Lecomte , Wenfan Cao , Julie Aubert , David James Sherman , Hélène Falentin et al.
Metabolic Engineering, 2024, 83, pp.24 - 38. ⟨10.1016/j.ymben.2024.02.014⟩
Article dans une revue hal-04509395 v1
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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-04669546 v2
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Community-scale models of microbiomes: articulating metabolic modelling and metagenome sequencing

Klara Cerk , Pablo Ugalde-Salas , Chabname Ghassemi Nedjad , Maxime Lecomte , Coralie Muller et al.
Microbial Biotechnology, 2024, ⟨10.1111/1751-7915.14396⟩
Article dans une revue hal-04409251 v1
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Four functional profiles for fibre and mucin metabolism in the human gut microbiome

Simon Labarthe , Sandra Plancade , Sébastien Raguideau , Florian Plaza Oñate , Emmanuelle Le Chatelier et al.
Microbiome, 2023, 11 (1), pp.231. ⟨10.1186/s40168-023-01667-y⟩
Article dans une revue hal-03918193 v2
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Migration of surface-associated microbial communities in spaceflight habitats

Daniele Marra , Thodoris Karapantsios , Sergio Caserta , Eleonora Secchi , Malgorzata Holynska et al.
Biofilm, 2023, 5, pp.100109. ⟨10.1016/j.bioflm.2023.100109⟩
Article dans une revue hal-04004802 v2
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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-03379023 v2
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Inferring characteristics of bacterial swimming in biofilm matrix from time-lapse confocal laser scanning microscopy

Guillaume Ravel , Michel Bergmann , Alain Trubuil , Julien Deschamps , Romain Briandet et al.
eLife, 2022, 11, ⟨10.7554/eLife.76513⟩
Article dans une revue hal-03695580 v4
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The functional microbiome of grapevine throughout plant evolutionary history and lifetime

Paola Fournier , Lucile Pellan , Didac Barroso-Bergadà , David Bohan , Thierry Candresse et 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-03858395 v1
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Exploring the Bacterial Impact on Cholesterol Cycle: A Numerical Study

Mélanie Bourgin , Simon Labarthe , Aicha Kriaa , Marie Lhomme , Philippe Gérard et al.
Frontiers in Microbiology, 2020, 11, pp.1121. ⟨10.3389/fmicb.2020.01121⟩
Article dans une revue hal-02863236 v1
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A Multi-Scale Epidemic Model of Salmonella Infection With Heterogeneous Shedding

Simon Labarthe , Béatrice Laroche , Thi Nhu Tao Nguyen , Bastien Polizzi , Florian Patout et al.
ESAIM: Proceedings and Surveys, 2020, 67, pp.261-284. ⟨10.1051/proc/202067015⟩
Article dans une revue hal-02043742 v2
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A mathematical model to investigate the key drivers of the biogeography of the colon microbiota.

Simon Labarthe , Bastien Polizzi , Thuy Phan , Thierry Goudon , Magali Ribot et al.
Journal of Theoretical Biology, 2019, 462 (7), pp.552-581. ⟨10.1016/j.jtbi.2018.12.009⟩
Article dans une revue hal-01761191 v3

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 Vrillon et al.
Journal of Nutrition, 2017, 147 (3), pp.361-366. ⟨10.3945/jn.116.242131⟩
Article dans une revue hal-01608162 v1
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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-00922717 v4
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Spatial organization plasticity as an adaptive driver of surface microbial communities

Arnaud Bridier , Jean-Christophe Piard , Caroline Pandin , Simon Labarthe , Florence Dubois-Brissonnet et al.
Frontiers in Microbiology, 2017, 8, pp.1364. ⟨10.3389/fmicb.2017.01364⟩
Article dans une revue (article de synthèse) hal-01605872 v1

A mixture model for the dynamic of the gut mucus layer

Tamara El Bouti , Thierry Goudon , Simon Labarthe , Béatrice Laroche , Bastien Polizzi et al.
ESAIM: Proceedings, 2016, 55 (décembre), pp.111-130. ⟨10.1051/proc/201655111⟩
Article dans une revue hal-01421708 v2
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Challenges in microbial ecology: building predictive understanding of community function and dynamics.

Stefanie Widder , Rosalind J Allen , Thomas Pfeiffer , Thomas P Curtis , Carsten Wiuf et 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-01512087 v1
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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-01132889 v1
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A bilayer model of human atria: mathematical background, construction, and assessment

Simon Labarthe , Jason Bayer , Yves Coudière , Jacques Henry , Hubert Cochet et al.
EP-Europace, 2014, 16 (suppl 4), pp.29. ⟨10.1093/europace/euu256⟩
Article dans une revue hal-01132905 v1
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Pest detection from a biology-informed inverse problem and pheromone sensors

Thibault Malou , Simon Labarthe , Béatrice Laroche , Katarzyna Adamczyk , Nicolas Parisey et al.
EGU General Assembly 2025, Apr 2025, Vienna, Austria. ⟨10.5194/egusphere-egu25-5850⟩
Communication dans un congrès hal-05049572 v1
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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-05300025 v1
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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 Audureau et al.
Apéro VITAE - webinaire interne, VITAE (Léa Cabrol-Froget), Feb 2025, Villenave-d'Ornon, France
Communication dans un congrès hal-05108055 v1
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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 Chataigner et al.
17e rencontres Plantes-Bactéries 2025, Jan 2025, Aussois, France
Communication dans un congrès hal-05290878 v1

Thermodynamic-based modeling of syntrophic organic acid oxidation in anaerobic digestion

Sahak Yeghiazaryan , Gabriel Capson-Tojo , Jean-Philippe Steyer , Nicolas Bernet , Simon Labarthe et 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-05344908 v1
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Mining belowground and aboveground microbiome data to identify microbial biomarkers of grapevine health and yield

Corinne Vacher , Paola Fournier , Lucile Pellan , Aarti Jaswa , Valérie Martin et 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-05300289 v1

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 Vallance et al.
GiESCO 2025 - 23rd international GiESCO conference, Jul 2025, Geisenheim, Germany
Communication dans un congrès hal-05193281 v1
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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-04996155 v1

Mining microbiota data to identify antagonists of grapevine downy mildew.

Paola Fournier , Lucile Pellan , Aarti Jaswa , Marine C. Cambon , Alexandre Chataigner et al.
E3GP3 2025 - Webinaire “Microbiome & Santé des Plantes”, Jun 2025, Online, France
Communication dans un congrès hal-05290797 v1
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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-05059688 v1
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Modeling Microbial Communities: Toward Digital Twins

Simon Labarthe
Microbes 2025, SFM, Sep 2025, Bordeaux, France
Communication dans un congrès hal-05459251 v1
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Four functional profiles for fibre and mucin metabolism in the human gut microbiome

Simon Labarthe
65th ISI World Statistics Congress, Oct 2025, The Hague, Netherlands
Communication dans un congrès hal-05459337 v1

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-05105572 v1
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Exploration des données du microbiote pour identifier les antagonistes du mildiou de la vigne

Paola Fournier , Lucile Pellan , Aarti Jaswa , Marine Cambon , Alexandre Chataigner et al.
Journée Scientifique Vigne & Vin 2025 – Les communautés microbiennes en œnologie, May 2025, Montpellier, France
Communication dans un congrès hal-05290835 v1
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cMFA for multi-omics data integration in microbial community models

Sthyve Junior Tatho Djeanou , Simon Labarthe , Valentina Baldazzi
2025 - 25e Forum des jeunes mathématiciennes et mathématiciens, Nov 2025, Bordeaux, France
Communication dans un congrès hal-05469230 v1
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Apport des recherches sur le microbiote aux futures stratégies de biocontrôle - Résultats du projet VITAE

Corinne Vacher , Paola Fournier , Lucile Pellan , Aarti Jaswa , Valérie Martin et 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-05069786 v1

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 Chataigner et al.
IW 2025 - International scientific workshop French Priority Research Programme 'Growing and Protecting crops Differently', Sep 2025, Online, France
Communication dans un congrès hal-05290767 v1

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 Cambon et al.
23. GiESCO 2025 - 23. Group of International Experts of vitivinicultural Systems for CoOperation, Jul 2025, Geisenheim, Germany
Communication dans un congrès hal-05303323 v1

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 Dufour et al.
Assemblée générale du projet VITAE, PPR "Cultiver et Protéger Autrement", Mar 2024, Cognac, France
Communication dans un congrès hal-05298248 v1
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Pesticide-Free viticulture: towards agroecological wine-producing socioecosystems

François Delmotte , Hervé Hannin , Corinne Vacher , Simon Labarthe , Pere Mestre et al.
45. World Congress of Vine and Wine, Oct 2024, Dijon, France
Communication dans un congrès hal-04732866 v1

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-04481765 v1

Mining microbiome data to identify antagonists of grapevine downy mildew (Plasmopara viticola)

Paola Fournier , Lucile Pellan , Aarti Jaswa , Jessica Vallance , Emilie Chancerel et al.
Open GPB 2024 - Open Conference on Grapevine Physiology and Biotechnology, Jul 2024, Logrono La Riora, Spain
Communication dans un congrès hal-05296422 v1

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 Labarthe et al.
SBMI 2023 - 7th International Symposium on Systems Biology of Microbial Infection, Sep 2023, Jena, Germany
Communication dans un congrès hal-04229116 v1
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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-05169258 v1
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Accelerating metabolic models evaluation with statistical metamodels: application to Salmonella infection models

Clémence Frioux , Sylvie Huet , Simon Labarthe , Julien Martinelli , Thibault Malou et 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-03635862 v2
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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 Chancerel et 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-04180612 v2
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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 Maillard et al.
FOODMICRO 2022, Aug 2022, Athènes, Greece
Communication dans un congrès hal-03781287 v1
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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 Maillard et 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-03694338 v1

Inferring characteristics of bacterial swimming in biofilm matrix from time-lapse confocal laser scanning microscopy

Guillaume Ravel , Michel Bergmann , Alain Trubuil , Julien Deschamps , Romain Briandet et al.
IbSB 2022 - 6th International Symposium "Image-based Systems Biology", Sep 2022, Jena, Germany. ⟨10.7554/eLife.76513⟩
Communication dans un congrès hal-03753533 v1
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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-03857848 v2

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-03531761 v1
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Modeling and inference of bacterial swimmers in biofilms

Simon Labarthe
CEMRACS 2021, Jul 2021, Marseille, France
Communication dans un congrès hal-03352441 v1
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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-03352438 v1

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-04305004 v1
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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-03352429 v1

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-02045430 v1
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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 Cochet et al.
CINC - Computing in Cardiology 2013, Sep 2013, Zaragoza, Spain. pp.1187-1190
Communication dans un congrès hal-00921262 v1
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A computational bilayer surface model of human atria

Simon Labarthe , Edward Vigmond , Yves Coudière , Jacques Henry , Hubert Cochet et 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-01606999 v1
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A Computational Bilayer Surface Model of Human Atria

Simon Labarthe , Edward Vigmond , Yves Coudière , Jacques Henry , Hubert Cochet et 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-00802104 v2
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A Bilayer Representation of the Human Atria

Edward Vigmond , Simon Labarthe , Hubert Cochet , Yves Coudière , Jacques Henry et 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-00837671 v1
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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-00759191 v2
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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-00760451 v1
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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-00759210 v1
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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-04996135 v1
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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-04939529 v1
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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-05318560 v1
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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-05261543 v1
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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-04939527 v1
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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-05163368 v1
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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 Martins et al.
14. Journées Jean Chevaugeon - Rencontres de Phytopathologie - Mycologie, Jan 2024, Aussois, France.
Poster de conférence hal-04842411 v1
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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-04874275 v1
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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 Labarthe et 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-04183811 v1
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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 Chancerel et al.
22. GiESCO International Meeting, Jul 2023, Ithaca, United States. , 2023, IVES Conference Series Vine & Wine
Poster de conférence hal-04180613 v1
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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 Labarthe et al.
SBMI 2023 - 7th International Symposium on Systems Biology of Microbial Infection, Sep 2023, Jena, Germany.
Poster de conférence hal-04229130 v1
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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-03839374 v1
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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-03834709 v1
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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-03839405 v1
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Dynamic Flux Balance Analysis with Metamodels

Clémence Frioux , Sylvie Huet , Simon Labarthe , Julien Martinelli , Thibault Malou et al.
JOBIM 2022 - Les Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2022, Rennes, France.
Poster de conférence hal-04236775 v1
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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-03777604 v1

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-03533781 v1

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-03533795 v1

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-03533786 v1
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A spatially structured model to investigate key drivers of the gut microbiota biogeography in humans

S Labarthe , Bastien Polizzi , T Phan , T Goudon , Magali Ribot et al.
11th European Conference on Mathematical and Theoretical Biology (ECMTB 2018) https://www.ecmtb2018.org/, Jul 2018, Lisbon, Portugal.
Poster de conférence hal-04278352 v1
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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-00926480 v1
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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-00926441 v1
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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-00785607 v1
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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-00785621 v1

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-02795569 v1
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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-00925253 v1