Documentation
Français (FR)

Anglais (EN)

Simon Labarthe

Chargé de recherche INRAE

56

Documents

Affiliations actuelles

1002316
426348
1002315

Identifiants chercheurs

simon-labarthe
IdRef : 175410852
0000-0002-5463-7256

Présentation

anglais
français

Publications

	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 Metabolic Engineering, 2024, 83, pp.24 - 38. ⟨10.1016/j.ymben.2024.02.014⟩ Article dans une revue hal-04509395v1
	Design of a proteolytic module for improved metabolic modeling of Bacteroides caccae Amandine Paulay , Ghjuvan M Grimaud , Raphaël Caballero , Béatrice Laroche , Marion Leclerc mSystems, 2024, 9 (4), ⟨10.1128/msystems.00153-24⟩ Article dans une revue hal-04540116v1
	Community-scale models of microbiomes: articulating metabolic modelling and metagenome sequencing Klara Cerk , Pablo Ugalde-Salas , Chabname Ghassemi Nedjad , Maxime Lecomte , Coralie Muller 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 Chatelier Microbiome, 2023, 11 (1), pp.231. ⟨10.1186/s40168-023-01667-y⟩ Article dans une revue hal-03918193v2
	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 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 Candresse Advances in Ecological Research, 2022, Advances in Ecological Research, 67, pp.27-99. ⟨10.1016/bs.aecr.2022.09.001⟩ Article dans une revue 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 Gérard 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 Patout 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 Ribot Journal of Theoretical Biology, 2019, 462 (7), pp.552-581. ⟨10.1016/j.jtbi.2018.12.009⟩ Article dans une revue hal-01761191v3
	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 Journal of Nutrition, 2017, 147 (3), pp.361-366. ⟨10.3945/jn.116.242131⟩ Article dans une revue hal-01608162v1
	Spatial organization plasticity as an adaptive driver of surface microbial communities Arnaud Bridier , Jean-Christophe Piard , Caroline Pandin , Simon Labarthe , Florence Dubois-Brissonnet Frontiers in Microbiology, 2017, 8, pp.1364. ⟨10.3389/fmicb.2017.01364⟩ Article dans une revue hal-01605872v1
	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
	A mixture model for the dynamic of the gut mucus layer Tamara El Bouti , Thierry Goudon , Simon Labarthe , Béatrice Laroche , Bastien Polizzi 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 Wiuf The International Society of Microbiologial Ecology Journal, 2016, 10, pp.1-12. ⟨10.1038/ismej.2016.45⟩ Article dans une revue 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 Cochet EP-Europace, 2014, 16 (suppl 4), pp.29. ⟨10.1093/europace/euu256⟩ Article dans une revue hal-01132905v1

	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
	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 SBMI 2023 - 7th International Symposium on Systems Biology of Microbial Infection, Sep 2023, Jena, Germany Communication dans un congrès hal-04229116v1
	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 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
	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 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 Maillard 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
	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 , Simon Labarthe Maiage Annual meeting of Agreenskills program, Apr 2019, Bruxelles, Belgium Communication dans un congrès hal-03352429v1
	A Computational Bilayer Surface Model of Human Atria Simon Labarthe , Edward Vigmond , Yves Coudière , Jacques Henry , Hubert Cochet 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 computational bilayer surface model of human atria Simon Labarthe , Edward Vigmond , Yves Coudière , Jacques Henry , Hubert Cochet 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
	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 CINC - Computing in Cardiology 2013, Sep 2013, Zaragoza, Spain. pp.1187-1190 Communication dans un congrès hal-00921262v1
	A Bilayer Representation of the Human Atria Edward Vigmond , Simon Labarthe , Hubert Cochet , Yves Coudière , Jacques Henry 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

	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 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
	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 SBMI 2023 - 7th International Symposium on Systems Biology of Microbial Infection, Sep 2023, Jena, Germany. Poster de conférence hal-04229130v1
	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 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
	Dynamic Flux Balance Analysis with Metamodels Clémence Frioux , Sylvie Huet , Simon Labarthe , Julien Martinelli , Thibault Malou JOBIM 2022 - Les Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2022, Rennes, France. Poster de conférence hal-04236775v1
	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
	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
	Dynamic Flux Balance Analysis with Metamodels Clémence Frioux , Sylvie Huet , Simon Labarthe , Julien Martinelli , Thibault Malou Microbial communities: current approaches and open challenges, Oct 2022, Cambridge, United Kingdom. Poster de conférence hal-04252041v1
	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
	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
	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

	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

	Mathematical models in microbial ecology Simon Labarthe 2019 Autre publication scientifique hal-03352423v1

	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 Falentin 2023 Pré-publication, Document de travail hal-04088301v2
	Deterministic limit of a PDMP model of epithelial tissue interacting with diffusing chemicals and application to the intestinal crypt Léo Darrigade , Simon Labarthe , Béatrice Laroche 2023 Pré-publication, Document de travail hal-04336174v2
	A mixture model for the dynamic of the gut mucus layer Thierry Goudon , Tamara El Bouti , Simon Labarthe , Béatrice Laroche , Tison Remi 2015 Pré-publication, Document de travail hal-01270350v1

	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