Exploration of microbial ecosystems, from compositional patterns to metabolic models
Invited seminar, KU Leuven, Belgium Talk
2022
Logic modelling of metabolism - from individual networks to communities
Bordeaux Bioinformatics Center seminar, France Talk
2021
Logic modelling of metabolism - from individual networks to communities
French workshop on Metabolic Modelling, Bordeaux, France Talk
2021
Metabolic complementarity applied to the screening of microbiota and the identification of key species
Computational Methods in Systems Biology 2021, Bordeaux, France Talk
2021
Metabolic complementarity applied to the screening of microbiota and the identification of key species
Metabolic Pathway Analysis 2021 (virtual) Talk
2020
Metabolic complementarity applied to the screening of microbiota and the identification of key species
JOBIM Conference (virtual), France Talk
2020
Gap-filling metabolism in systems biology and microbial systems ecology
BioNum Seminar — LaBRI, February 2020, Bordeaux, France Talk
2019
Investigating host-microbiota cooperation with gap-filling optimization problems
Invited seminar Quadram Institute of Biosciences , May 2019, Norwich, UK Talk
Investigating host-microbiota cooperation with gap-filling optimization problems
Invited research team seminar Bioinformatics research group, LRI , November 2018, Orsay, France Talk
Scalable and exhaustive screening of metabolic functions in microbiotas
Invited research team seminar UMR Nutriomics, ICAN , October 2018, Paris, France Talk
2018
Scalable and exhaustive screening of metabolic functions carried out by microbial consortia Journées scientifiques de Nantes 2018, June 2018, Nantes, France Talk
2018
Combinatorial approaches for interactions prediction and community selection in holobionts. Gen2Bio 2018, March 2018, Rennes, France Poster
Topology to elucidate the respective roles of species in a symbiotic community International Conference on Holobionts, April 19th-21st 2017, Paris Poster
Combinatorial gap-filling for genome-scale metabolic networks using taxonomy and pathway information
École Jeunes Chercheurs CNRS – 3ème École thématique de modélisation formelle des réseaux de régulation biologique Bioregul, June 6th-10th, Porquerolles Poster
MIMM, moi informaticienne, moi mathématicienne
Bordeaux. Free internship at the University of Bordeaux for young girls in 9th and 10th grade in order to encourage them to choose mathematics and computer science, allows them to discover training, research and jobs in these two disciplines.
2021 - ...
Chiche ! Un ou une scientifique, une classe
Bordeaux and its surrounding regions. Visit of a scientist in high schools in order to advertise academic careers and computer science research while deconstructing stereotypes.
Ariane Badoual
Inria ADT engineer Metagenomic data treatment
PhD supervision
2020 - 2023
Maxime Lecomte
PhD student Inria-INRAE, co-supervised by H. Falentin (INRAE STLO) and D. Sherman (Inria). Hybrid methods for numerical and discrete modelling of microbial communities
2022 - 2025
Chabname Ghassemi Nedjad
PhD student Univ. Bordeaux, co-supervised by L. Paulevé (CNRS, LaBRI). Combinatorial problem solving for the detection of seeds in metabolic networks
Internship supervision
2023
Nicolas Maurice
Master 2 (6 months) Bio-informatique, Univ. de Bordeaux. Co-supervised with C. Lemaitre (Inria) Metagenomic assembly in complex ecosystems
2022
Léonard Brindel
Master 2 (6 months) Bio-informatique, Univ. de Bordeaux. Co-supervised with F. Salin (INRAE) Metagenomic data analysis
2022
Chabname Ghassemi Nedjad
Master 2 (6 months) Bio-informatique, Univ. Paris Cité Metabolic modelling for large metagenomic studies
2021
Mathieu Bolteau
Master 2 (6 months) Bio-informatique, Univ. de Bordeaux Reverse ecology of microbial communities
2020
Maxime Lecomte
Master 2 (6 months) Bio-informatique, Univ. de Bordeaux. Co-supervised with S. Labarthe (INRAE) Metabolic modelling of a cheese bacterial community
2020
Ariane Badoual
Master 2 (6 months) Bio-Informatique et Génomique, Univ. de Rennes 1 Modelling competition in microbial communities
2019
Margot Wagner
Master 2 (6 months) Modélisation en écologie, Univ. de Rennes 1 Analysis of brown algae and microbiota's physiological response to varying growth conditions.
2018
Enora Fremy
Master 2 (6 months) Bio-Informatique et Génomique, Univ. de Rennes 1 In silico prediction of brown-algal bacterial interactions
2017
Claire Lippold
Master 1 (3 months) Bio-Informatique et Génomique, Univ. de Rennes 1. Co-supervised with C. Trottier (Univ. Nantes) Exploration and characterization of the microbiome associated to Ectocarpus subulatus str. BFT