PhD | Computer Science — Computational biology
Junior researcher
Inria Bordeaux - France
We're hiring!
Postdoc position - two years (+ 2 more possible) - starting in September 2025 on metabolic modelling for uncultured minimal bacteria. More information: check the job offer and contact me
Research interests
Systems biology, Computational biology
Microbial communities, Metabolic modelling
Machine learning, Machine reasoning
Answer Set Programming, Symbolic AI
Gut microbiome, Agroecology, Marine biology
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Latest publications
- Arnaud Belcour, Pauline Hamon-Giraud, Alice Mataigne, Baptiste Ruiz, Yann Le Cunff, Jeanne Got, Lorraine Awhangbo, Mégane Lebreton, Clémence Frioux, Simon Dittami, Patrick Dabert, Anne Siegel, and Samuel Blanquart. Estimating consensus proteomes and metabolic functions from taxonomic affiliations. bioRxiv, :2022.03.16.484574, 2025. http://doi.org/10.1101/2022.03.16.484574Nicolas Maurice, Claire Lemaitre, Riccardo Vicedomini, and Clémence Frioux. Mapler: Assessing assembly quality in taxonomically rich metagenomes sequenced with HiFi reads. bioRxiv, 2025. http://doi.org/10.1101/2025.03.10.641994Chabname Ghassemi Nedjad, Mathieu Bolteau, Lucas Bourneuf, Loïc Paulevé, and Clémence Frioux. Seed2LP: seed inference in metabolic networks for reverse ecology applications. Bioinformatics, :btaf140, 2025. http://doi.org/10.1093/bioinformatics/btaf140Constanza M. Andreani-Gerard, Natalia E. Jiménez, Ricardo Palma, Coralie Muller, Pauline Hamon-Giraud, Yann Le Cunff, Verónica Cambiazo, Mauricio González, Anne Siegel, Clémence Frioux*, and Alejandro Maass*. Modeling the emergent metabolic potential of soil microbiomes in Atacama landscapes. bioRxiv, 2024. http://doi.org/10.1101/2024.12.23.630026Maxime Lecomte, Wenfan Cao, Julie Aubert, David James Sherman, Hélène Falentin, Clémence Frioux, and Simon Labarthe. Revealing the dynamics and mechanisms of bacterial interactions in cheese production with metabolic modelling. Metabolic Engineering, 2024. http://doi.org/10.1016/j.ymben.2024.02.014Klara Cerk, Pablo Ugalde‐Salas, Chabname Ghassemi Nedjad, Maxime Lecomte, Coralie Muller, David J. Sherman, Falk Hildebrand, Simon Labarthe, and Clémence Frioux. Community‐scale models of microbiomes: Articulating metabolic modelling and metagenome sequencing. Microbial Biotechnology, 17(1) :e14396, 2024. http://doi.org/10.1111/1751-7915.14396