Pré-publication, Document de travail
BIOINFO
Publications
La totalité des publications de l’équipe se trouve sur HAL : https://hal.universite-paris-saclay.fr/LISN-BIOINFO
Vous trouverez ci-dessous les derniers dépôts.
Dernières publications
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Pré-publication, Document de travail
Miriam Bravo-Lopez, Eduardo Arrieta-Donato, Viridiana Villa-Islas, Åshild Joanne Vågene, Ana Villaseñor-Altamirano, et al.. Ancient genomic insights into Salmonella enterica Paratyphi C from Central Mexico. 2025. ⟨hal-05407381⟩
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Article dans une revue
Louis Ollivier, Brian Charlesworth, Fanny Pouyet. Beyond recombination: Exploring the impact of meiotic frequency on genome-wide genetic diversity. PLoS Genetics, 2025, 21 (8), pp.e1011798. ⟨10.1371/journal.pgen.1011798⟩. ⟨hal-05405132⟩
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Communication dans un congrès
Onofrio Semeraro, Michele Alessandro Bucci, Lionel Mathelin, Luigi Marra, Amine Saibi. From robotics to fluid dynamics: opportunities and pitfalls of Reinforcement Learning in flow control. iTi Workshop on Structure and control of wall-bounded turbulent flows, Jul 2025, Bertinoro, Italy. ⟨hal-05379587⟩
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Article dans une revue
Nicolas Bousquet, Quentin Chuet, Victor Falgas-Ravry, Amaury Jacques, Laure Morelle. A note on locating-dominating sets in twin-free graphs. Discrete Mathematics, 2025, 348 (2), pp.114297. ⟨10.1016/j.disc.2024.114297⟩. ⟨hal-05369304⟩
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Article dans une revue
Nicolas Agier, Nina Vittorelli, Louis Ollivier, Frédéric Chaux, Alexandre Gillet-Markowska, et al.. A transient mutational burst occurs during yeast colony development. Molecular Systems Biology, 2025, 21 (9), pp.1214-1236. ⟨10.1038/s44320-025-00117-1⟩. ⟨hal-05389997⟩
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Pré-publication, Document de travail
Fanny Pouyet, Ferdinand Petit, Jérémy Guez, Léo Planche, Evelyne Heyer, et al.. Methods for inferring coalescent tree topologies from genomic data: a comparison based on the transmission of reproductive success. 2025. ⟨hal-05347078⟩
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Pré-publication, Document de travail
Elsa Denakpo, Nicolas Dias, Johann Pitout, Thierry Naas, Dylan Pillai, et al.. Imputing missing minimum inhibitory concentration (MIC) values for Pseudomonas aeruginosa strains with a Denoising AutoEncoder. 2025. ⟨hal-05361361⟩
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Article dans une revue
Qiaomei Fu, Heng Li, Priya Moorjani, Flora Jay, Sergey Slepchenko, et al.. Genome sequence of a 45,000-year-old modern human from western Siberia. Nature, 2014, 514 (7523), pp.445-449. ⟨10.1038/nature13810⟩. ⟨hal-05361150⟩
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Article dans une revue
Arnaud Quelin, Frédéric Austerlitz, Flora Jay. Assessing simulation-based supervised machine learning for demographic parameter inference from genomic data. Heredity, 2025, 134 (7), pp.417-426. ⟨10.1038/s41437-025-00773-x⟩. ⟨hal-05335745⟩
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Communication dans un congrès
Anca Dobrescu, Sarah Cohen-Boulakia, Nona Naderi. Attempt to rerun, reproduce and replicate Clinical Trials Sentence Classification Studies: lessons learnt. ACM REP ’25: ACM Conference on Reproducibility and Replicability, Jul 2025, Vancouver, Canada. pp.243-244, ⟨10.1145/3736731.3746133⟩. ⟨hal-05326886⟩
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Pré-publication, Document de travail
Antoine Szatkownik, Aurélien Decelle, Beatriz Seoane, Nicolas Béreux, Léo Planche, et al.. PRIVET: Privacy Metric Based On Extreme Value Theory. 2025. ⟨hal-05326013⟩
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Communication dans un congrès
Camille de Amorim, Alain Denise. Searching for variable structural motifs in RNA graphs using simple descriptors. JOBIM 2025 – Journées Ouvertes en Biologie, Informatique et Mathématiques, Université de Bordeaux, Jul 2025, Bordeaux, France. ⟨hal-05301347⟩
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Article dans une revue
Yi Qiu, Yoon Mo Kang, Christopher Korfmann, Fanny Pouyet, Andrew Eckford, et al.. The GC-content at the 5′ ends of human protein-coding genes is undergoing mutational decay. Genome Biology, 2024, 25 (1), pp.219. ⟨10.1186/s13059-024-03364-x⟩. ⟨hal-05238528⟩
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Poster de conférence
Maël Lefeuvre, Michael D. Martin, Flora Jay, Marie-Claude Marsolier, Alexis Corrochano, et al.. GRUPS-rs: a high-performance ancient DNA genetic relatedness estimation software based on pedigree simulations. Bulletins et mémoires de la Société d’Anthropologie de Paris 35(S), Jan 2023, Paris, France. 35 (S), pp.30, 2023, ⟨10.4000/bmsap.11299⟩. ⟨hal-05242408⟩
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Poster de conférence
Maël Lefeuvre, Michael D. Martin, Flora Jay, Marie-Claude Marsolier, Alexis Corrochano, et al.. GRUPS-rs, a high-performance ancient DNA genetic relatedness estimation software relying on pedigree simulations. JOBIM 2023 – Journées Ouvertes en Biologie, Informatique et Mathématiques, Jun 2023, Multisite, France. ⟨hal-05242467⟩
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Communication dans un congrès
Clémence Sebe, Sarah Cohen-Boulakia, Olivier Ferret, Aurélie Névéol. Extracting Information in a Low-resource Setting: Case Study on Bioinformatics Workflows. Symposium on Intelligent Data Analysis (IDA 2025), May 2025, Konstanz, Germany. pp.274-287, ⟨10.1007/978-3-031-91398-3_21⟩. ⟨hal-05244222⟩
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Ouvrages
Christine Froidevaux, Martin-Magniette Marie-Laure, Guillem Rigaill (Dir.). Intégration de données biologiques. Approches informatiques et statistiques. ISTE, 2022, 978-1789480306. ⟨hal-05175499⟩
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Communication dans un congrès
Ulysse Le Clanche, Sarah Cohen-Boulakia, Yann Le Cunff, Olivier Dameron, Alban Gaignard. Assessing bioinformatics software annotations: bio.tools case-study. JOBIM 2025 – Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2025, Bordeaux & Online, France. pp.1-7. ⟨hal-05096849⟩
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Communication dans un congrès
Xiao Xiao, Sarah Fdili Alaoui. Tuning In to Intangibility : Reflections from My First 3 Years of Theremin Learning. DIS 2024 – Designing Interactive Systems Conference, Jul 2024, Copenhagen, Denmark. pp.2649-2659, ⟨10.1145/3643834.3661584⟩. ⟨hal-04930549⟩
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Article dans une revue
Maxime Mahout, Laurent Schwartz, Romain Attal, Ashraf Bakkar, Sabine Peres. Metabolic modelling links Warburg effect to collagen formation, angiogenesis and inflammation in the tumoral stroma. PLoS ONE, 2024, 19 (12), pp.e0313962. ⟨10.1371/journal.pone.0313962⟩. ⟨hal-04873696⟩
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Article dans une revue
Dilek Koptekin, Ayça Aydoğan, Cansu Karamurat, N. Ezgi Altınışık, Kıvılcım Başak Vural, et al.. Out-of-Anatolia: cultural and genetic interactions during the Neolithic expansion in the Aegean. Science, 2025, 388 (6754), pp.adr3326. ⟨10.1126/science.adr3326⟩. ⟨hal-04801125⟩
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Pré-publication, Document de travail
Antoine Szatkownik, Léo Planche, Maïwen Demeulle, Titouan Chambe, María Ávila-Arcos, et al.. Diffusion-based artificial genomes and their usefulness for local ancestry inference. 2024. ⟨hal-04801121⟩
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Pré-publication, Document de travail
Antoine Szatkownik, Cyril Furtlehner, Guillaume Charpiat, Burak Yelmen, Flora Jay. Latent generative modeling of long genetic sequences with GANs. 2024. ⟨hal-04801130⟩
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Pré-publication, Document de travail
Burak Yelmen, Maris Alver, Estonian Biobank Research Team, Flora Jay, Lili Milani. Interpreting artificial neural networks to detect genome-wide association signals for complex traits. 2024. ⟨hal-04801114⟩