Dernières publications

Patrice Loisel, Marielle Brunette, Stéphane Couture (2025). Ambiguity, value of information and forest rotation decision under storm risk. Resource and Energy Economics.

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Hanna Bacave, Paul Huguet, Edgar Belin, Elodie Gilbault, Olivier O. Zurfluh, O Loudet, Véronique Letort, Anne Goelzer (2025). From Phenoscope to GreenLab model of Arabidopsis to decipher genotype and treatment effects. 2025 Joint International Conference on Crop/Plant Modeling, Big Data and Applications (2025PMBDA）.

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Lysiane Dunière, Philippe Ruiz, Frédérique Chaucheyras-Durand, Mathieu Silberberg, Anne Boudon, Pierre Nozière, Evelyne Forano (2025). Evaluation of esophageal tubing and buccal swabbing versus rumen cannula to characterize ruminal microbiota in cows fed contrasting diets. Scientific Reports.

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Mekki Boussaha, Camille Eché, Christophe Klopp, Cécile Grohs, Marine Milhes, Amandine Suin, Tabatha Bulach, Rachel Fourdin, Thomas Faraut, Claire Kuchly, Sébastien Fritz, Caroline Vernette, Maulana Naji, Valentin Sorin, Aurélien Capitan, Christine Gaspin, Denis Milan, Didier Boichard, Carole Iampietro, Cécile Donnadieu (2025). Whole genome short read data from 567 bulls of 14 breeds provides insight into genetic diversity of French cattle. Data in Brief.

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Caroline Vilarem, Vincent Piou, Lucie Bouly, Frédéric Julien, Rachel Fourdin, Nathalie Vialaneix, Matthias Zytnicki, Angélique Vétillard (2025). No detectable impact of chronic oral lactic acid exposure on honey bee health: Insights from survival, lactate accumulation and head transcriptome. Ecotoxicology and Environmental Safety.

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Leon Dirick, Y. Liu, S. Dong, J. Yu, Laurent Ouerdane, M. Storti, A. Alboresi, Catherine Curie, B. Goffinet (2025). Multiple independent acquisitions of a metallophore-synthesis gene by plants through horizontal microbial gene transfer. Nature Communications.

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Marcelo Hurtado, Abdelmounim Essabbar, Leila Khajavi, Vera Pancaldi (2025). multideconv - an integrative pipeline for efficiently combining first and second generation cell type deconvolution results.

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Ronan Trépos, Régis Sabbadin, Sam Nicol, Nathalie Peyrard (2025). Inference in a Factorial Hidden Semi-Markov Model with Variational EM.

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Marie Pegard, Adela Poublan-Couzardot, Philippe Barre, Simon de Givry, Christine Gaspin, Fabrice Legeai, Frédéric Choulet, Christophe Klopp, Bernadette Julier (2025). Enhanced Genome Assemblies of French-Bred Dactylis glomerata and Medicago sativa: Achieving High-Quality Tetraploid Genomes. Breeding and Genetic Improvement for a Net-Zero Future.

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Pauline Desvignes, Philippe Ruiz, Laurie Guillot, Jeanne Danon, Alexandra Durand, Martin Beaumont, Frédérique Chaucheyras-Durand, Evelyne Forano (2025). Transcriptomic analysis of the interactions between Fibrobacter succinogenes S85, Selenomonas ruminantium PC18 and a live yeast strain used as a ruminant feed additive. BMC Genomics.

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Natasha Horta Araújo, David Landry, Johan Quilbé, Marjorie Pervent, Nico Nouwen, Christophe Klopp, Julie Cullimore, Djamel Gully, Céline Vicedo, Virginie Gasciolli, Laurent Brottier, Carole Pichereaux, Martin Racoupeau, Maëlle Rios, Frédéric Gressent, Clémence Chaintreuil, Clare Gough, Eric Giraud, Benoit Lefebvre, Jean-François Arrighi (2025). The receptor-like cytoplasmic kinase AeRLCK2 mediates Nod-independent rhizobial symbiosis in Aeschynomene legumes. The Plant cell.

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Marielle Brunette, Stéphane Couture, Kene Boun My (2025). Probabilistic ambiguity, outcome ambiguity or both: Does it matter for the decision-maker?. Journal of Behavioral and Experimental Economics.

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Laëtitia Leclerc, Gabryelle Agoutin, Thierry Brévault, Antony Champion, Jean Mainguy, Nicolas Nègre, Sudeeptha Yainna, Géraldine Pascal, Sophie Gaudriault, Jean-Claude Ogier (2025). Nested PCR to optimize rpoB metabarcoding for lowconcentration and host-associated bacterial DNA. Microbiology Spectrum.

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Olivier Rué, Nurul Novelia Fuandila, Saliha Hammoumi, Christine Gaspin, Jean-Christophe Avarre (2025). Micro-RNA expression data from common carp brain cells infected by Cyvirus cyprinidallo3 at permissive and non-permissive temperatures. Data in Brief.

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Louis Paré, Philippe Bordron, Laurent David, Maxime Mahé, Audrey Bihouée, Damien Eveillard (2025). HUMESS: integrating quantitative transcriptomic analysis and metabolic modeling to unveil condition-specific gene signatures. Bioinformatics.

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Florent Blaise, Philippe Bordron, Patrice Dehais, Vincent Dominguez, Christine Gaspin, Fabien Graziani, Claire Hoede, Christophe Klopp, Didier Laborie, Céline Noirot, Philippe Ruiz, Adela Poublan-Couzardot, Martin Racoupeau, Marie-Stéphane Trotard, Nathalie Vialaneix, Matthias Zytnicki (2025). The Genotoul-Bioinfo platform. JOBIM2025.

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Philippe Bordron, Julien Touchais, Christine Gaspin (2025). SnoBoard: surfing on ncRNA modifications and snoRNA guides. JOBIM2025.

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Soraya Arias, Michel Bergmann, Fabien Campillo, Marie-Agnès Enard, Christian Fabre, Frédérick Garcia, Benjamin Guedj, Emmanuel Jeannot, Giovanni Neglia, Diane Peurichard, Daniel Racoceanu, Benoît Sagot, Gaëlle Tworkowski (2025). Reflections on the Use of Generative AI for Research Professions.

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Lucien Piat, Sukanya Denni, Siegfried Dubois, Florent Couturier, Nicolas Lapalu, Benjamin Linard, Claire Lemaitre, Ludovic Duvaux (2025). MSpangepop: Simulating complex structural variants under advanced demographic scenarios using the coalescent. JOBIM 2025 - Journées Ouvertes en Biologie, Informatique et Mathématiques.

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Guilmois„ Céline, Tom Rohmer, Maria Poparoch (2025). Learning basic mathematic skills in primary school: Testing the effectiveness of socio-constructivist and explicit instruction. School Effectiveness and School Improvement.

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Celestine Belloeil, Vanesa Sanchez Garcia de la Torre, Ruben Contreras Aguilera, Hendrik Kupper, Celine Lopez-Roques, Carole Iampetro, Celine Vandecasteele, Christophe Klopp, Alexandra Launay-Avon, Wiebke Leemhuis, Jitpanu Yamjabok, Joost van den Heuvel, Mark G.M. Aarts, Celestino Quintela Sabaris, Sebastien Thomine, Sylvain Merlot (2025). Gain and loss of gene function shaped the nickel hyperaccumulation trait in Noccaea caerulescens. BioRxiv.

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Noémien Maillard, Christophe Klopp, Donnadieu Cécile, Julie Demars, Raphaël Mourad (2025). Cross-Species Predictions of Chromatin Annotations using Neural Networks. European Conference on Computational Biology 2025 (ECCB 2025).

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Adela Poublan-Couzardot, Bernadette Julier, Marie Pégard, Simon De Givry, Christine Gaspin, Fabrice Legeai, Frédéric Choulet, Christophe Klopp (2025). A Strategy for Balanced Haplotype-Resolved De Novo Assembly of the Autotetraploid Genome of Medicago sativa. JOBIM 2025 (Journées ouvertes de Bio-Informatique 2025).

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Élise Jorge, Sylvain Foissac, Pierre Neuvial, Matthias Zytnicki, Nathalie Vialaneix (2025). A comprehensive review and benchmark of differential analysis tools for Hi-C data. ISMB/ECCB.

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Camille Guilmineau, Rémi Servien, Marie Tremblay-Franco, Nathalie Vialaneix (2025). phoenics : une nouvelle approche statistique pour l'analyse différentielle longitudinale de voies métaboliques. 56. Journées de Statistique de la SFdS (JdS 2025).

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Élise Jorge, Pierre Neuvial, Nathalie Vialaneix, Sylvain Foissac (2025). Inférence post hoc pour l'analyse différentielle de données Hi-C. 56e Journées de Statistique de la SFdS (JdS 2025).

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Aurélie Manicki, Gaëlle Brahy, Christophe Klopp, Aurélie Berard, Damien Hinsinger, Maika Minjou, Christine Ducos, Franois Gueraud, Sylvie Muratorio, Jacques Labonne (2025). Diversité et structure génomique d'une population de truite en expansion aux Iles Kerguelen : mise au point d'une approche de Poolseq. INRAE Genomics.

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Jean Mainguy, Claire Hoede (2025). Binette. version.

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Bessam Azizi, Thomas Schiex, Sophie Barbe (2025). AI Diffusion Models for Computational Protein Design. GGMM.

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Lucie Barthe, Damien Balestrino, Bessam Azizi, Delphine Dessaux, Vanessa Soldan, Jérémy Esque, Thomas Schiex, Sophie Barbe, Luis F Garcia-Alles (2025). Promiscuous structural cross-compatibilities between major shell components of Klebsiella pneumoniae bacterial microcompartments. PLoS ONE.

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Sarah Maman, Philippe Bardou, Emilien Lasguignes, Faustine Oudin, Floréal Cabanettes, Christophe Klopp (2025). IntronSeeker. version.

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Aurelie Mercadie (2025). Intégration de données omiques de la peau issues d'expériences multi-groupes.

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Sonia E Eynard, Kossi-Julien Kowou, Cécile Donnadieu, Loïc Flatres-Grall, Carole Iampietro, Sandrine Lagarrigue, Sophie Leroux, Joanna Lledo, Marie-José Mercat, Juliette Riquet, Céline Vandecasteele, Frédérique Pitel, Bertrand Servin (2025). Genetic and epigenetic selection signatures from pool sequencing experiment. Biology of genomes.

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Mohamed Anwar Abouabdallah, Olivier Coulaud, Nathalie Peyrard, Alain Franc (2025). Computing WSBM conditional marginals with Tensor-Train decomposition.

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Orlane Rossini, Meritxell Vinyals, Alice Cleynen, Benoîte de Saporta, Régis Sabbadin (2025). Bayes-Adaptive Impulse Control of Piecewise-Deterministic Markov Processes.

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A. Régimbeau, F. Tian, G. Smith, V Riddell, C. Andreani, P. Bordron, M. Budinich, C. Howard-Varona, A. Larhlimi, E. Ser-Giacomi, C. Trottier, L. Guidi, S.J. Hallam, D. Iudicone, E. Karsenti, A. Maass, M.B. Sullivan, Damien Eveillard (2025). Planetary-scale heterotrophic microbial community modeling assesses metabolic synergy and viral impacts.

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Paul Terzian, Céline Vandecasteele, Joanna Lledo, Rémy-Félix Serre, Jules Sabban, Claire Kuchly, Frédérique Pitel, Sophie Leroux, Julie Demars, Nathalie Iannuccelli, Katia Fève, Michèle Bonnet, Christine Gaspin, Denis Milan, Carole Iampietro, Christophe Klopp, Cécile Donnadieu (2025). Pig and quail CpG methylation datasets from short and long read sequencing technologies. *Scientific Data *.

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Camille Guilmineau, Marie Tremblay-Franco, Nathalie Vialaneix, Rémi Servien (2025). Phoenics: a novel statistical approach for longitudinal metabolomic pathway analysis. BMC Bioinformatics.

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Louis Paré, Philippe Bordron, Laurent David, Maxime Mahé, Audrey Bihouée, Damien Eveillard (2025). HUMESS: Integrating Quantitative Transcriptomic Analysis and Metabolic Modeling to Unveil Condition-Specific Gene Signatures.

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Nathalie Rousse, Patrick Chabrier, Rachid Yahiaoui, Manuel P Martin, Eric Casellas, Estelle Ancelet (2025). Communiquer avec SIWAA via une API web: Un exemple de pilotage à distance de simulations mis en oeuvre sur le projet CarboSeq. Séminaire MIAT.

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Léo Biré, Quynh Nga Phung, Patrick Taillandier, Diep Anh Phung, Ngoc Doanh Nguyen, Alexis Drogoul (2025). RÁC, a Serious Agent-Based Simulation Game to Drive Discussion on Waste Management in Vietnamese Irrigation Systems. Journal of Artificial Societies and Social Simulation.

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Lucie Barthe, Damien Balestrino, Bessam Azizi, Delphine Dessaux, Vanessa Soldan, Jérémy Esque, Thomas Schiex, Sophie Barbe, Luis Fernando Garcia-Alles (2025). Promiscuous structural cross-compatibilities between major shell components of Klebsiella pneumoniae bacterial microcompartments.

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Laure Gress, Sarah Maman-Haddad, Nathalie Marty-Gasset, Nathalie Vialaneix, Agnès Bonnet (2025). Plan de gestion des données CO-LOcATION Version Finale.

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Frédérick Garcia, Sophie Schbath (2025). Les impacts de l'IA sur l'environnement. Conseil général de l’Économie, ministère de l’Économie et des Finances.

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Jean-Marc Azaïs, Céline Delmas (2025). Landscape k-complexity of isotropic centered Gaussian fields.

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Nina Marthe, Matthias Zytnicki, Francois Sabot (2025). GrAnnoT, a tool for efficient and reliable annotation transfer through pangenome graph.

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Lucile Martin, Philippe Ruiz, Sabine Leroy, Sapountzis Panagiotis (2025). Escobase and AcR: Escherichia coli databases of genomes and acid resistance genes from isolates from cattle farms.

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Elise Jorge, Sylvain Foissac, Pierre Neuvial, Matthias Zytnicki, Nathalie Vialaneix (2025). A comprehensive review and benchmark of differential analysis tools for Hi-C data. Briefings in Bioinformatics.

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Florent Couturier, Lucien Piat, Sukanya Denni, Alexis Mergez, Gabriele Magris, Aglaia Szukala, Maria Valbuena, Christophe Plomion, Sara Pinosio, Enrique Saez-Laguna, Christophe Klopp, Ludovic Duvaux (2025). The pangenome of European white oaks : A new approach to assess genetic diversity. Doctorales de la forêt.

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Aurélie Mercadié, Éléonore Gravier, Gwendal Josse, Isabelle Fournier, Cécile Viodé, Nathalie Vialaneix, Céline Brouard (2025). NMFProfiler: a multi-omics integration method for samples stratified in groups. Bioinformatics.

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Chloé Bessière, Fabienne Meggetto, Christine Gaspin, Steffen Fuchs (2025). Identification of Circular RNA Variants by Oxford Nanopore Long-Read Sequencing. Gene Expression Analysis.

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N I Prasianakis, E. Laloy, D. Jacques, J C L Meeussen, G D Miron, D A Kulik, A. Idiart, E. Demirer, E. Coene, B. Cochepin, M. Leconte, M E Savino, J. Samper-Pilar, M. de Lucia, S V Churakov, O. Kolditz, C. Yang, J. Samper, Francis Claret (2025). Geochemistry and machine learning: methods and benchmarking. Environmental Earth Sciences.

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Katherine Albanese, Sophie Barbe, Shunsuke Tagami, Derek Woolfson, Thomas Schiex (2025). Computational Protein Design. Nature Reviews Methods Primers.

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Natasha Horta Araújo, David Landry, Johan Quilbé, Marjorie Pervent, Nico Nouwen, Christophe Klopp, Julie V Cullimore, Djamel Gully, Laurent Brottier, Carole Pichereaux, Carole Pichereaux, Martin Racoupeau, Maëlle Rios, Frédéric Gressent, Clémence Chaintreuil, Clare Gough, Eric Giraud, Benoit Lefebvre, Jean-François Arrighi (2025). A Receptor Like Cytoplasmic Kinase evolved in Aeschynomene legumes to mediate Nod-independent rhizobial symbiosis.

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Franck Taillandier, Patrick Taillandier, Pénélope Brueder, Noé Brosse (2025). The dynamic sketch map to support reflection on urban flooding. International Journal of Disaster Risk Reduction.

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Charles-Elie Rabier, Céline Delmas (2025). The AdaptSgenoLasso, an extended version of the SgenoLasso, for gene mapping and for genomic prediction using the extremes. Statistics.

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Nathalie Vialaneix, Elise Maigne, Jerome Mariette, Madalina Olteanu, Fabrice Rossi (2025). SOMbrero: SOM Bound to Realize Euclidean and Relational Outputs. version 1.4.2.

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Soraya Arias, Michel Bergmann, Fabien Campillo, Marie-Agnès Enard, Christian Fabre, Frédérick Garcia, Benjamin Guedj, Emmanuel Jeannot, Giovanni Neglia, Diane Peurichard, Daniel Racoceanu, Benoît Sagot, Gaëlle Tworkowski (2025). Réflexions sur l'usage de l'IA générative pour les métiers de la recherche.

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Hanna Bacave, Pierre-Olivier Cheptou, Nikolaos Limnios, Nathalie Peyrard (2025). Non parametric observation-driven hidden Markov model. Communications in Statistics - Theory and Methods.

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Liming Peng, Maksym Odnoroh, Mathias Destarac, Yannick Coppel, Céline Delmas, Florence Benoit-Marquié, Christophe Mingotaud, Jean-Daniel Marty (2025). How tailor-made copolymers can control the structure and properties of hybrid nanomaterials: the case of polyionic complexes. Nanoscale.

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Elyas Mouhou, Fabien Genty, Walid El M'Selmi, Hanae Chouali, Jean-François Zagury, Sigrid Le Clerc, Charlotte Proudhon, Josselin Noirel (2025). High tissue specificity of lncRNAs maximises the prediction of tissue of origin of circulating DNA. Scientific Reports.

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Prasanna Maddila, Sabbadin Régis, Vinyals Meritxell (2025). Efficiently computing Nash Equilibria in Multi-Adversarial Team Games.

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Anaïs Marquisseau, Kamila Canale-Tabet, Emmanuelle Labarthe, Géraldine Pascal, Christophe Klopp, André Pornon, Nathalie Escaravage, Rémi Rudelle, Alain Vignal, Annie Ouin, Mélodie Ollivier, Magalie Pichon (2025). Building a reliable 16S mini-barcode library of wild bees from Occitania, south-west of France. Biodiversity Data Journal.

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Matthias Zytnicki (2025). Assessing genome conservation on pangenome graphs with PanSel. Bioinformatics Advances.

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Sonia E. Eynard, Christophe Klopp, Kamila Canale-Tabet, William Marande, Céline Vandecasteele, Céline Roques, Cécile Donnadieu, Quentin Boone, Bertrand Servin, Alain Vignal (2024). The black honey bee genome: insights on specific structural elements and a first step towards pangenomes. Genetics Selection Evolution.

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Sarah Maman-Haddad, Laure Gress, Amandine Suin, Nathalie Vialaneix, Agnès Bonnet (2024). RNA-seq data of pig placenta and endometrium during late gestation. Data in Brief.

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Siegfried Dubois, Matthias Zytnicki, Claire Lemaitre, Thomas Faraut (2024). Pairwise graph edit distance characterizes the impact of the construction method on pangenome graphs. Bioinformatics.

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Jean Mainguy, Maïna Vienne, Joanna Fourquet, Vincent Darbot, Céline Noirot, Adrien Castinel, Sylvie Combes, Christine Gaspin, Denis Milan, Cécile Donnadieu, Carole Iampietro, Olivier Bouchez, Géraldine Pascal, Claire Hoede (2024). metagWGS, a comprehensive workflow to analyze metagenomic data using Illumina or PacBio HiFi reads.

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Frédérick Garcia, Bruno Moulia, Aroune Duclos, Eric Ballestero, Adelin Barbacci (2024). Ce que le son fait aux plantes. Pour la science.

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Prasanna Maddila, Régis Sabbadin, Meritxell Vinyals (2024). Un modèle de jeu stochastique pour la lutte anti-braconnage et un benchmark pour l'Apprentissage par Renforcement Multi-agents. JFSMA 2024: 32èmes Journées Francophones sur les Systèmes Multi-Agents.

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Aldair Martin Martinez Pineda, Bertille Pouget, Claire Hoede, Christine Gaspin, Romain Volmer (2024). The first risk assessment tool to predict the emergence of high pathogenicity H5/H7 Avian Influenza variants. Virus Genomics, Evolution and Bioinformatics 2024..

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Patrick Taillandier, Arthur Brugière, Alexis Drogoul (2024). SIMPLE Toolchain: Coupling GAMA simulation with VR universe. GAMA Days 2024.

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Matthias Zytnicki (2024). pansel. version.

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Nghia Truong Tuan, Patrick Taillandier, Ines Langlet, Maxine Bisbau, Arnaud Grignard, Alexis Drogoul (2024). Moov'Hanoi : A Data-Driven Agent-Based Model for Simulating Multimodal Urban Mobility in Hanoi. GAMA Days 2024.

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Sarah Maman, Philippe Bardou, Emilien Lasguignes, Faustine Oudin, Floréal Cabanettes, Christoph Klopp (2024). Finding and removing introns from RNA-Seq de novo assemblies with IntronSeeker. Journal of Open Source Software.

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Hanna Bacave (2024). Extension des modèles de (semi-)Markov cachés et algorithmes pour estimer la dynamique de (méta)populations partiellement observables.

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Hanna Bacave (2024). Extension des modèles de (semi-)Markov cachés et algorithmes pour estimer la dynamique de (méta)populations partiellement observables.

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Abdourahmane Diallo, Annabelle Larmure, Ronan Trépos, Eric Casellas, Marion Prudent (2024). Comment adapter la culture de pois au changement climatique ? Approche par simulation de combinaisons ``génotype x environnement x pratiques culturales'' dans des climats français contrastés - 2024-2027.

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Maillard Noémien, Klopp Christophe, Donnadieu Cécile, Riquet Juliette, Fève Katia, Julie Demars, Mourad Raphaël (2024). Can Neural Networks be used to Predict Cross-Species Annotations of Chromatin Regulation ?. Journée Bioinfo/Biostat GenoToul.

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Baptiste Lesquoy, Patrick Taillandier, Benoit Gaudou, Kevin Chapuis, Arnaud Grignard, Nghi Quang Huynh, Arthur Brugiere, Lucas Grosjean, Alexis Drogoul (2024). Behind the scenes: an overview of the GAMA platform's environment and development practices. GAMA Days 2024.

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Maxence Lanoizelet, Léo Michel, Ronan Lagadec, Hélène Mayeur, Lucile Guichard, Valentin Logeux, Dany Séverac, Kyle Martin, Christophe Klopp, Sylvain Marcellini, Héctor Castillo, Nicolas Pollet, Eva Candal, Mélanie Debiais-Thibaud, Catherine Boisvert, Bernard Billoud, Michael Schubert, Patrick Blader, Sylvie Mazan (2024). Analysis of a shark reveals ancient, Wnt-dependent, habenular asymmetries in vertebrates. Nature Communications.

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Pierre Montalbano, Simon de Givry, George Katsirelos (2024). A Conflict-Free Learning Approach for MILP and WCSP Optimisation. 1st International Workshop on Solving Linear Optimization Problems for Pseudo-Booleans and Yonder (SLOPPY ‘24).

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Stacy Rousse, Chloé Cerutti, Sophie Leroux, Paul Terzian, Joanna Lledo, David Gourichon, Rémy-Félix Serre, Céline Vandecasteele, Christophe Klopp, Carole Iampietro, Christine Gaspin, Denis Milan, Cécile Donnadieu, Frédérique Pitel, Guillaume Devailly, Sonia E Eynard (2024). Transgenerational epigenetics in quail: targeting DNA methylation patterns to address the interplay between genetic and epigenetic mechanisms. Ecology and Evolution.

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Hanna Bacave, Pierre-Olivier Cheptou, Nikolaos Limnios, Nathalie Peyrard (2024). Non-parametric Observation Driven HMM.

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Jean Mainguy, Claire Hoede (2024). Binette: a fast and accurate bin refinement tool to construct high quality Metagenome Assembled Genomes.. Journal of Open Source Software.

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Prasanna Maddila, Eric Casellas, Patrick Chabrier, Régis Sabbadin, Meritxell Vinyals (2024). APE: An Anti-poaching Multi-Agent Reinforcement Learning Benchmark. 17th European Workshop on Reinforcement Learning (EWRL 2024).

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Valentin Sorin, Marie-Pierre Sanchez, Carole Iampietro, Camille Eché, Amandine Suin, Camille Marcuzzo, Laurence Drouilhet, Denis Milan, Gwenola Tosser-Klopp, Cécile Donnadieu, Christine Gaspin, Clément Birbes, Christophe Klopp, Didier Boichard, Mekki Boussaha (2024). The construction of a cattle pangenome for 14 French dairy and beef breeds provides new insights into their genetic diversity.. Annual Meeting of the European Association for Animal Production.

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Julien Guidihounme, Simon De Givry, Benjamin Linard (2024). Simplified pangenome graph traversals with PSSM scoring : search for motifs differentials. Methods for Interfacing with Graphs of Genomic Sequences.

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Han Phan, Céline Brouard, Raphaël Mourad (2024). Semi-supervised learning with pseudo-labeling compares favorably with large language models for regulatory sequence prediction. Briefings in Bioinformatics.

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Marianne Defresne, Sophie Barbe, Thomas Schiex (2024). Scalable Coupling of Deep Learning with Logical Reasoning. First International Workshop on Discrete Optimization with Soft Constraint..

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Matthias Zytnicki (2024). PanSel: a tool finding conserved/divergent regions. Methods for Interfacing with Graphs of Genomic Sequences.

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Siegfried Dubois, Matthias Zytnicki, Thomas Faraut, Claire Lemaitre (2024). Pangenome graph manipulation for local visualisation with pancat. MIGGS1 2024 - 1st symposium on Methods for Interfacing with Graphs of Genomic Sequences.

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Jean Mainguy, Maïna Vienne, Joanna Fourquet, Pierre Martin, Vincent Darbot, Céline Noirot, Philippe Ruiz, Géraldine Pascal, Claire Hoede (2024). metagWGS. version v2.4.2.

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Sara Alina Neumann, Jacinthe Azevedo-Favory, Rémy Merret, Marie-Christine Carpentier, Julien Henry, V. Marchand, Anne Debures, Magali Rompais, Christine Carapito, Yuri Motorin, Julio Sáez-Vásquez (2024). Mechanisms and impact of ribosomal RNA methylation in plants. The 2024 Post-transcriptional Gene Regulation in Plants meeting.

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Marianne Defresne, Sophie Barbe, Thomas Schiex (2024). Learning how to design biomolecules using a neuro-symbolic architecture. AISSAI - Heterogeneous Data and Large Representation Models in Science.

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Hanna Bacave, Pierre-Olivier Cheptou, Nathalie Peyrard (2024). Interacting Partially Observable DBN to model the dynamics of partially observable metapopulations : opportunities and open challenges.

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Maya Hiltpold, Ronan Trépos, Frédéric Douhard (2024). Exploring potential GxE interactions in the lifetime performance of suckling ewes. Wageningen Academic Publishers.

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Valentin Sorin, Julien Sarry, Clément Birbes, Carole Iampietro, Camille Eché, Amandine Suin, Camille Marcuzzo, Laurence Drouilhet, Denis Milan, M Boussaha, M P Sanchez, Cécile Donnadieu, Christine Gaspin, Christophe Klopp, Gwenola Tosser-Klopp (2024). Construction and characterization of a comprehensive ovine pangenome from 11 breeds provides new insights into their genetic diversity. 75. Annual Meeting of the European Federation of Animal Science (EAAP 2024).

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Khaoula Hadj-Amor, Ophélie Léger, Sylvain Raffaele, Magdalena Kovacic, Aroune Duclos, Pedro Carvalho-Silva, Frédérick Garcia, Adelin Barbacci (2024). ``Out of sight, out of mind''. The antagonistic role of the transcriptional memory associated with repeated acoustic stimuli on the priming of plant defense.

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Alexandre Lhuisset (2024). Assurances forestières et politiques publiques : Une approche basée sur la théorie des jeux.

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