Guillaume GAUTREAU
Publications
Publications
What can genomics learn from natural language processing?Doctoral. Cité internationale universitaire de Paris, France. 2025 |
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Bridging Gene-level And Sequence-level Pangenome Graph To Explore Microbial DiversityJournées Ouvertes de Biologie, Informatique et Mathématiques 2024, Jul 2025, Bordeaux, France. https://jobim2025.labri.fr/JOBIM2025_proceedings_posters.pdf |
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To the species level and beyond A rationalized approach to study pangenomesJournées Ouvertes de Biologie, Informatique et Mathématiques 2024, Jun 2024, Toulouse, France. , Nextcloud, https://nextcloud.inrae.fr/s/An986qpn6CqCQek |
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CroCoDeEL : accurate detection of cross-sample contamination in metagenomic data10th International Human Microbiome Consortium Congress, Jun 2024, Rome, Italy. |
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Towards a machine learning approach for automated detection of well-to-well contamination in metagenomic data31st Annual Intelligent Systems For Molecular Biology and the 22nd Annual European Conference on Computational Biology ( ECCB/ISMB 2023 ), Jul 2023, Lyon, France |
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Towards a machine learning approach for automated detection of well-to-well contamination in metagenomics dataCongrès Junior Pluridisciplinaire 2023, Jun 2023, Gif-sur-Yvette, France |
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Extensive benchmark of machine learning methods for quantitative microbiome dataJOBIM, Jul 2021, Paris, France |
PanGBank: exploring GenBank genomes through a resource of pangenome graphsJOBIM 2020 Journées Ouvertes Biologie, Informatique et Mathématiques, Jun 2020, Montpellier (virtual), France |
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PanGBank: depicting microbial species diversity via PPanGGOLiNJOBIM 2019 Journées Ouvertes Biologie, Informatique et Mathématiques, Jul 2019, Nantes, France |
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Comparative microbial pangenomics to explore mobilome dynamicsJOBIM 2019 Journées Ouvertes Biologie, Informatique et Mathématiques, Jul 2019, Nantes, France |
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MicroScope: an integrated platform for the annotation and exploration of microbial gene functions through genomic and metabolic comparative analysisJOBIM 2019 Journées Ouvertes Biologie, Informatique et Mathématiques, Jul 2019, Nantes, France |
MicroScope: an integrated platform for the annotation and exploration of microbial gene functions through genomic and metabolic comparative analysisInternational symposium on environmental and agronomical genomics, Nov 2018, Paris, France |
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MicroScope: an integrated platform for the annotation and exploration of microbial gene functions through genomic and metabolic comparative analysisJOBIM 2018 Journées Ouvertes Biologie, Informatique et Mathématiques, Jul 2018, Marseille, France |
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SPADEVizR: an R package for Visualization, Analysis and Integration of SPADE resultsJournées Ouvertes en Biologie, Informatique et Mathématiques (JOBIM) 2016, Jun 2016, Lyon, France. ⟨10.7490/f1000research.1112446.1⟩ |
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Genome assembly using Nanopore-guided Long and Error-free DNA readsJournées Ouvertes en Biologie, Informatique et Mathématiques 2015, Jul 2015, Clermont-Ferrand, France |
What genomics can learn from Natural Language Processing?iabioscripting : Utilisation des IA génératives comme appui à la programmation et au scripting pour la biologie, Réseau MERIT; l’Institut Français de Bioinformatique (IFB); Université Paris Cité (iPOP-UP et DU omiques), Jun 2025, Paris, France |
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Feedback from EvoGT LEGO - Journées du GDR BIMMM, GDR BIMMM, Nov 2025, Nantes, France |
Histoire de la pangénomique procaryoteJournées BioinfOmics, BioinfOmics, Dec 2024, Toulouse, France |
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Integrating complex pangenome graphs2024 IEEE 40th International Conference on Data Engineering Workshops (ICDEW), May 2024, Utrecht, New Zealand. pp.350-354, ⟨10.1109/ICDEW61823.2024.00052⟩ |
CroCoDeEL: accurate detection of cross-sample contaminations in metagenomic dataJOBIM2024 : Journées Ouvertes en Biologie, Informatique, et Mathématiques - 2024, Jun 2024, Toulouse, France |
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From Genomics to Pangenomics: the path to pangenome graphsThe 20th MicroScope anniversary, Alexandra Calteau; David Vallenet, Sep 2023, Evry-Courcouronnes, France |
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PPanGGOLiN V2: technical enhancement and new features to analyze thousands of prokaryotic genomesThe local pangenome, Oct 2023, Alicante, Spain |
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panRGP: a pangenome-based method to predict genomic islands and explore their diversityJOBIM 2021 Journées Ouvertes Biologie, Informatique et Mathématiques, Jul 2021, Paris (virtual), France |
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panRGP: a pangenome-based method to predict genomic islands and explore their diversitythe 19th European Conference on Computational Biology, ECCB 2020, Aug 2020, Barcelona (Virtual), Spain |
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MicroScope: an integrated platform for the annotation and exploration of microbial gene functions through genomic and metabolic comparative analysisThe 8th Congress of European Microbiologists, FEMS 2019, Jul 2019, Glasgow, United Kingdom |
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Comparative microbial pangenomics to explore mobilome dynamicsThe 8th Congress of European Microbiologists, FEMS 2019, Jul 2019, Glasgow, United Kingdom |
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PPanGGOLiN: Depicting microbial diversity via a Partitioned Pangenome GraphGenome Informatics 2018, Sep 2018, Hinxton, Cambridge, United Kingdom |
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PPanGGOLiN: Depicting microbial diversity via a Partitioned Pangenome GraphJOBIM 2018 Journées Ouvertes Biologie, Informatique et Mathématiques, Jul 2018, Marseille, France |
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CroCoDeEL: accurate control-free detection of cross-sample contamination in metagenomic data2025 |
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Un droit unique de la Santé2023 |
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Conceptualisation et exploitation d’un graphe de pangénome partitionné comme représentation compacte de la diversité du répertoire génique des espèces procaryotesGénomique, Transcriptomique et Protéomique [q-bio.GN]. Université Paris-Saclay, 2020. Français. ⟨NNT : 2020UPASE001⟩ |