Anthony Bretaudeau
Publications
Publications
Misconceptions about Galaxy debunked by the (French) Galaxy CommunityJOBIM 2024 - Journées Ouvertes Biologie Informatique Mathématiques, Jun 2024, TOULOUSE, France. pp.1-28 |
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Galaxy France: an example of a national UseGalaxy serverGCC 2024 - Galaxy Community Conference, Jun 2024, Brno, Czech Republic. pp.1-15, ⟨10.7490/f1000research.1119767.1⟩ |
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AskoR, A R Package for Easy RNASeq Data AnalysisIECE 2021 - 1st International Electronic Conference on Entomology, Jul 2021, Virtual, France. pp.1-8, ⟨10.3390/IECE-10646⟩ |
Metabolic complementarity applied to the screening of microbiota and the identification of key speciesCMSB 2021 - 19th International Conference on Computational Methods in Systems Biology, Sep 2021, Bordeaux, France. pp.1-27 |
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Metabolic complementarity applied to the screening of microbiota and the identification of key speciesMPA 2021 - 8th Metabolic Pathway Analysis, Aug 2021, Knoxville, TN, United States. pp.1-27 |
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Metabolic complementarity applied to the screening of microbiota and the identification of key speciesJOBIM 2021 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2021, Paris, France |
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AskOmics: a user-friendly interface to Semantic Web technologies for integrating local datasets with reference resourcesJOBIM 2019 - Journées Ouvertes Biologie, Informatique et Mathématiques, Jul 2019, Nantes, France. pp.1 |
Integration of Linked Data into Galaxy using AskomicsGalaxy Community Conference, Jun 2017, Montpellier, France |
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AskOmics, a web tool to integrate and query biological data using semantic web technologiesJOBIM 2017 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2017, Lille, France. pp.1 |
BIPAA/Askomics, a new and easy approach for querying genomics and epigenomics elements in interactionXXVth International Congress of Entomology 2016, Sep 2016, Orlando, Florida, United States |
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Genome scans on experimentaly evolved globodera pallida populations to identify molceular basis of adaptation to GPAV(VRN) potato resistanceJoint Meeting of the Society of Nematologists and the Organization of Nematologists of Tropical America (ONTA), 2016, Jul 2016, Montreal, Canada. 387 p |
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AskOmics : Intégration et interrogation de réseaux de régulation génomique et post-génomiqueIN OVIVE (INtégration de sources/masses de données hétérogènes et Ontologies, dans le domaine des sciences du VIVant et de l’Environnement), Institut National de Recherche en Informatique et en Automatique (INRIA). Rennes, FRA., Jun 2015, Rennes, France. pp.7 |
Automatic update of reference data in Galaxy using BioMAJ.Galaxy Day 2014, Institut Français de Bioinformatique, Dec 2014, Paris, France |
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A study of phylloxera transcriptomes, comparing root and leaf feeding morphs6. International Phylloxera Symposium, Institut National de Recherche Agronomique (INRA). UMR Ecophysiologie et Génomique Fonctionnelle de la Vigne (1287)., Aug 2013, Bordeaux, France. 59 p |
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AphidAtlas : avancées récentesBAPOA 2013 MOP, Oct 2013, Montpellier, France |
Towards a Life Sciences Virtual Research EnvironmentJOBIM 2013 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2013, Toulouse, France |
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Hadoopizer : a cloud environment for bio-informatics data analysisjournées scientifiques mésocentres et France Grilles 2012, Oct 2012, Paris, France |
AnnotQTL: a new tool to gather functional and comparative information on a genomic region15th QTLMAS, Institut National de Recherche Agronomique (INRA). UMR Génétique Animale (0598)., May 2011, Rennes, France |
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MLOps best practices for bioinformaticsJOBIM - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2025, Bordeaux (France), France. pp.1-1, 2025, ⟨10.1093/bioinformatics/btad6[2]⟩ |
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The Environmental Cost of Bioinformatics at GenOuestJOBIM 2025 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2025, Bordeaux, France. pp.1-1, 2025 |
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BYTE-Sea: the digital infrastructure of ATLASea, the French marine genome sequencing programmeJOBIM 2025 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2025, Bordeaux, France. 2025 |
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Exploring the Richness of the French Galaxy EcosystemJOBIM 2025 - Journées Ouvertes en bioinformatique et de la biostatistique francophone, Jul 2025, Bordeaux, France. 2025 |
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Breaking myths: The reality of Galaxy's capabilities and impactJOBIM 2025 - Journées Ouvertes en bioinformatique et de la biostatistique francophone, Jul 2025, Bordeaux, France. 2025 |
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Genome Annotation tooling in Galaxy: contributions of the EuroScienceGateway projectJOBIM 2025 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2025, Bordeaux, France. pp.1-1, 2025 |
P06-18 Enhancing prediction and priorisation of adverse effects: TOXsIgN as a comprehensive resource for toxicogenomicsEUROTOX 2024 - 58th Congress of the European Societies of Toxicology, Sep 2024, Copenhagen, Denmark. pp.S159, 2024, ⟨10.1016/j.toxlet.2024.07.402⟩ |
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Exploring the richness of the French Galaxy EcosystemGCC 2024 - Galaxy Community Conference, Jun 2024, Brno, Czech Republic. , pp.1-1, 2024, ⟨10.7490/f1000research.1119765.1⟩ |
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Services deployed on the IFB National Network of Computing Resources (NNCR)JOBIM 2024 - Journées ouvertes en biologie, informatique, et mathématiques, Jun 2024, Toulouse, France. , 2024 |
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Building a Distributed Computing Network for Galaxy, Application to Genome AnnotationJOBIM 2024 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jun 2024, Toulouse, France. 2024 |
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BIPAA, Bioinformatics Platform for the Agroecosystems Arthropods.JOBIM 2023 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jun 2023, Plouzané (Brest Métropole), France. pp.1-1, 2023 |
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AskoR, an R package for easy RNA-Seq data analysis.Journées Ouvertes en Biologie, Informatique et Mathématiques (Jobim), Jun 2023, Tours, France. pp.263, 2018, JOBIM2023. ⟨10.1080/02664763.2018.1454894⟩ |
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AskoR, an R package for easy RNA-Seq data analysis illustrated by the analysis of plant/pathogen/microbiote interactions.Journées Ouvertes en Biologie, Informatique et Mathématiques (Jobim), Jul 2022, Rennes, France |
BIPAA, Bioinformatics Platform for the Agroecosystems Arthropods.The 11th international workshop on Molecular Biology and Genetics of the Lepidoptera, Aug 2022, Kolympari, Greece |
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Assessment of metabolic complementarity in large-scale microbiotas for the identification of key speciesIHMC 2021 - 8th International Human Microbiome Consortium Congress, Jun 2021, Barcelone, Spain. pp.1 |
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Metage2Metabo: metabolic complementarity applied to genomes of large-scale microbiotas for the identification of keystone speciesJOBIM 2020 - Journées Ouvertes de Biologie, Informatique et Mathématique, Jun 2020, Montpellier / Virtual, France. ⟨10.1101/803056⟩ |
Genomic and transcriptomic resources of two Lepidoptera: the Notodontidae Thaumetopoea pityocampa and the Crambidae Ostrinia scapulalis10. International Workshop on the Molecular Biology and Genetics of the Lepidoptera, Aug 2019, Crête, Greece. |
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BIPAA, Bioinformatics Platform for the Agroecosystems Arthropods.Journées Ouvertes en Biologie, Informatique et Mathématiques (JOBIM), Jul 2018, Marseille (FR), France |
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Comparative genomic analysis of Clubroot resistance in the Brassicaceae familyBrassica2016, Oct 2016, Melbourne, Australia. |
Integration and query of biological datasets with Semantic Web technologies: AskOmicsJournées Ouvertes Biologie, Informatique et Mathématiques (JOBIM 2016), Jun 2016, Lyon, France |
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Improvement of the assembly of heterozygous genomes of non-model organismsGenome Informatics, Oct 2015, Cold Spring Harbor Laboratory, United States. 2015 |
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Improvement of the assembly of heterozygous genomes of non-model organisms, a case study of the genomes of two Spodoptera frugiperda host strainsArthropod Genomics 2015, Jun 2015, Manhattan (Kansas), United States. 2015 |
e-Science in France, a Life science Western storyGalaxy Community Conference (GCC2014), Jun 2014, Baltimore, United States |
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Identification and correction of genome mis-assemblies due to heterozygosityEuropean Conference on Computational Biology (ECCB), Sep 2014, Strasbourg, France. , ECCB 2014, 2014 |
Dr Motifs: a web resource for pattern matching and discoveryJOBIM 2012, Jul 2012, Rennes, France |
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AnnotQTL: a new tool to gather functional and comparative information on a genomic region12. Journées Ouvertes en Biologie, Informatique et Mathématiques, Jun 2011, Paris, France. 2011, JOBIM 2011 |
Assemblage de génomesPrincipes des techniques de biologie moléculaire et génomique : 3e édition revue et augmentée, Quae, 2018, Savoir Faire, 978-2-7592-2389-3 |
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GalaxyPrincipes des techniques de biologie moléculaire et génomique : 3e édition revue et augmentée, Quae, 2018, Savoir Faire, 978-2-7592-2389-3 |
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Annotation de génomesPrincipes des techniques de biologie moléculaire et génomique : 3e édition revue et augmentée, Quae, 2018, Savoir Faire, 978-2-7592-2389-3 |
SfruDB database :Spodoptera frugiperda genome assembly, Version 52018 |
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LepidoDB Information system2017 |