
FL
Fabrice Legeai
68%
Libre accès
197
Documents
Affiliation actuelle
- Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)
Identifiants chercheurs
Présentation
Research Engineer and Project Manager in bioinformatics
Research interests : ❖ Genomics of insect crop pests and their interactions with plants ❖ Integration of omics data with Semantic Web technologies
Tools: ❖ Askomics: Integration and data extraction with Semantic Web tools ❖ AskoR: R library for RNA-Seq data analysis ❖ MTG-Link: Gap-filling with linked-reads data ❖ LRez: library for manipulation of linked-reads data ❖ Leviathan: Identification of structural variants with linked-reads data ❖ MinYS: reconstruction of symbiont genomes ❖ FEELnc: Prediction of long non-coding RNAs
Domaines de recherche
Bio-informatique [q-bio.QM]
Compétences
insect genomics
data integration
Publications
Publications
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Understanding the limits of pangenome graphs for the analysis of large inversions in a complex of butterfly species2024 - International Environmental and Agronomical Genomics symposium, Feb 2024, Toulouse, France. pp.1-1
Communication dans un congrès
hal-04721489
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Multiple expansion and contraction events in two major chemosensory gene families in aphidsCongrès de la Société Européenne de Biologie Evolutive, Aug 2022, Prague, Czech Republic
Communication dans un congrès
anses-04546901
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Intégration de données de phénotypiques, environnementales et de biodiversité à l'aide des technologies du Web SémantiqueSYSINFO-INRAe 2022 - Journées INRAE systèmes d'information pour les données agro-environnementales, Nov 2022, Clermont-Ferrand, France
Communication dans un congrès
hal-03893738
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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⟩
Communication dans un congrès
hal-03347665
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LEVIATHAN: efficient discovery of large structural variants by leveraging long-range information from Linked-Reads dataJOBIM 2021 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2021, Paris, France. pp.1-8
Communication dans un congrès
hal-03441874
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MTG-Link: filling gaps in draft genome assemblies with linked read dataJOBIM 2021 - Journées Ouvertes Biologie, Informatique et Mathématiques, Jul 2021, Paris, France. pp.1-8
Communication dans un congrès
hal-03441914
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Co-evolution of chloroplast and nuclear genomes in flowering plants and impact of allopolyploidy on fine tune cytonuclear interactions.International Conference on Polyploidy, Jun 2019, Ghent, Belgium
Communication dans un congrès
hal-03318182
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The virus particles of Bathyplectes spp., parasitoids of the alfalfa weevil, are related to ichnoviruses6. International Entomophagous Insects Conference, Sep 2019, Perugia, Italy
Communication dans un congrès
hal-02463374
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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
Communication dans un congrès
hal-02401750
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Cytonuclear interactions remain stable during allopolyploid evolution despite repeated wholegenome duplications21st Crucifer Genetics Conference on Brassica - Brassica 2018, Jul 2019, Saint Malo, France
Communication dans un congrès
hal-04665569
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Structural and functional evolutionary dynamics of duplicated genes and genomes in nascent and natural B. napus21st Crucifer Genetics Conference on Brassica - Brassica 2018, Jul 2019, Saint-Malo, France
Communication dans un congrès
hal-03318226
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Plant resistance and architecture for protection of pulses against pathogensTransversal Symposium GIS BV, Investment for the future, Projects in plant Biology, Oct 2019, Paris, France
Communication dans un congrès
hal-02737585
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Key Note speaker Plant resistance and architecture for protection of pulses against biotic stresses9. International Conference on Legume Genetics and Genomics (ICLGG 2019), Let's harness the potential of legumes, May 2019, Dijon, France
Communication dans un congrès
hal-02737260
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Reference-guided genome assembly in metagenomic samplesJOBIM 2019 - Journées Ouvertes Biologie, Informatique et Mathématiques, Jul 2019, Nantes, France. pp.1-8
Communication dans un congrès
hal-02308257
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How a polyploid becomes a new species: example from the Brassica model.International Conference on Environmental and Agronomical Genomics, 2018, Paris, France
Communication dans un congrès
hal-03318223
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Influence of nitrogen constraint on quantitative resistance to clubroot in Brassica napus21st Crucifer Genetics Conference - Brassica - Wokshop Clubroot, 2018, Saint-Malo, France
Communication dans un congrès
hal-03348628
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Identification of differentially expressed long non-coding RNAs (lncRNAs) in response to viral infection in S. frugiperda hemocytes10. International Workshop on Molecular Biology and Genetics of the Lepidoptera, Aug 2018, Kolympari, Greece
Communication dans un congrès
hal-01988642
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Quantitative resistance to clubroot and interactions with abiotic stressesIOBC-WPRS WG 'Pesticides and Beneficial Organisms', 2018, Zagreb, Croatia. pp.25-26
Communication dans un congrès
hal-03349115
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Influence of nitrogen constraint on quantitative resistance to clubroot in Brassica napusInternational Clubroot Workshop, 2018, Edmonton, Canada
Communication dans un congrès
hal-03349054
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From diploids to a huge diversity ready-to-use for oilseed rape breeding.21st Crucifer Genetics Conference on Brassica - Brassica 2018, Jul 2018, Saint-Malo, France
Communication dans un congrès
hal-03318160
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Cytonuclear interactions overcome inter-genomic conflict resulting from interspecific hybridization and genome doublingSecond Joint Congress on Evolutionary Biology, Aug 2018, Montpellier, France
Communication dans un congrès
hal-03318235
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Spodoptera genomes in the BIPAA information systemInternational Conference on Management of Destructive Agricultural Pests Spodoptera (Noctuidae), Nov 2017, Chongqing, China
Communication dans un congrès
hal-04176810
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Integration of Linked Data into Galaxy using AskomicsGalaxy Community Conference, Jun 2017, Montpellier, France
Communication dans un congrès
hal-01576870
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Multi-scale characterization of symbiont diversity in the pea aphid complex through metagenomic approachesInternational Conference on Holobionts, Apr 2017, Paris, France
Communication dans un congrès
hal-01638839
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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
Communication dans un congrès
hal-01577425
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Integrative genomics and gene networks for studying phenotypic plasticity in the pea aphid10th Arthropod Genomics Symposium, Jun 2017, Notre Dame, United States
Communication dans un congrès
hal-01566438
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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
Communication dans un congrès
hal-01391080
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Mechanisms of transfer of virulence molecules in ichneumonid wasps25th International Congress of Entomology (ICE 2016), Sep 2016, Orlando, Florida, United States
Communication dans un congrès
hal-01988646
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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
Communication dans un congrès
hal-01602955
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Recurrent domestication of viral genomes leads to different virulence strategies in ichneumonid waspsRéunion du réseau ADALEP, 2016, Paris, France
Communication dans un congrès
hal-01991475
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Using genomic tools to unravel parasitic wasp genome evolution via acquisition of viral genomesArthropod Genomics Symposium, 2015, Manhattan, Kansas, United States
Communication dans un congrès
hal-01991470
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The chemosensory transcriptome of the cotton leafworm Spodoptera littoralis24. Annual Meeting of the European-Chemoreception-Research-Organization (ECRO), 2015, NA, France
Communication dans un congrès
hal-01208791
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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
Communication dans un congrès
hal-01184903
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Integration of miRNAs data into a gene network of the pea aphid.7th International Symposium on Molecular Insect Science., 2014, Amsterdam, Netherlands
Communication dans un congrès
hal-01566284
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Long non-‐coding RNA in the pea aphid; identification and comparative expression in sexual and asexual embryosArthropod Genomics Symposium, Jun 2014, Urbana, United States
Communication dans un congrès
hal-01091304
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The grape phylloxera genome sequencing project6. International Phylloxera Symposium, Aug 2013, Bordeaux, France
Communication dans un congrès
hal-01208725
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Whole genome re-sequencing : lessons from unmapped readsJournées Ouvertes Biologie Informatique Mathématiques, Jul 2013, Toulouse, France
Communication dans un congrès
hal-00907446
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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
Communication dans un congrès
hal-01208647
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AphidAtlas : avancées récentesBAPOA 2013 MOP, Oct 2013, Montpellier, France
Communication dans un congrès
hal-00913155
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Physical mapping and re-sequencing of a set of resistance related genes in grapevine17. Conference Plant and Animal Genomes, Labo/service de l'auteur, Ville service, Pays service., Jan 2009, San Diego, United States. 1 p
Communication dans un congrès
hal-01462667
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URGI genome annotation system:an integrated system for structural and functional genome annotation12. Edition du colloque JOBIM : Journées Ouvertes en Biologie, Informatique et Mathématiques, Jun 2011, Paris, France. 2 p
Communication dans un congrès
hal-01019754
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The antennal transcriptome of a moth20. Congress of European Chemoreception Research Organization (ECRO-2010), Sep 2010, Avignon, France. pp.E29-E30
Communication dans un congrès
hal-01001560
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The antennal transcriptome of a mothThe 20th Congress of the European Chemoreception Research Organisation (ECRO), Sep 2010, Avignon, France. pp.E29
Communication dans un congrès
hal-00714719
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Prediction and analyzes of non coding RNA sequences in the pea aphid genomeArthropods Genomics, Jun 2010, Kansas City, United States
Communication dans un congrès
inria-00537927
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Lepido-DB, a new bioinformatic resource for the annotation and cross-comparisons of lepidopteran genomes.The Eighth International Workshop on MOLECULAR BIOLOGY AND GENETICS OF THE LEPIDOPTERA, Aug 2009, Kolimpari, Greece
Communication dans un congrès
inria-00435820
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GnpAnnot community annotation system: features, qualifiers, values3. International Biocuration Conference, Apr 2009, Berlin, Germany
Communication dans un congrès
hal-02758372
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From AphidBase and Lepido-DB to an Information System for Insect Plant pest genomics studies.1st Workshop on Information System for Insect Pest, Nov 2009, Rennes, France
Communication dans un congrès
inria-00435823
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Apollo: a tool for the manual annotation of the pea aphid genomePea Aphid Genome Annotation Workshop, Jul 2008, Princeton, United States
Communication dans un congrès
inria-00329196
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Discovering domestication mutations in cauliflowerJournées scientifiques 2025 Agroécologie et Numérique, Jan 2025, Dijon, France.
Poster de conférence
cea-04932621
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Identification of viral gene involved in genome replication of domesticated endogenous virus in parasitoid waspJacques Monod Conference on “Virus evolution: the mutualism-antagonism continuum of virus- virus interactions”, Oct 2024, Roscoff, France
Poster de conférence
hal-04873290
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Establishment of pangenome graphs for the analysis and monitoring of fungal plant pathogen populationsISCLB 2024 (International Symposium on Cereal Leaf Blights), Jun 2024, Zurich (CH), Switzerland. ⟨10.15454/1.5572369328961167E12⟩
Poster de conférence
hal-04623680
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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
Poster de conférence
hal-04176786
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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⟩
Poster de conférence
hal-04720296
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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
Poster de conférence
hal-04720279
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BIPAA, Bioinformatics Platform for the Agroecosystems Arthropods.The 11th international workshop on Molecular Biology and Genetics of the Lepidoptera, Aug 2022, Kolympari, Greece
Poster de conférence
hal-04176792
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LRez: C++ API and toolkit for analyzing and managing Linked-Reads dataJOBIM 2021 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2021, Paris, France. pp.1
Poster de conférence
hal-03441917
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MTG-Link: filling gaps in draft genome assemblies with linked read dataBiodiversity Genomics 2020, Oct 2020, Online, France.
Poster de conférence
hal-03074227
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MTG-Link: filling gaps in draft genome assemblies with linked read dataJOBIM 2020 - Journées Ouvertes Biologie, Informatique et Mathématiques, Jun 2020, Montpellier, France.
Poster de conférence
hal-03073966
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Functional consequences of transposable elements on duplicated gene transcription and retention in polyploid Brassica speciesInternational Conference on Polyploidy, Jun 2019, Ghent, Belgium
Poster de conférence
hal-03318194
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Identification and functional characterization of ovarian and maternally-inherited miRNAs in medaka7. International Workshop on the Biology of Fish Gametes, Sep 2019, Rennes, France. , pp.153-153, 2019
Poster de conférence
hal-02282325
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Reference guided genome assembly in metagenomic samplesRECOMB 2018 - 22nd International Conference on Research in Computational Molecular Biology, Apr 2018, Paris, France. pp.1
Poster de conférence
hal-01934823
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BIPAA, Bioinformatics Platform for the Agroecosystems Arthropods.Journées Ouvertes en Biologie, Informatique et Mathématiques (JOBIM), Jul 2018, Marseille (FR), France
Poster de conférence
hal-04176797
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Une nouvelle facette du génome de poule : les genes “longs non-codants12. Journées de la Recherche Avicole et des Palmipèdes à Foie Gras, Apr 2017, Tours, France. ITAVI - Institut Technique de l'Aviculture, Journées de la Recherche Avicole et des Palmipèdes à Foie Gras, 2017, Journées de la Recherche Avicole et des Palmipèdes à Foie Gras
Poster de conférence
hal-01605848
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Multi-scale characterization of symbiont diversity in the pea aphid complex through metagenomic approachesJOBIM 2017 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2017, Lille, France
Poster de conférence
hal-01638884
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Integration and query of biological datasets with Semantic Web technologies: AskOmicsJournées Ouvertes Biologie, Informatique et Mathématiques (JOBIM 2016), Jun 2016, Lyon, France
Poster de conférence
hal-01391087
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Comparative genomic analysis of Clubroot resistance in the Brassicaceae familyBrassica2016, Oct 2016, Melbourne, Australia.
Poster de conférence
hal-01391707
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Long-non coding RNAs repertoire in liver and adipose tissue in chickenXXIV International Plant & Animal Genome (Pag), Jan 2016, San Diego, United States. 2016
Poster de conférence
hal-02799305
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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
Poster de conférence
hal-01231793
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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
Poster de conférence
hal-01240443
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How to Design a good RNA-Seq experiment in an interdisciplinary context?European conference on Computational Biology, Sep 2014, Strasbourg, France. , 2014
Poster de conférence
hal-01462728
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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
Poster de conférence
hal-01092959
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A tale of genome, annotations, metabolism and phylogenomics: the pea aphid genome resources10. Cold Spring Harbor Laboratory / Wellcome Trust conference on Genome Informatics, Sep 2010, Hinxton, United Kingdom. 1 p., 2010
Poster de conférence
hal-01231276
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Assemblage de génomesPrincipes des techniques de biologie moléculaire et génomique : 3e édition revue et augmentée, Quae, 2018, Savoir Faire, 978-2-7592-2389-3
Chapitre d'ouvrage
hal-03319003
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La programmationPrincipes des techniques de biologie moléculaire et génomique : 3e édition revue et augmentée, Quae, 2018, Savoir Faire, 978-2-7592-2389-3
Chapitre d'ouvrage
hal-03318975
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Analyse des données RNA-seq (RNA-sequencing)Principes des techniques de biologie moléculaire et génomique : 3e édition revue et augmentée, Quae, 2018, Savoir Faire, 978-2-7592-2389-3
Chapitre d'ouvrage
hal-03318969
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Genomics of Phenotypic plastity in AphidsHenryk Czosnek; Murad Ghanim. Management of Insect Pests to Agriculture, Springer International Publishing, pp.65-96, 2016, 978-3-319-24049-7. ⟨10.1007/978-3-319-24049-7_3⟩
Chapitre d'ouvrage
hal-01314988
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Whole genome sequencing projects of the plant pathogenic fungi Botrytis Cinerea and Sclerotinia SclerotiorumMacromolecules and secondary metabolites of grapevine and wine : fruit development, biotic and abiotic stresses, mechanisms of plant defense responses, proteins, glycoproteins, polysaccharides, polyphenolics, aroma compounds and secondar, EDITIONS TEC ET DOC, 2007, 978-2-7430-0965-9
Chapitre d'ouvrage
hal-02820038
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SfruDB: Spodoptera frugiperda genome assembly, version 62019
Autre publication scientifique
hal-02154693
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LepidoDB Information system2017
Autre publication scientifique
hal-02154691
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Rapport d'étape chantier entrepôt et annuaire institutionnels pour les données de la recherche[0] 2014, 18 p
Rapport
hal-02801608
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bioperl : Bibliothèque perl pour la modélisation et le traitement de données issues de la biologie[Technical Report] 2008
Rapport
(rapport technique)
inria-00331279
v1
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Pan1c (Pangenome at chromosome level)Logiciel hal-05034842 v1 |
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MTG-LinkLogiciel hal-04823104 v1 |
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LEVIATHANLogiciel hal-04823122 v1 |
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LRezLogiciel hal-04823115 v1 |
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