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Building a reliable 16S mini-barcode library of wild bees from Occitania, south-west of France
Anaïs Marquisseau
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Pig and quail CpG methylation datasets from short and long read sequencing technologies
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Enriched atlas of lncRNA and protein-coding genes for the GRCg7b chicken assembly and its functional annotation across 47 tissues
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Soluble CD14 produced by bovine mammary epithelial cells modulates their response to full length LPS
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Analysis of a shark reveals ancient, Wnt-dependent, habenular asymmetries in vertebrates
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Massive detection of cryptic recessive genetic defects in dairy cattle mining millions of life histories
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The genome of the simultaneously hermaphroditic snail Lymnaea stagnalis reveals an evolutionary expansion of FMRFamide-like receptors
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Multi-genome comparisons reveal gain-and-loss evolution of anti-Mullerian hormone receptor type 2 as a candidate master sex-determining gene in Percidae
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Article dans une revue
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A candidate sex determination locus in amphibians which evolved by structural variation between X- and Y-chromosomes
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OROSOMUCOID PROTEIN 1 regulation of sphingolipid synthesis is required for nodulation in Aeschynomene evenia
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Marjorie Pervent
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Adaptive gene loss in the common bean pan-genome during range expansion and domestication
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Robyn Anderson
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Giovanni Marturano
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Insights into the molecular mechanisms of pesticide tolerance in the Aporrectodea caliginosa earthworm
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Article dans une revue
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DNAModAnnot: a R toolbox for DNA modification filtering and annotation
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Mélody Matelot
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Céline Lopez-Roques
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Fourth report on chicken genes and chromosomes 2022
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James Alfieri
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Nick Anthony
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Peter Arensburger
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Giridhar Athrey
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Whole genome sequencing reveals signals of adaptive admixture in Creole cattle
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Article dans une revue
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Multidisciplinary approach to explore interactions in odor mixture perception
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Anne-Marie Le Bon
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Olivier Taboureau
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David Jarriault
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Genome structures resolve the early diversification of teleost fishes
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Generation of a chromosome‐level genome assembly for Pacific halibut ( Hippoglossus stenolepis ) and characterization of its sex‐determining genomic region
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Cédric Cabau
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Impacts of Mycoplasma agalactiae restriction-modification systems on pan-epigenome dynamics and genome plasticity
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Venomics survey of six myrmicine ants provides insights into the molecular and structural diversity of their peptide toxins
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Françoise Paquet
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Article dans une revue
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A chromosome-level, haplotype-phased Vanilla planifolia genome highlights the challenge of partial endoreplication for accurate whole-genome assembly
Quentin Piet
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Mosaic Evolution of Molecular Pathways for Sex Pheromone Communication in a Butterfly
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Article dans une revue
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An ancient truncated duplication of the anti‐Müllerian hormone receptor type 2 gene is a potential conserved master sex determinant in the Pangasiidae catfish family
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Jérôme Montfort
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A mutant-based analysis of the establishment of Nod-independent symbiosis in the legume Aeschynomene evenia
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Watch out for a second SNP: focus on multi-nucleotide variants in coding regions and rescued stop-gained
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Article dans une revue
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RNA-Seq Data for Reliable SNP Detection and Genotype Calling
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A 180 Myr-old female-specific genome region in sturgeon reveals the oldest known vertebrate sex determining system with undifferentiated sex chromosomes
Heiner Kuhl
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Philosophical Transactions of the Royal Society B: Biological Sciences, 2021, 376 (1832), pp.20200089. ⟨10.1098/rstb.2020.0089⟩
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Neurodevelopment vs. the immune system: Complementary contributions of maternally-inherited gene transcripts and proteins to successful embryonic development in fish
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Genetics of nodulation in Aeschynomene evenia uncovers mechanisms of the rhizobium-legume symbiosis
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Development of a polymerase chain reaction (PCR)-based genetic sex identification method in the chub mackerel Scomber japonicus and blue mackerel S. australasicus
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MINTIA: a metagenomic INserT integrated assembly and annotation tool
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RADSex: a computational workflow to study sex determination using Restriction Site‐Associated DNA Sequencing data
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Boudjema Imarazene
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Elodie Jouanno
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The immune system of sturgeons and paddlefish (Acipenseriformes): a review with new data from a chromosome‐scale sturgeon genome
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A duplicated copy of id2b is an unusual sex-determining candidate gene on the Y chromosome of arapaima (Arapaima gigas)
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Susanne Kneitz
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Cédric Cabau
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Transcriptome Profiling of the Pacific Oyster Crassostrea gigas Visceral Ganglia over a Reproduction Cycle Identifies Novel Regulatory Peptides
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The rise and fall of the ancient northern pike master sex-determining gene
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Hugo Darras
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A supernumerary “B-sex” chromosome drives male sex determination in the Pachón cavefish, Astyanax mexicanus
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Philippe Gayral
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Damien Decante
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Christophe Klopp
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D. Bigot
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La Santé de l'Abeille, 2020, 296, pp.141-145
Article dans une revue
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The sterlet sturgeon genome sequence and the mechanisms of segmental rediploidization
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Conserved white rot enzymatic mechanism for wood decay in the Basidiomycota genus Pycnoporus
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Characterization of a Y‐specific duplication/insertion of the anti‐Mullerian hormone type II receptor gene based on a chromosome‐scale genome assembly of yellow perch, Perca flavescens
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Article dans une revue
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Transfer and Transcriptomic Profiling in Liver and Brain of European Eels ( Anguilla anguilla ) After Diet‐borne Exposure to Gold Nanoparticles
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Article dans une revue
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Multi-tissue Siberian sturgeon RNA sequencing data
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Cédric Cabau
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Article dans une revue
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Sex chromosome and sex locus characterization in goldfish, Carassius auratus (Linnaeus, 1758)
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Biological rhythms in the deep-sea hydrothermal mussel Bathymodiolus azoricus
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Meta-omics Provides Insights into the Impact of Hydrocarbon Contamination on Microbial Mat Functioning
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Genome insights of mercury methylation among Desulfovibrio and Pseudodesulfovibrio strains
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Responses to iron oxide and zinc oxide nanoparticles in echinoderm embryos and microalgae: uptake, growth, morphology, and transcriptomic analysis
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Marie-Line Escande
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Independent origin of XY and ZW sex determination mechanisms in Mosquitofish sister species
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Molecular signatures of muscle growth and composition deciphered by the meta-analysis of age-related public transcriptomics data
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Venom peptide repertoire of the european myrmicine ant manica rubida: identification of insecticidal toxins
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RNA-Seq transcriptome data of undifferentiated and differentiated gonads of Siberian sturgeon
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André Lasalle
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Santiago Di Landro
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(data paper)
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An integrative atlas of chicken long non-coding genes and their annotations across 25 tissues
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Kévin Muret
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Siberian sturgeon multi-tissue reference transcriptome database
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Domestication modulates the expression of genes involved in neurogenesis in high‐quality eggs of Sander lucioperca
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CSA: A high-throughput chromosome-scale assembly pipeline for vertebrate genomes
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Genome structure and content of the rice root‐knot nematode ( Meloidogyne graminicola )
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Genome sequence of the euryhaline Javafish Medaka, Oryzias javanicus: A small aquarium fish model for studies on adaptation to salinity
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Le projet « Mille Génomes Gallus » : partager les données de séquences pour mieux les utiliser
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Environmental transcriptomes of invasive dreissena, a model species in ecotoxicology and invasion biology
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Article dans une revue
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Transcriptome variation in response to gastrointestinal nematode infection in goats
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Arctic charr brain transcriptome strongly affected by summer seasonal growth but only subtly by feed deprivation
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Elodie Magnanou
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Transcription Profiling of Monocyte-Derived Macrophages Infected In Vitro With Two Strains of Streptococcus agalactiae Reveals Candidate Pathways Affecting Subclinical Mastitis in Cattle
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Viruses in the Invasive Hornet Vespa velutina
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Philippe Gayral
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Christophe Klopp
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Identification of the master sex determining gene in Northern pike (Esox lucius) reveals restricted sex chromosome differentiation
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Elodie Jouanno
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Article dans une revue
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The genome of the arapaima (Arapaima gigas) provides insights into gigantism, fast growth and chromosomal sex determination system
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Sven Wuertz
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Mateus Adolfi
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Matthias Stöck
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Draft genome assembly and annotation of the gila topminnow Poeciliopsis occidentalis
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Du Kang
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Christophe Klopp
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Hugues Parrinello
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Mateo Garcia-Olazabal
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Article dans une revue
(data paper)
hal-02620825
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Identification of potential chemosignals in the European water vole Arvicola terrestris
Patricia Nagnan-Le Meillour
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Amandine Descamps
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Chrystelle Le Danvic
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Maurane Grandmougin
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Jean-Michel Saliou
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Article dans une revue
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Multi-species annotation of transcriptome and chromatin structure in domesticated animals
Sylvain Foissac
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Sarah Djebali
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Kylie Munyard
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Andrea Rau
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Article dans une revue
hal-02437599
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RNA-seq analysis of hepatic gene expression of common Pekin, Muscovy, mule and hinny ducks fed ad libitum or overfed
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Nathalie Houee-Bigot
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Diane Esquerré
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Article dans une revue
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Transcriptomic view of detached lettuce leaves during storage: A crosstalk between wounding, dehydration and senescence
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Florence Charles
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Véronique Vidal
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Sandrine Laurent
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Article dans une revue
hal-02063254
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Chicken adaptive response to low energy diet: main role of the hypothalamic lipid metabolism revealed by a phenotypic and multi-tissue transcriptomic approach
Frédéric Jehl
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Colette Désert
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Christophe Klopp
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Mathias Brenet
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Andrea Rau
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Article dans une revue
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The Peptide Venom Composition of the Fierce Stinging Ant Tetraponera aethiops (Formicidae: Pseudomyrmecinae)
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Axel Touchard
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Maurice Tindo
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Martin Kenne
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Article dans une revue
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Domestication may affect the maternal mRNA profile in unfertilized eggs, potentially impacting the embryonic development of Eurasian perch (Perca fluviatilis)
Taina Rocha de Almeida
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Maud Alix
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Aurélie Le Cam
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Christophe Klopp
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Jérôme Montfort
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Article dans une revue
hal-02627554
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Structure of the intergenic spacers in chicken ribosomal DNA
Alexander Dyomin
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Svetlana Galkina
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Valerie Fillon
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Stephane Cauet
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Celine Lopez-Roques
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Article dans une revue
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Highly promiscuous oxidases discovered in the bovine rumen microbiome
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Gabrielle Veronese
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Davide Cecchini
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Alexandra Tauzin
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Angeline Rizzo
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Article dans une revue
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De novo transcriptome analysis to search for sex-differentiation genes in the Siberian sturgeon
Denise Vizziano-Cantonnet
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Andre Lasalle
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Santiago Di Landro
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Christophe Klopp
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Clémence Genthon
Article dans une revue
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Transcriptomic analysis reveals specific metabolic pathways of enterohemorrhagic Escherichia coli O157:H7 in bovine digestive contents
Audrey Segura
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Marine Bertoni
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Pauline Auffret
,
Christophe Klopp
,
Olivier Bouchez
et al.
Article dans une revue
hal-02628554
v1
|
|
Ten steps to get started in Genome Assembly and Annotation
Victoria Dominguez del Angel
,
Erik Hjerde
,
Lieven Sterck
,
Salvadors Capella-Gutierrez
,
Cedric Notredame
et al.
Article dans une revue
(article de synthèse)
hal-01712874
v1
|
|
Whole-genome sequencing of Aspergillus tubingensis G131 and overview of its secondary metabolism potential
Élodie Choque
,
Christophe Klopp
,
Sophie Valiere
,
José Raynal
,
Florence Mathieu
Article dans une revue
hal-02143190
v1
|
|
One complete and three draft genome sequences of four Brochothrix thermosphacta strains, CD 337, TAP 175, BSAS1 3 and EBP 3070
Nassima Illikoud
,
Christophe Klopp
,
Alain Roulet
,
Olivier Bouchez
,
Nathalie Marsaud
et al.
Article dans une revue
hal-02154348
v1
|
|
Oak genome reveals facets of long lifespan
Christophe Plomion
,
Jean-Marc Aury
,
Joelle Amselem
,
Thibault Leroy
,
Florent Murat
et al.
Article dans une revue
hal-01820559
v1
|
|
Genomics analysis of Aphanomyces spp. identifies a new class of oomycete effector associated with host adaptation
Elodie Gaulin
,
Michiel Pel
,
Laurent Camborde
,
Hélène San Clemente
,
Sarah Courbier
et al.
Article dans une revue
hal-01891875
v1
|
|
Transcriptome profiling of the honeybee parasite Varroa destructor provides new biological insights into the mite adult life cycle
Fanny Mondet
,
Andrea Rau
,
Christophe Klopp
,
Marine Rohmer
,
Dany Severac
et al.
Article dans une revue
inserm-02063466
v1
|
|
Whole-transcriptome response to wastewater treatment plant and stormwater effluents in the Asian clam, Corbicula fluminea
Anthony Bertucci
,
Fabien Pierron
,
Pierre-Yves Gourves
,
Christophe Klopp
,
Gauthier Lagarde
et al.
Article dans une revue
hal-02324139
v1
|
|
Oyster transcriptome response to Alexandrium exposure is related to saxitoxin load and characterized by disrupted digestion, energy balance, and calcium and sodium signaling
Audrey Mat
,
Christophe Klopp
,
Laura Payton
,
Céline Jeziorski
,
Morgane Chalopin
et al.
Article dans une revue
hal-02324597
v1
|
|
Genetic and transcriptomic analyses provide new insights on the early antiviral response to VHSV in resistant and susceptible rainbow trout
Eloi R. Verrier
,
Carine Genet
,
Denis Laloë
,
Florence Jaffrezic
,
Andrea Rau
et al.
Article dans une revue
hal-02444518
v1
|
|
Rapid whole-genome based typing and surveillance of avipoxviruses using nanopore sequencing.
Guillaume Croville
,
Guillaume Le Loc'H
,
Catherine Zanchetta
,
Maxime Manno
,
Christelle Camus-Bouclainville
et al.
Article dans une revue
hal-02626516
v1
|
|
D-GENIES: dot plot large genomes in an interactive, efficient and simple way.
Floréal Cabanettes
,
Christophe Klopp
Article dans une revue
hal-02625819
v1
|
|
A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic
Orlane Patrascu
,
Fabienne Beguet-Crespel
,
Ludovica Marinelli
,
Emmanuelle Le Chatelier
,
Anne-Laure Abraham
et al.
Article dans une revue
hal-01606551
v1
|
|
Draft genome sequence and characterization of commensal Escherichia coli strain BG1 isolated from bovine gastro-intestinal tract
Audrey Segura
,
Pauline Auffret
,
Christophe Klopp
,
Yolande Bertin
,
Evelyne Forano
Article dans une revue
hal-02626891
v1
|
|
Reconstructing the genome of the most recent common ancestor of flowering plants
Florent Murat
,
Alix Armero Villanueva
,
Caroline Pont
,
Christophe Klopp
,
Jerome Salse
Article dans une revue
hal-01605642
v1
|
|
Draft Genome Sequence of Enterohemorrhagic Escherichia coli O157:H7 Strain MC2 Isolated from Cattle in France
Pauline Auffret
,
Audrey Segura
,
Yolande Bertin
,
Christophe Klopp
,
Olivier Bouchez
et al.
Article dans une revue
hal-01658407
v1
|
|
Tench (Tinca tinca) high-throughput transcriptomics reveal feed dependent gut profiles
Remigiusz Panicz
,
Christophe Klopp
,
Rafał Igielski
,
Paulina Hofsoe
,
Jacek Sadowski
et al.
Article dans une revue
hal-01608923
v1
|
|
Analysis of large 16S rRNA Illumina datasets: impact of singleton read filtering on microbial community description
Lucas Auer
,
Mahendra Mariadassou
,
Michael O'Donohue
,
Christophe Klopp
,
Guillermina Hernandez-Raquet
Article dans une revue
(data paper)
hal-01605865
v1
|
|
About Ganoderma boninense in oil palm plantations of Sumatra and peninsular Malaysia: Ancient population expansion, extensive gene flow and large scale dispersion ability
Maxime Mercière
,
Romain Boulord
,
Catherine Carasco-Lacombe
,
Christophe Klopp
,
Yang-Ping Lee
et al.
Article dans une revue
hal-02622016
v1
|
|
Compacting and correcting Trinity and Oases RNA-Seq de novo assemblies
Cédric Cabau
,
Frédéric Escudie
,
Anis Djari
,
Yann Guiguen
,
Julien Bobe
et al.
Article dans une revue
hal-01506620
v1
|
|
Transcriptomic responses of the endangered freshwater mussel Margaritifera margaritifera to trace metal contamination in the Dronne River, France
Anthony Bertucci
,
Fabien Pierron
,
Julien Thébault
,
Christophe Klopp
,
Julie Bellec
et al.
Article dans une revue
hal-02571118
v1
|
|
Stable Polycomb-dependent transgenerational inheritance of chromatin states in Drosophila
Filippo Ciabrelli
,
Federico Comoglio
,
Simon Fellous
,
Boyan Bonev
,
Maria Ninova
et al.
Article dans une revue
hal-01529240
v1
|
|
Identification of copy number variation in French dairy and beef breeds using next-generation sequencing
Rabia Letaief
,
Emmanuelle Rebours
,
Cécile Grohs
,
Cédric Meersseman
,
Sébastien Fritz
et al.
Article dans une revue
hal-01622967
v1
|
|
The role of rhizobial (NifV) and plant (FEN1) homocitrate synthases in Aeschynomene/photosynthetic Bradyrhizobium symbiosis
Nico Nouwen
,
Jean-François Arrighi
,
Fabienne Cartieaux
,
Clémence Chaintreuil
,
Djamel Gully
et al.
Article dans une revue
hal-02619423
v1
|
|
Evolution of gene expression after whole-genome duplication: New insights from the spotted gar genome
Jérémy Pasquier
,
Ingo Braasch
,
Peter Batzel
,
Cédric Cabau
,
Jérôme Montfort
et al.
Journal of Experimental Zoology Part B: Molecular and Developmental Evolution, 2017, 328 (7), pp.709 - 721. ⟨10.1002/jez.b.22770⟩
Article dans une revue
hal-01788671
v1
|
|
Long noncoding RNA repertoire in chicken liver and adipose tissue
Kévin Muret
,
Christophe Klopp
,
Valentin Wucher
,
Diane Esquerré
,
Fabrice Legeai
et al.
Article dans une revue
hal-01431420
v1
|
|
Discovery of carbamate degrading enzymes by functional metagenomics
Lisa Ufarté
,
Elisabeth Laville
,
Sophie Duquesne
,
Diego Morgavi
,
Patrick Robe
et al.
Article dans une revue
hal-01886441
v1
|
|
The Rio1p ATPase hinders premature entry into translation of late pre-40S pre-ribosomal particles
Kamila Belhabich-Baumas
,
Clément Joret
,
Beáta E. Jády
,
Célia Plisson-Chastang
,
Ramtin Shayan
et al.
Article dans une revue
hal-01608918
v1
|
|
Genome Sequence of the Yeast Clavispora lusitaniae Type Strain CBS 6936
Pascal Durrens
,
Christophe Klopp
,
Nicolas Biteau
,
Valérie Fitton-Ouhabi
,
Karine Dementhon
et al.
Article dans une revue
hal-01583349
v1
|
|
Root transcriptomic responses of grafted grapevines to heterogeneous nitrogen availability depend on rootstock genotype
Noe Cochetel
,
Frédéric Escudie
,
Sarah Jane Cookson
,
Zhanwu Dai
,
Philippe Vivin
et al.
Article dans une revue
hal-01608893
v1
|
|
Variant discovery in the sheep milk transcriptome using RNA sequencing
Aroa Suárez-Vega
,
Beatriz Gutiérrez-Gil
,
Christophe Klopp
,
Gwenola Tosser-Klopp
,
Juan José Arranz
Article dans une revue
hal-01604370
v1
|
|
De novo transcriptome sequencing and analysis of freshwater snail (Radix balthica) to discover genes and pathways affected by exposure to oxazepam
Jean-Yves Mazzitelli
,
Elsa Bonnafé
,
Christophe Klopp
,
Frédéric Escudie
,
Florence Geret
Article dans une revue
hal-01605095
v1
|
|
Genetic variability of the activity of bidirectional promoters : a pilot study in bovine muscle
Cédric Meerssemann
,
Rabia Letaief
,
Véronique Léjard
,
Emmanuelle Rebours
,
Gabriel Guillocheau
et al.
Article dans une revue
hal-01606875
v1
|
|
Rapid discovery of de novo deleterious mutations in cattle enhances the value of livestock as model species
Emmanuelle Bourneuf
,
P. Otz
,
H. Pausch
,
V. Jagannathan
,
Pauline Michot
et al.
Article dans une revue
hal-01608270
v1
|
|
Draft Genome Sequence of Desulfovibrio BerOc1, a Mercury-Methylating Strain
Marisol Goñi
,
Claire Gassie
,
Remy Guyoneaud
,
Oliver Bouchez
,
Christophe Klopp
Article dans une revue
hal-01481298
v1
|
|
Comprehensive RNA-Seq profiling to evaluate lactating sheep mammary gland transcriptome
Aroa Suárez-Vega
,
Beatriz Gutiérrez-Gil
,
Christophe Klopp
,
Gwenola Tosser-Klopp
,
Juan-José Arranz
Article dans une revue
(data paper)
hal-02630260
v1
|
|
Identification and characterization of copy number variations in cattle
Rabia Letaief
,
Diane Esquerre
,
Johanna Barbieri
,
Cécile Grohs
,
Sebastien Fritz
et al.
Article dans une revue
hal-01605684
v1
|
|
Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database.
Jérémy Pasquier
,
Cédric Cabau
,
Thuy Thao Vi Nguyen
,
Elodie Jouanno
,
Dany Severac
et al.
Article dans une revue
hal-01487023
v1
|
|
The extent of mRNA editing is limited in chicken liver and adipose, but impacted by tissular context, genotype, age and feeding as exemplified with a conserved edited site in COG3
Pierre-François Roux
,
Laure Fresard
,
Morgane Boutin
,
Sophie Leroux
,
Christophe Klopp
et al.
Article dans une revue
hal-01251260
v1
|
|
Evolutionary origins of rhizarian parasites
Roberto Sierra
,
Silvia J. Canas-Duarte
,
Fabien Burki
,
Arne Schwelm
,
Johan Fogelqvist
et al.
Article dans une revue
hal-02641707
v1
|
|
Construction of a large collection of small genome variations in French dairy and beef breeds using whole-genome sequences
Mekki Boussaha
,
Pauline Michot
,
Rabia Letaief
,
Chris Hozé
,
Sébastien Fritz
et al.
Article dans une revue
hal-01479216
v1
|
|
Complete Genome Sequence of Lactococcus lactissubsp. lactis A12, a Strain Isolated from Wheat Sourdough
Maeva Guellerin
,
Delphine Passerini
,
Catherine Fontagné-Faucher
,
Hervé Robert
,
Valérie Gabriel
et al.
Article dans une revue
hal-01578250
v1
|
|
Targeted genomic enrichment and sequencing of CyHV-3 from carp tissues confirms low nucleotide diversity and mixed genotype infections
Saliha Hammoumi
,
Tatiana Vallaeys
,
Ayi Santika
,
Philippe Leleux
,
Ewa Borzym
et al.
Article dans une revue
hal-02637141
v1
|
|
Jflow: a workflow management system for web applications
Jérôme J. Mariette
,
Frédéric Escudié
,
Philippe Bardou
,
Ibouniyamine Ibrahime
,
Céline Noirot
et al.
Article dans une revue
hal-02631131
v1
|
|
Correction : Design and Characterization of a 52K SNP Chip for Goats
Gwenola Tosser-Klopp
,
Philippe Bardou
,
Olivier Bouchez
,
Cédric Cabau
,
Richard Crooijmans
et al.
Article dans une revue
hal-01602260
v1
|
|
The impact of long-term hydrocarbon exposure on the structure, activity, and biogeochemical functioning of microbial mats
Johanne Aubé
,
Pavel Senin
,
Olivier Pringault
,
Patricia Bonin
,
Bruno Deflandre
et al.
Article dans une revue
ird-02048573
v1
|
|
A gene-based map of the Nod factor-independent Aeschynomene evenia sheds new light on the evolution of nodulation and legume genomes
Clémence Chaintreuil
,
Ronan Rivallan
,
David Bertioli
,
Christophe Klopp
,
Jerome Gouzy
et al.
Article dans une revue
hal-02410329
v1
|
|
A unigene set for European beech (Fagus sylvatica L.) and its use to decipher the molecular mechanisms involved in dormancy regulation
Isabelle Lesur Kupin Lesur
,
Alison Bechade
,
Céline C. Lalanne
,
Christophe Klopp
,
Céline Noirot
et al.
Article dans une revue
istex
hal-02640346
v1
|
|
GigaTON: an extensive publicly searchable database providing a new reference transcriptome in the pacific oyster Crassostrea gigas
Guillaume Riviere
,
Christophe Klopp
,
Nabihoudine Ibouniyamine
,
Arnaud Huvet
,
Pierre Boudry
et al.
Article dans une revue
(data paper)
hal-01258440
v1
|
|
The oak gene expression atlas: insights into Fagaceae genome evolution and the discovery of genes regulated during bud dormancy release
Isabelle Lesur
,
Grégoire G. Le Provost
,
Pascal Bento
,
Corinne da Silva
,
Jean-Charles Leplé
et al.
Article dans une revue
hal-02285504
v1
|
|
Decoding the oak genome: public release of sequence data, assembly, annotation and publication strategies.
Christophe Plomion
,
Jean-Marc Aury
,
Joëlle Amselem
,
Tina Alaeitabar
,
Valérie Barbe
et al.
Article dans une revue
istex
hal-01579667
v1
|
|
Characterization and comparative analysis of the milk transcriptome in two dairy sheep breeds using RNA sequencing
Aroa Suárez-Vega
,
Beatriz Gutiérrez-Gil
,
Christophe Klopp
,
Christèle Robert-Granié
,
Gwenola Tosser-Klopp
et al.
Article dans une revue
hal-02638220
v1
|
|
Combined QTL and selective sweep mappings with coding SNP annotation and cis-eQTL analysis revealed PARK2 and JAG2 as new candidate genes for adiposity regulation.
Pierre-François Roux
,
Simon Boitard
,
Anne Blum
,
Brian Parks
,
Alexandra Montagner
et al.
Article dans une revue
hal-01194040
v1
|
|
RNA-seq de novo assembly reveals differential gene expression in Glossina palpalis gambiensis infected with Trypanosoma brucei gambiense vs. non-infected and self-cured flies
Illiassou Hamidou Soumana
,
Christophe Klopp
,
Sophie Ravel
,
Ibouniyamine Nabihoudine
,
Bernadette Tchicaya
et al.
Article dans une revue
hal-02067248
v1
|
|
Identification and development of new polymorphic microsatellite markers using genome assembly for Ganoderma boninense, causal agent of oil palm basal stem rot disease
Maxime Mercière
,
Anthony Laybats
,
Catherine Carasco-Lacombe
,
Joon Sheong Tan
,
Christophe Klopp
et al.
Article dans une revue
hal-02641658
v1
|
|
Comparison of whole-genome (13X) and capture (87X) resequencing methods for SNP and genotype callings
Pierre-François Roux
,
Sylvain Marthey
,
Anis Djari
,
Marco Moroldo
,
Diane Esquerre
et al.
Article dans une revue
istex
hal-01194013
v1
|
|
The BioMart community portal: an innovative alternative to large, centralized data repositories
Damian Smedley
,
Syed Haider
,
Steffen Durinck
,
Luca Pandini
,
Paolo Provero
et al.
Article dans une revue
hal-01146849
v1
|
|
Combining GWAS and RNA-Seq Approaches for Detection of the Causal Mutation for Hereditary Junctional Epidermolysis Bullosa in Sheep
Aroa Suárez-Vega
,
Beatriz Gutiérrez-Gil
,
Julio Benavides
,
Valentín Pérez
,
Gwenola Tosser-Klopp
et al.
Article dans une revue
hal-02631344
v1
|
|
High-resolution genetic maps of Eucalyptus improve Eucalyptus grandis genome assembly
Jérôme Bartholomé
,
Eric Mandrou
,
André Mabiala
,
Jerry Jenkins
,
Ibouniyamine Nabihoudine
et al.
Article dans une revue
hal-02637865
v1
|
|
Genome-Wide Characterization of RNA Editing in Chicken Embryos Reveals Common Features among Vertebrates
Laure Fresard
,
Sophie Leroux
,
Pierre-François Roux
,
Christophe Klopp
,
Stéphane Fabre
et al.
Article dans une revue
hal-01207762
v1
|
|
Genome-wide study of structural variants in bovine Holstein, Montbéliarde and Normande dairy breeds
Mekki Boussaha
,
Diane Esquerre
,
Johanna Barbieri
,
Anis Djari
,
Alain Pinton
et al.
Article dans une revue
hal-01194172
v1
|
|
Intra-host viral variability in children clinically infected with H1N1 (2009) pandemic influenza.
Vincent Bourret
,
Guillaume Croville
,
Jean-Michel Mansuy
,
Catherine Mengelle
,
Jérôme J. Mariette
et al.
Article dans une revue
hal-02637504
v1
|
|
Comparison between Transcriptome Sequencing and 16S Metagenomics for Detection of Bacterial Pathogens in Wildlife
Maria Razzauti Sanfeliu
,
Maxime Galan
,
Maria Bernard
,
Sarah Maman Haddad
,
Christophe Klopp
et al.
Article dans une revue
hal-01250505
v1
|
|
Generation and characterization of the sea bass Dicentrarchus labrax brain and liver transcriptomes.
Elodie Magnanou
,
Christophe Klopp
,
Céline Noirot
,
Laurence Besseau
,
Jack Falcon
Article dans une revue
hal-02641536
v1
|
|
De Novo sequencing and transcriptome analysis for <em>Tetramorium bicarinatum</em>: a comprehensive venom gland transcriptome analysis from an ant species
Wafa Bouzid
,
Marion Verdenaud
,
Christophe Klopp
,
Frédéric Ducancel
,
Céline Noirot
et al.
Article dans une revue
hal-02636117
v1
|
|
The genome of the white-rot fungus [i]Pycnoporus cinnabarinus[/i]: a basidiomycete model with a versatile arsenal for lignocellulosic biomass breakdown
Anthony Levasseur
,
Anne Lomascolo
,
Olivier Chabrol
,
Francisco J Ruiz-Dueñas
,
Eva Boukhris-Uzan
et al.
Article dans une revue
hal-01204353
v1
|
|
Identification of large intergenic non-coding RNAs in bovine muscle using next-generation transcriptomic sequencing.
Coline Billerey
,
Mekki Boussaha
,
Diane Esquerré
,
Emmanuelle Rebours
,
Anis Djari
et al.
Article dans une revue
hal-01011303
v1
|
|
High-throughput sequencing analyses of XX genital ridges lacking [i]FOXL2[/i] reveal [i]DMRT1[/i] up-regulation before [i]SOX9[/i] expression during the sex-reversal process in goats
Maeva El Zaiat
,
Luc Jouneau
,
Dominique Thepot Thépot
,
Christophe Klopp
,
Aurélie Allais-Bonnet
et al.
Article dans une revue
hal-01194038
v1
|
|
Novel Avian Coronavirus and Fulminating Disease in Guinea Fowl, France
Etienne Liais
,
Guillaume Croville
,
Jérôme J. Mariette
,
Maxence Delverdier
,
Marie-Noêlle Lucas
et al.
Article dans une revue
hal-02638202
v1
|
|
An integrative method to normalize RNA-Seq data.
Cyril Filloux
,
Cédric Meerssemann
,
Romain Philippe
,
Lionel Forestier
,
Christophe Klopp
et al.
Article dans une revue
hal-01193836
v1
|
|
Gonad transcriptome analysis of pearl oyster Pinctada margaritifera: identification of potential sex differentiation and sex determining genes
Vaihiti Teaniniuraitemoana
,
Arnaud Huvet
,
Peva Levy
,
Christophe Klopp
,
Emeline Lhuillier
et al.
Article dans une revue
hal-01719157
v1
|
|
RNAbrowse: RNA-Seq de novo assembly results browser.
Jérôme J. Mariette
,
Céline Noirot
,
Ibouniyamine Nabihoudine
,
Philippe Bardou
,
Claire Hoede
et al.
Article dans une revue
hal-02636622
v1
|
|
Design and characterization of a 52K SNP chip for goats
Gwenola Tosser-Klopp
,
Philippe Bardou
,
Olivier Bouchez
,
Cédric Cabau
,
Richard Crooijmans
et al.
Article dans une revue
hal-01019568
v1
|
|
De Novo sequencing and transcriptome analysis for Tetramorium bicarinatum: a comprehensive venom gland transcriptome analysis from an ant species
Wafa Bouzid
,
Marion Verdenaud
,
Christophe Klopp
,
Frédéric Ducancel
,
Celine Noirot
et al.
BMC Genomics, 2014
Article dans une revue
hal-02053589
v1
|
|
DNA methylation and transcription in a distal region upstream from the bovine alphaS1 casein gene after once or twice daily milking
Minh Nguyen
,
Marion Boutinaud
,
Barbara Petridou
,
Anne Gabory
,
Maëlle Pannetier
et al.
Article dans une revue
hal-01193988
v1
|
|
Complete Genome Sequence of a Field Strain of Peste des Petits Ruminants Virus Isolated during 2010-2014 Epidemics in Senegal
Habib Salami
,
Guillaume Croville
,
Olivier Kwiatek
,
Jérôme J. Mariette
,
Christophe Klopp
et al.
Article dans une revue
hal-02630225
v1
|
|
jvenn: an interactive Venn diagram viewer
Philippe Bardou
,
Jérôme J. Mariette
,
Frédéric Escudié
,
Christophe Djemiel
,
Christophe Klopp
Article dans une revue
hal-02640484
v1
|
|
De novo assembly of maritime pine transcriptome: implications for forest breeding and biotechnology
Javier Canales
,
Rocío Bautista
,
Philippe Label
,
Josefa Gómez-Maldonado
,
Isabelle Lesur Kupin Lesur
et al.
Article dans une revue
hal-02640932
v1
|
|
The loss of adipokine genes in the chicken genome and implications for insulin metabolism
Natasa Dakovic
,
Morgane Terezol
,
Frederique Pitel
,
Virginie Maillard
,
Sébastien Elis
et al.
Article dans une revue
hal-01129850
v1
|
|
Re-sequencing data for refining candidate genes and polymorphisms in QTL regions affecting adiposity in chicken
Pierre-François Roux
,
Morgane Boutin
,
Colette Désert
,
Anis Djari
,
Diane Esquerre
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hal-01207758
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Attenuated sensing of SHH by Ptch1 underlies evolution of bovine limbs
Javier Lopez-Rios
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Dario Speziale
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Article dans une revue
hal-01193897
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Whole-genome sequencing of 234 bulls facilitates mapping of monogenic and complex traits in cattle
Hans D Daetwyler
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Paul Stothard
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Article dans une revue
hal-01193853
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The rainbow trout genome provides novel insights into evolution after whole-genome duplication in vertebrates.
Camille Berthelot
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et al.
Article dans une revue
hal-01193812
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Detection of haplotypes associated with prenatal death in dairy cattle and identification of deleterious mutations in GART, SHBG and SLC37A2
Sebastien S. Fritz
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Anis Djari
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Article dans une revue
hal-01000118
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Microbial ecology of the rumen evaluated by 454 GS FLX pyrosequencing is affected by starch and oil supplementation of diets
Asma Zened
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Laurent Cauquil
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Jérôme J. Mariette
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Christophe Klopp
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Article dans une revue
hal-02648977
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Novel insights into the bovine polled phenotype and horn ontogenesis in Bovidae
Aurélie Allais-Bonnet
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Ivica I. Medugorac
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Stefan S. Krebs
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Anis Djari
et al.
Article dans une revue
hal-01000794
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Whole-genome, deep pyrosequencing analysis of a duck influenza A virus evolution in swine cells
Vincent Bourret
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Guillaume Croville
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Jérôme J. Mariette
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Christophe Klopp
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Olivier O. Bouchez
et al.
Article dans une revue
hal-02646502
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High-density linkage mapping in a pine tree reveals a genomic region associated with inbreeding depression and provides clues to the extent and distribution of meiotic recombination
Emilie E. Chancerel
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Jean-Baptiste J.-B. Lamy
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Isabelle Lesur Kupin Lesur
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Celine C. Noirot
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Christophe Klopp
et al.
Article dans une revue
hal-00964786
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Transcriptional profiling of bud dormancy induction and release in oak by next-generation sequencing
Saneyoshi Ueno
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Christophe Klopp
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Jean-Charles Leplé
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Jérémy Derory
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Céline Noirot
et al.
Article dans une revue
hal-02650124
v1
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Gene-based single nucleotide polymorphism discovery in bovine muscle using next-generation transcriptomic sequencing
Anis Djari
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Diane D. Esquerre
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Bernard B. Weiss
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Frédéric Martins Martins
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Cédric Meerssemann Meersseman
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Article dans une revue
hal-01001073
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An immune-related gene evolved into the master sex-determining gene in Rainbow-trout, Oncorhynchus mykiss
Ayaka Yano
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Barbara B. Nicol
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Elodie Jouanno
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Edwige Quillet
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Article dans une revue
hal-01000319
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Genome sequence of weissella confusa LBAE C39-2, isolated from a wheat sourdough
Myriam Amari
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Marlène Vuillemin
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Hervé Robert
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Valentin Loux
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Article dans une revue
hal-01267779
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A 3.7 Mb deletion encompassing ZEB2 causes a novel polled and multisystemic syndrome in the progeny of a somatic mosaic bull
Aurelien Capitan
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Alain Pinton
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Article dans une revue
hal-01019835
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Fine mapping of complex traits in non-model species: using next generation sequencing and advanced intercross lines in Japanese quail
Laure Fresard
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Sophie Leroux
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Patrice Dehais
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Bertrand Servin
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Hélène Gilbert
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Article dans une revue
hal-01129669
v1
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Characterization of rainbow trout gonad, brain and gill deep cDNA repertoires using a Roche 454-Titanium sequencing approach
Aurélie Le Cam
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Julien Bobe
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Olivier Bouchez
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Cédric Cabeau
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Olivier Kah
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Article dans une revue
istex
hal-01205069
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The tomato genome sequence provides insights into fleshy fruit evolution
Shusei Sato
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Satoshi Tabata
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Hideki Hirakawa
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Erika Asamizu
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Kenta Shirasawa
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Article dans une revue
hal-02651748
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Pyrosequencing-based transcriptomic resources in the pond snail Lymnaea stagnalis, with a focus on genes involved in molecular response to diquat-induced stress
Anthony Bouetard
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Celine Noirot
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Anne-Laure Besnard
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Olivier Bouchez
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Damien Choisne
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Article dans une revue
istex
hal-01210141
v1
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Metabolic adaptation to a high-fat diet is associated with a change in the gut microbiota.
Matteo Serino
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Elodie Luche
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Sandra Gres
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Audrey Baylac
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Mathieu Bergé
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Article dans une revue
inserm-00726182
v1
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Field Monitoring of Avian Influenza Viruses: Whole-Genome Sequencing and Tracking of Neuraminidase Evolution Using 454 Pyrosequencing
Guillaume Croville
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Sebastien Mathieu Soubies
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Johanna Barbieri
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Christophe Klopp
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Jérôme J. Mariette
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Article dans une revue
hal-02651716
v1
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Genome sequences of three Leuconostoc Citreum Strains, LBAE C10, LBAE C11, and LBAE E16, isolated from wheat sourdoughs
Sandrine Laguerre
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Myriam Amari
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Marlène Vuillemin
,
Hervé Robert
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Valentin Loux
et al.
Article dans une revue
hal-01267778
v1
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The tomato genome sequence provides insights into fleshy fruit evolution
Shusei Sato
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Satoshi Tabata
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Hideki Hirakawa
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Erika Asamizu
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Kenta Shirasawa
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Article dans une revue
hal-04198562
v1
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NG6: Integrated next generation sequencing storage and processing environment.
Jérôme J. Mariette
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Frédéric Escudié
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Nicolas Allias
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Gérald Salin
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Céline Noirot
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Article dans une revue
inserm-00733481
v1
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SigReannot-mart: a query environment for expression microarray probe re-annotations.
François Moreews
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Gaelle Rauffet
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Patrice Dehais
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Christophe Klopp
Article dans une revue
inria-00638684
v1
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RNA-Seq reveals genotype-specific molecular responses to water deficit in eucalyptus
Emilie Villar
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Christophe Klopp
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Céline Noirot
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Evandro Novaes
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Matias Kirst
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Article dans une revue
hal-02645044
v1
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Involvement of tissue bacteria in the onset of diabetes in humans: evidence for a concept.
Jacques Amar
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Matteo Serino
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Cécile Lange
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Chantal Chabo
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Jason Iacovoni
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Article dans une revue
inserm-00801269
v1
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Deciphering cork formation in Quercus suber
Jorge A.P. Paiva
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Pedro Fevereiro
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Pedro Marques
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José Carlos Rodrigues
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Grégoire G. Le Provost
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BMC Proceedings, 2011, 5 (Suppl 7), pp.172
Article dans une revue
hal-02649545
v1
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Assessment of replicate bias in 454 pyrosequencing and a multi-purpose read-filtering tool
Jérôme J. Mariette
,
Céline Noirot
,
Christophe Klopp
Article dans une revue
hal-02641837
v1
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Detection of genes involved in bud phenology in sessile oak (Quercus petraea Matt. Liebl) combining digital expression analysis and Q-PCR
Saneyoshi Ueno
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Christophe Klopp
,
Céline Noirot
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Valérie V. Léger
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Elodie Prince
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Article dans une revue
hal-02641988
v1
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Strengthening insights into host responses to mastitis infection in ruminants by combining heterogeneous microarray data sources
Sem Genini
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Bouabid Badaoui
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Gert Sclep
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Stephen Bishop
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Dave Waddington
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Article dans une revue
inserm-00601542
v1
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Non PCR-amplified transcripts and AFLP® fragments as reduced representations of the quail genome for 454 Titanium sequencing
Sophie Leroux
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Katia Feve
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Florence Vignoles
,
Olivier Bouchez
,
Christophe Klopp
et al.
Article dans une revue
hal-01129412
v1
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Bioinformatic analysis of ESTs collected by Sanger and pyrosequencing methods for a keystone forest tree species: oak.
Saneyoshi Ueno
,
Grégoire Le Provost
,
Valérie Léger
,
Christophe Klopp
,
Céline Noirot
et al.
Article dans une revue
hal-00645933
v1
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Functional metagenomics to mine the human gut microbiome for dietary fiber catabolic enzymes
Lena Tasse
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Juliette Bercovici
,
Sandra Pizzut-Serin
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Patrick Robe
,
Julien Tap
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Article dans une revue
hal-01204274
v1
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Generation and analysis of a 29,745 unique Expressed Sequence Tags from the Pacific oyster (Crassostrea gigas) assembled into a publicly accessible database: the GigasDatabase
Elodie Fleury
,
Arnaud Huvet
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Christophe Lelong
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Julien de Lorgeril
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Viviane Boulo
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Article dans une revue
inria-00435769
v1
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sigReannot: an oligo-set re-annotation pipeline based on similarities with the Ensembl transcripts and Unigene clusters.
Casel Pierrot
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François Moreews
,
Christophe Klopp
Article dans une revue
inria-00435746
v1
|
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The EADGENE and SABRE post-analyses workshop
Florence Jaffrezic
,
Jakob Hedegaard
,
Magali San Cristobal
,
Christophe Klopp
,
Dirk-Jan de Koning
Article dans une revue
hal-01193449
v1
|
|
Transcriptome profiling of the feeding-to-fasting transition in chicken liver.
Colette Désert
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Michel Jacques M.J. Duclos
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Pierre Blavy
,
Frédéric Lecerf
,
François Moreews
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Article dans une revue
hal-00729919
v1
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AGScan: a pluggable microarray image quantification software based on the ImageJ library
R. Cathelin
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Fabrice LOPEZ
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Christophe Klopp
Article dans une revue
hal-04541193
v1
|