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Look4LTRs: a Long terminal repeat retrotransposon detection tool capable of cross species studies and discovering recently nested repeats
Anthony B. Garza
,
Emmanuelle Lerat
,
Hani Z. Girgis
Journal articles
hal-04739138v1
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Look4LTRs: a Long terminal repeat retrotransposon detection tool capable of cross species studies and discovering recently nested repeats
Anthony B. Garza
,
Emmanuelle Lerat
,
Hani Z. Girgis
Journal articles
hal-04706333v1
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SMBE Secretary’s Report
Emmanuelle Lerat
Journal articles
hal-04706308v1
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MicroAnnot: A Dedicated Workflow for Accurate Microsporidian Genome Annotation
Jérémy Tournayre
,
Valérie Polonais
,
Ivan Wawrzyniak
,
Reginald Florian Akossi
,
Nicolas Parisot
Journal articles
hal-04427987v1
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How genomics can help biodiversity conservation
Kathrin Theissinger
,
Carlos Fernandes
,
Giulio Formenti
,
Iliana Bista
,
Paul Berg
Journal articles
hal-04082874v1
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Recent Bioinformatic Progress to Identify Epigenetic Changes Associated to Transposable Elements
Emmanuelle Lerat
Journal articles
hal-03738345v1
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The Transposable Element Environment of Human Genes Differs According to Their Duplication Status and Essentiality
Margot Correa
,
Emmanuelle Lerat
,
Etienne E. Birmelé
,
Franck Samson
,
Bérengère Bouillon
Journal articles
hal-03367114v1
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Massive colonization of protein-coding exons by selfish genetic elements in Paramecium germline genomes
Diamantis Sellis
,
Frédéric Guérin
,
Olivier Arnaiz
,
Walker Pett
,
Emmanuelle Lerat
Journal articles
hal-03366429v1
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An Overview of Duplicated Gene Detection Methods: Why the Duplication Mechanism Has to Be Accounted for in Their Choice
Tanguy Lallemand
,
Martin Leduc
,
Claudine Landès
,
Carène Rizzon
,
Emmanuelle Lerat
Journal articles
hal-02977854v1
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On the Importance to Acknowledge Transposable Elements in Epigenomic Analyses
Emmanuelle Lerat
,
Josep Casacuberta
,
Cristian Chaparro
,
Cristina Vieira
Journal articles
hal-02093613v1
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Does the Presence of Transposable Elements Impact the Epigenetic Environment of Human Duplicated Genes?
Romain Lannes
,
Carène Rizzon
,
Emmanuelle Lerat
Journal articles
hal-02120974v1
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Population specific dynamics and selection patterns of transposable element insertions in European natural populations
Emmanuelle Lerat
,
Clément Goubert
,
Sara Guirao-Rico
,
Miriam Merenciano
,
Anne-Béatrice Dufour
Journal articles
hal-01965027v1
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Simulation-based estimation of branching models for LTR retrotransposons
Serge Moulin
,
Nicolas Seux
,
Stéphane Chrétien
,
Christophe Guyeux
,
Emmanuelle Lerat
Journal articles
hal-02131160v1
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Evolutionary history of LTR-retrotransposons among 20 Drosophila species
N. Bargues
,
Emmanuelle Lerat
Journal articles
hal-02049656v1
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TEtools facilitates big data expression analysis of transposable elements and reveals an antagonism between their activity and that of piRNA genes
Emmanuelle Lerat
,
Marie Fablet
,
Laurent Modolo
,
Hélène Lopez-Maestre
,
Cristina Vieira
Journal articles
hal-01524877v1
|
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The transposable element environment of human genes is associated with histone and expression changes in cancer
Laura Grégoire
,
Annabelle A. Haudry
,
Emmanuelle Lerat
Journal articles
hal-01896846v1
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The Prediction and Validation of Small CDSs Expand the Gene Repertoire of the Smallest Known Eukaryotic Genomes
Abdel Belkorchia
,
Cyrielle Gasc
,
Valérie Polonais
,
Nicolas Parisot
,
Nicolas Gallois
Journal articles
hal-01247479v1
|
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Specific Activation of an I-Like Element in Drosophila Interspecific Hybrids
Elias a G Carnelossi
,
Emmanuelle Lerat
,
Hélène Henri
,
Sonia Martinez
,
Claudia M A Carareto
Journal articles
hal-01526700v1
|
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“One code to find them all”: a perl tool to conveniently parse RepeatMasker output files
Marc Bailly-Bechet
,
Annabelle Haudry
,
Emmanuelle Lerat
Journal articles
hal-01332104v1
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Microsporidian Genomes Harbor a Diverse Array of Transposable Elements that Demonstrate an Ancestry of Horizontal Exchange with Metazoans.
Nicolas Parisot
,
Adrian Pelin
,
Cyrielle Gasc
,
Valérie Polonais
,
Abdel Belkorchia
Journal articles
hal-01071789v1
|
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Hijacking of Host Cellular Functions by an Intracellular Parasite, the Microsporidian Anncaliia algerae
Johan Panek
,
Hicham El Alaoui
,
Anne Mone
,
Serge Urbach
,
Edith Demettre
Journal articles
hal-01053924v1
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A call for benchmarking transposable element annotation methods.
Douglas R Hoen
,
Glenn Hickey
,
Guillaume Bourque
,
Josep Casacuberta
,
Richard Cordaux
Journal articles
hal-01204840v1
|
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Exploiting the architecture and the features of the microsporidian genomes to investigate diversity and impact of these parasites on ecosystems
E Peyretaillade
,
D Boucher
,
N Parisot
,
C Gasc
,
R Butler
Journal articles
hal-01110134v1
|
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Subcellular Localization of ENS-1/ERNI in Chick Embryonic Stem Cells
Sophie Blanc
,
Florence Ruggiero
,
Anne-Marie Birot
,
Hervé Acloque
,
Didier Decimo
Journal articles
hal-02096948v1
|
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The endogenous retrovirus ENS-1 provides active binding sites for transcription factors in embryonic stem cells that specify extra embryonic tissue
A. Mey
,
Hervé Acloque
,
Emmanuelle Lerat
,
S. Gounel
,
V. Tribollet
Journal articles
hal-02289815v1
|
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A comparative analysis of the amounts and dynamics of transposable elements in natural populations of Drosophila melanogaster and Drosophila simulans.
Cristina Vieira
,
Marie Fablet
,
Emmanuelle Lerat
,
Matthieu Boulesteix
,
Rita Rebollo
Journal articles
hal-00763500v1
|
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Comparative analysis of transposable elements in the melanogaster subgroup sequenced genomes.
Emmanuelle Lerat
,
Nelly Burlet
,
Christian Biémont
,
Cristina Vieira
Journal articles
hal-00850380v1
|
|
Genes devoid of full-length transposable element insertions are involved in development and in the regulation of transcription in human and closely related species.
Hussein Mortada
,
Cristina Vieira
,
Emmanuelle Lerat
Journal articles
hal-00850383v1
|
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Genomic environment influences the dynamics of the tirant LTR retrotransposon in Drosophila.
Marie Fablet
,
Emmanuelle Lerat
,
Rita Rebollo
,
Béatrice Horard
,
Nelly Burlet
Journal articles
hal-00850396v1
|
|
Infra- and Transspecific Clues to Understanding the Dynamics of Transposable Elements
Cristina Vieira
,
M. Fablet
,
E. Lerat
genome dyn stab, 2009, --, pp.115-123
Journal articles
hal-00428338v1
|
|
Genomic environment influences the dynamics of the tirant LTR retrotransposon in Drosophila
M. Fablet
,
E. Lerat
,
R. Rebollo
,
B. Horard
,
N. Burlet
FASEB Journal, 2009, 23, pp.54-62
Journal articles
hal-00428323v1
|
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The evolutionary dynamics of the Helena retrotransposon revealed by sequenced Drosophila genomes.
Adriana Granzotto
,
Fabrício R Lopes
,
Emmanuelle Lerat
,
Cristina Vieira
,
Claudia M A Carareto
Journal articles
hal-00850397v1
|
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Identification of expressed transposable element insertions in the sequenced genome of Drosophila melanogaster
M. Deloger
,
F.M.G. Cavalli
,
E. Lerat
,
C. Biémont
,
M.-F. Sagot
Gene, 2009, 439, pp.55-62
Journal articles
hal-00428351v1
|
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Identifying repeats and transposable elements in sequenced genomes: how to find your way through the dense forest of programs
E. Lerat
Heredity, 2009, --, pp.1-14
Journal articles
hal-00539329v1
|
|
Losing helena: The extinction of a drosophila line-like element
Rita Rebollo
,
Emmanuelle Lerat
,
Liliana Lopez Kleine
,
Christian Biémont
,
Cristina Vieira
Journal articles
hal-02668006v1
|
|
Maintenance in the chicken genome of the retroviral-like cENS gene family specifically expressed in early embryos
Emmanuelle Lerat
,
Anne-Marie Birot
,
Jacques Samarut
,
Anne Mey
Journal articles
hal-02657241v1
|
|
Influence of the transposable element neighborhood on human gene expression in normal and tumor tissues
E. Lerat
,
M. Sémon
Gene, 2007, 396, pp.303-311
Journal articles
hal-00434594v1
|
|
A bunch of fun-guys: the whole-genome view of yeast evolution
H. Ochman
,
Vincent Daubin
,
E. Lerat
Trends in Genetics, 2005, 21, pp.1-3
Journal articles
hal-00427798v1
|
|
Examining bacterial species under the specter of gene transfer and exchange
H. Ochman
,
E. Lerat
,
Vincent Daubin
Proceedings of the National Academy of Sciences of the United States of America, 2005, 102, pp.6595-6599
Journal articles
hal-00427799v1
|
|
Recognizing the pseudogenes in bacterial genomes
E. Lerat
,
H. Ochman
Nucleic Acids Research, 2005, 33, pp.3125-3132
Journal articles
hal-00427776v1
|
|
Evolutionary origins of genomic repertoires in bacteria
E. Lerat
,
Vincent Daubin
,
H. Ochman
,
N.A. Moran
PLoS Biology, 2005, 3, pp.0807-0814
Journal articles
hal-00427770v1
|
|
$Psi$-$Phi$: Exploring the outer limits of bacterial pseudogenes
E. Lerat
,
H. Ochman
Genome Research, 2004, 14, pp.2273-2278
Journal articles
hal-00427616v1
|
|
Reversing gene erosion: Reconstructing ancestral bacterial genomes from gene-content and order data
J.V. Earnest-Deyoung
,
E. Lerat
,
B.M.E. Moret
incollection, 2004, 3240, pp.1-13
Journal articles
hal-00427561v1
|
|
Hypervariable and highly divergent intron/exon organizations in the chordate Oikopleura dioica
R. Edvardsen
,
E. Lerat
,
A.D. Maeland
,
M. Flat
,
R. Tewari
Journal of Molecular Biology, 2004, 59, pp.448-457
Journal articles
hal-00427584v1
|
|
The evolutionary history of quorum-sensing in bacteria
E. Lerat
,
N.A. Moran
Molecular Biology and Evolution, 2004, 21, pp.903-913
Journal articles
hal-00427617v1
|
|
Ψ-Φ: Exploring the outer limits of bacterial pseudogenes
E. Lerat
,
H. Ochman
Genome Research, 2004, 14, pp.2273--2278
Journal articles
hal-02379302v1
|
|
From gene trees to organismal phylogeny in prokaryotes: the case of the gamma-Proteobacteria
Emmanuelle Lerat
,
Vincent Daubin
,
Nancy Moran
Journal articles
hal-00427440v1
|
|
The source of laterally transferred genes in bacterial genomes
Vincent Daubin
,
E. Lerat
,
G. Perrière
Genome Biology, 2003, 4, pp.R57.1-R57.12
Journal articles
hal-00427389v1
|
|
Sequence divergence within transposable element families in the Drosophila melanogaster genome
E. Lerat
,
C. Rizzon
,
C. Biémont
Genome Research, 2003, 13, pp.1889-1896
Journal articles
hal-00427441v1
|
|
The relative abundance of dinucleotides in transposable elements in five species
E. Lerat
,
P. Capy
,
C. Biémont
Molecular Biology and Evolution, 2002, 19, pp.964-967
Journal articles
hal-00427283v1
|
|
Codon usage by transposable elements and their host genes in five species
E. Lerat
,
P. Capy
,
C. Biémont
Journal of Molecular Evolution, 2002, 54, pp.625-637
Journal articles
hal-00427284v1
|
|
Comparaison de séquences d`éléments transposables et de gènes d`hôtes chez cinq espèces : A. Thaliana C. Elegans D. Melanogaster H. Sapiens S. Cerevisiae
E. Lerat
incollection, 2001, --, pp.347-354
Journal articles
hal-00427153v1
|
|
Codon usage and the origin of P elements
E. Lerat
,
C. Biémont
,
P. Capy
Molecular Biology and Evolution, 2000, 17, pp.467-468
Journal articles
hal-00427091v1
|
|
Is the evolution of transposable elements modular?
E. Lerat
,
F. Brunet
,
C. Bazin
,
P. Capy
Genetica, 1999, 107, pp.15-25
Journal articles
hal-00428431v1
|
|
Retrotransposons and retroviruses: analysis of the envelope gene
E. Lerat
,
P. Capy
Molecular Biology and Evolution, 1999, 16, pp.1198-1207
Journal articles
hal-00428444v1
|