GECO Génomique Computationnelle et Evolutive

Equipe Bioinformatique, Phylogénie et Génomique Évolutive

Equipe Baobab

Publications

Affichage des publications 31 à 60 sur 1303 au total

GTDrift: a resource for exploring the interplay between genetic drift, genomic and transcriptomic characteristics in eukaryotes

Florian Bénitière, Laurent Duret, Anamaria Necsulea

NAR Genomics and Bioinformatics . 6 ( 2 ) : lqae064

DOI: 10.1093/nargab/lqae064

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Logic programming-based Minimal Cut Sets reveal consortium-level therapeutic targets for chronic wound infections

Maxime Mahout, Ross Carlson, Laurent Simon, Sabine Peres

npj Systems Biology and Applications . 10 ( 1 ) : 34

DOI: 10.1038/s41540-024-00360-6

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Regulatory and evolutionary impact of DNA methylation in two songbird species and their naturally occurring F1 hybrids

Jesper Boman, Anna Qvarnström, Carina Mugal

BMC Biology . 22 ( 1 ) : 124

DOI: 10.1186/s12915-024-01920-2

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High prevalence of PRDM9-independent recombination hotspots in placental mammals

Julien Joseph, Djivan Prentout, Alexandre Laverré, Théo Tricou, Laurent Duret

Proceedings of the National Academy of Sciences of the United States of America . 121 ( 23 ) : e2401973121

DOI: 10.1073/pnas.2401973121

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LncRNA analyses reveal increased levels of non-coding centromeric transcripts in hepatocellular carcinoma

Anamaria Necsulea, Philippe Veber, Tuyana Boldanova, Charlotte K Y Ng, Stefan Wieland, Markus H Heim

DOI: 10.1101/2021.03.03.433778

Pré-publication

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Persistent homology reveals strong phylogenetic signal in 3D protein structures

Léa Bou Dagher, Dominique Madern, Philippe Malbos, Céline Brochier-Armanet

PNAS Nexus . 3 ( 4 ) : 158

DOI: 10.1093/pnasnexus/pgae158

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The genetic legacy of the expansion of Bantu-speaking peoples in Africa

Cesar A Fortes-Lima, Concetta Burgarella, Rickard Hammarén, Anders Eriksson, Mário Vicente, Cecile Jolly...

Nature . 625 ( 7995 ) : 540–547

DOI: 10.1038/s41586-023-06770-6

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PRDM9 drives the location and rapid evolution of recombination hotspots in salmonids

Marie Raynaud, Paola Sanna, Julien Joseph, Julie A. J. Clément, Yukiko Imai, Jean-Jacques Lareyre...

DOI: 10.1101/2024.03.06.583651

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The role of recombination dynamics in shaping signatures of direct and indirect selection across the Ficedula flycatcher genome †

Madeline Chase, Maurine Vilcot, Carina Mugal

Proceedings of the Royal Society B: Biological Sciences . 291 ( 2015 )

DOI: 10.1098/rspb.2023.2382

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Evidence that genetic drift not adaptation drives fast‐Z and large‐Z effects in Ficedula flycatchers

Madeline Chase, Maurine Vilcot, Carina Mugal

Molecular Ecology .

DOI: 10.1111/mec.17262

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Description of a new genus of the Pectobacteriaceae family isolated from water in coastal brackish wetlands of the French Camargue region, Prodigiosinella gen. nov., including the new species Prodigiosinella aquatilis sp. nov

Nicole Hugouvieux-Cotte-Pattat, Jean-Pierre Flandrois, Jérôme Briolay, Sylvie Reverchon, Céline Brochier-Armanet

Systematic and Applied Microbiology . 47 ( 2-3 ) : 126497

DOI: 10.1016/j.syapm.2024.126497

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MicroAnnot: A Dedicated Workflow for Accurate Microsporidian Genome Annotation

Jérémy Tournayre, Valérie Polonais, Ivan Wawrzyniak, Reginald Florian Akossi, Nicolas Parisot, Emmanuelle Lerat...

International Journal of Molecular Sciences . 25 ( 2 ) : 880

DOI: 10.3390/ijms25020880

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Identification and quantification of transposable element transcripts using Long-Read RNA-seq in Drosophila germline tissues

Rita Rebollo, Pierre Gerenton, Eric Cumunel, Arnaud Mary, François Sabot, Nelly Burlet...

Peer Community Journal . 4 ( e89 )

DOI: 10.24072/pcjournal.457

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Random genetic drift sets an upper limit on mRNA splicing accuracy in metazoans

Florian Bénitière, Anamaria Necsulea, Laurent Duret

eLife . 13 : RP93629

DOI: 10.7554/eLife.93629.3

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Chance Favors the Prepared Genomes: Horizontal Transfer Shapes the Emergence of Antibiotic Resistance Mutations in Core Genes

Charles Coluzzi, Martin Guillemet, Fanny Mazzamurro, Marie Touchon, Maxime Godfroid, Guillaume Achaz...

Molecular Biology and Evolution . 40 ( 10 ) : msad217

DOI: 10.1093/molbev/msad217

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The evolution of GC-biased gene conversion by means of natural selection

Nicolas Lartillot, Julien Joseph, Augustin Clessin

ETEE'2023: Empiricism & Theory in Ecology and Evolution .

Acte de congrès

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Geographic origin and social status of the Gallic warriors from Ribemont‐sur‐Ancre (France) studied through isotope systematics of bone remains

Thibault Clauzel, Pascale Richardin, Jannick Ricard, Gilles Prilaux, Jeremy Martin, Romain Amiot...

International Journal of Osteoarchaeology . 33 ( 1 ) : 39-50

DOI: 10.1002/oa.3172

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Experimental analysis of diverse actin-like proteins from various magnetotactic bacteria by functional expression in Magnetospirillum gryphiswaldense

Ram Prasad Awal, Frank D Müller, Daniel Pfeiffer, Caroline L Monteil, Guy Perrière, Christopher T Lefèvre...

mBio . 14 ( 5 )

DOI: 10.1128/mbio.01649-23

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A first step towards the characterization of endogenous retroviruses’ evolutionary history and impact on small ruminant genomes

Marie Verneret, Caroline Leroux, Vincent Navratil, Thomas Faraut, Emmanuelle Lerat, Jocelyn Turpin

CNET 2023 : 24th National Congress on Transposable Elements 2023 .

Acte de congrès

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OVINE β-ENDOGENOUS RETROVIRUSES : FROM INTEGRATION TO COPY-SPECIFIC TRANSCRIPTION

Marie Verneret, Caroline Leroux, Emmanuelle Lerat, Vincent Navratil, Jocelyn Turpin

XXVèmes Journées Francophones de Virologie .

Poster

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De novo analysis of splicing from RNA-seq data: models, algorithms and applications

Vincent Lacroix

HDR

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Mitigation of the diagenesis risk in biological apatite δ18O interpretation

Christophe Lécuyer, Jean-Pierre Flandrois

Palaeogeography, Palaeoclimatology, Palaeoecology . 630 : 111812

DOI: 10.1016/j.palaeo.2023.111812

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δ2H and δ18O of river water from a high-altitude humid plain of the southern Alps: Implications for the interpretation of the isotopic compositions of bioapatite from humans living close to mountain areas

Christophe Lécuyer, François Atrops, François Fourel, Thibault Clauzel, Jean-Pierre Flandrois

Journal of Archaeological Science: Reports . 49 : 104020

DOI: 10.1016/j.jasrep.2023.104020

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IFB/ELIXIR-FR, the french node of ELIXIR

Anne-Françoise Adam-Blondon, Jacques van Helden, Gildas Le Corguillé, Christophe Blanchet, Hélène Chiapello, Christine Gaspin...

ISMB ECCB 2023 .

Acte de congrès

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Genomic portrait and relatedness patterns of the Iron Age Log Coffin culture in northwestern Thailand

Selina Carlhoff, Wibhu Kutanan, Adam B Rohrlach, Cosimo Posth, Mark Stoneking, Kathrin Nägele...

Nature Communications . 14 ( 1 ) : 8527

DOI: 10.1038/s41467-023-44328-2

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Genome-wide variation in the Angolan Namib Desert reveals unique pre-Bantu ancestry

Sandra Oliveira, Anne-Maria Fehn, Beatriz Amorim, Mark Stoneking, Jorge Rocha

Science Advances . 9 ( 38 )

DOI: 10.1126/sciadv.adh3822

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South Asian maternal and paternal lineages in southern Thailand and the role of sex-biased admixture

Wipada Woravatin, Mark Stoneking, Metawee Srikummool, Jatupol Kampuansai, Leonardo Arias, Wibhu Kutanan

PLoS ONE . 18 ( 9 ) : e0291547

DOI: 10.1371/journal.pone.0291547

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The genomic diversity of Taiwanese Austronesian groups: Implications for the “Into- and Out-of-Taiwan” models

Dang Liu, Albert Min-Shan Ko, Mark Stoneking

PNAS Nexus . 2 ( 5 )

DOI: 10.1093/pnasnexus/pgad122

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Genomic perspectives on human dispersals during the Holocene

Mark Stoneking, Leonardo Arias, Dang Liu, Sandra Oliveira, Irina Pugach, Jae Joseph Russell B Rodriguez

Proceedings of the National Academy of Sciences of the United States of America . 120 ( 4 )

DOI: 10.1073/pnas.2209475119

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Minimal Cut Sets of a Consortium Model of P. aeruginosa and S. aureus Reveal New Cross-Feeding Interactions

Maxime Mahout, Sabine Peres

Metabolic Pathway Analysis 2023 .

Acte de congrès

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