GECO Evolutionary and Computational Genomics

Identification de motifs dans les réseaux métaboliques

Vincent Lacroix

2007

Thesis

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An archaeal orthologue of the universal protein Kae1 is an iron metalloprotein which exhibits atypical DNA-binding properties and apurinic-endonuclease activity in vitro.

Arnaud Hecker, Nicolas Leulliot, Danièle Gadelle, Marc Graille, Anthony Justome, Pierre Dorlet...

Nucleic Acids Research . 35 ( 18 ) : 6042-51

DOI: 10.1093/nar/gkm554

2007

Journal article

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Early archives of genetically-restricted proviral DNA in the female genital tract after heterosexual transmission of HIV-1

N. Chomont, H. Hocini, G. Gresenguet, Céline Brochier-Armanet, H. Bouhlal, L. Andreoletti...

AIDS. Official journal of the international AIDS Society . 21 : 153--162

2007

Journal article

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Phylogenomics of the archaeal flagellum: rare horizontal gene transfer in a unique motility structure

Elie Desmond-Le Quéméner, Céline Brochier-Armanet, Simonetta Gribaldo

BMC Evolutionary Biology . 7 : 53-70

DOI: 10.1186/1471-2148-7-106

2007

Journal article

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Identification and molecular characterization of new STLV-1 and STLV-3 strains in wild-caught nonhuman primates in Cameroon

Florian Liegeois, Bénédicte Lafay, William M. Switzer, Sabrina Locatelli, Eitel Mpoudi-Ngolé, Severin Loul...

Virology . 371 ( 2 ) : 405-417

DOI: 10.1016/j.virol.2007.09.037

2007

Journal article

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Evaluation of the models handling heterotachy in phylogenetic inference

Yan Zhou, Nicolas Rodrigue, Nicolas Lartillot, Herve Philippe

BMC Evolutionary Biology . 7 : 206-219

DOI: 10.1186/1471-2148-7-206

2007

Journal article

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Suppression of Long-Branch Attraction Artefacts in the Animal Phylogeny Using a Site-Heterogeneous Model

Nicolas Lartillot, Henner Brinkmann, Herve Philippe

BMC Evolutionary Biology . 7 ( Suppl 1 ) : S4

DOI: 10.1186/1471-2148-7-S1-S4

2007

Journal article

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A New Method for Assessing the Effect of Replication on DNA Base Composition Asymmetry

A. Necşulea, J.R. Lobry

incollection . 7 : 379-381

2007

Journal article

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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 of Molecular Evolution . 65 ( 3 ) : 215-227

DOI: 10.1007/s00239-007-9001-4

2007

Journal article

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Predictions for whole genome 2D display according to size and sequence composition

Bénédicte Lafay, Jean-François Mercier, Christine Kingsburry, Gary W. Slater

3rd SCOPE meeting on Microbial Environmental Genomics (MicroEnGenIII ) .

2007

Conference paper

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Genetic diversity and phylogeographic clustering of SIVcpzPtt in wild chimpanzees in Cameroon.

Fran van Heuverswyn, Yingying Li, Elizabeth Bailes, Cecile Neel, Bénédicte Lafay, Brandon F Keele...

Virology . 368 ( 1 ) : 155-71

DOI: 10.1016/j.virol.2007.06.018

2007

Journal article

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Prevalence and genetic diversity of simian immunodeficiency virus infection in wild red colobus Monkeys (Piliocolobus badius badius) from the Taï Forest, Côte d'Ivoire

Sabrina Locatelli, Florian Liegeois, Bénédicte Lafay, Amy D Roeder, M. W. Bruford, Pierre Formenty...

2nd Congress of the European Federation of Primatology .

2007

Conference paper

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Molecular characterization of a simian immunodeficiency virus lineage (SIVwrc) from western red colobus (Piliocolobus badius badius)

Florian Liegeois, Sabrina Locatelli, Bénédicte Lafay, Pierre Formenty, Valérie Courgnaud, Eric Delaporte...

14th International Workshop of HIV Dynamics & Evolution .

2007

Conference paper

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Simian immunodeficiency virus infection in wildliving red colobus monkey (Piliocolobus badius badius) from the Taï forest, Côte D'Ivoire

Sabrina Locatelli, Florian Liegeois, Bénédicte Lafay, A.D. Roeder, M. W. Bruford, R. Noë...

14th International Workshop of HIV Dynamics & Evolution .

2007

Conference paper

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Molecular diversity of legume root-nodule bacteria in Kakadu National Park, Northern Territory, Australia.

Bénédicte Lafay, Jeremy J Burdon

PLoS ONE . 2 ( 3 ) : e277

DOI: 10.1371/journal.pone.0000277

2007

Journal article

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Identification and characterization of human Mex-3 proteins, a novel family of evolutionarily conserved RNA-binding proteins differentially localized to processing bodies.

Karine Buchet-Poyau, Julien Courchet, Hervé Le Hir, Bertrand Séraphin, Jean-Yves Scoazec, L. Duret...

Nucleic Acids Research . 35 ( 4 ) : 1289-300

DOI: 10.1093/nar/gkm016

2007

Journal article

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Investigating the effects of prehistoric migrations in Siberia: genetic variation and the origins of Yakuts

Brigitte Pakendorf, Innokentij Novgorodov, Vladimir Osakovskij, Al’bina Danilova, Artur Protod’jakonov, Mark Stoneking

Human Genetics . 120 ( 3 ) : 334-353

DOI: 10.1007/s00439-006-0213-2

2006

Journal article

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Melanesian and Asian origins of Polynesians: mtDNA and Y chromosome gradients across the Pacific

M. Kayser, S. Brauer, R. Cordaux, A. Casto, O. Lao, L.A. Zhivotovsky...

Molecular Biology and Evolution . 23 : 2234-2244

2006

Journal article

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Mycotoxin fumonisin B-1 selectively down-regulates the basal IL-8 expression in pig intestine: in vivo and in vitro studies

S Bouhet, E Le Dorze, Sabine Pérès, Jm Fairbrother, Isabelle P. Oswald

Food and Chemical Toxicology . 44 ( 10 ) : 1768-1773

2006

Journal article

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Global trends of whole genome duplications revealed by the genome sequence of the ciliate Paramecium tetraurelia

Jean-Marc Aury, Olivier Jaillon, * Laurent Duret, Benjamin Noel, Claire Jubin, Betina M. Porcel...

Nature . 444 ( 7116 ) : 171-178

DOI: 10.1038/nature05230

2006

Journal article

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GC Content Evolution of the Human and Mouse Genomes : Insights from the Study of Processed Pseudogenes in Regions of Different Recombination Rates.

A. Khelifi, J. Meunier, L. Duret, Dominique Mouchiroud

Journal of Molecular Evolution . 62 : 745-752

2006

Journal article

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Insights into social insects from the genome of the honeybee Apis mellifera

G.M. Weinstock, G.E. Robinson, R.A. Gibbs, K.C. Worley, J.D. Evans, R. Maleszka...

Nature . 443 : 931-949

2006

Journal article

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Uncovering structure in biological networks

J.J. Daudin, Vincent Lacroix, M. Mariadassou, V. Miele, Franck Picard, S. Robin...

incollection . -- : 471-483

2006

Journal article

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Motif search in graphs: application to metabolic networks.

Vincent Lacroix, C.G. Fernandes, M.-F. Sagot

IEEE/ACM Transactions on Computational Biology and Bioinformatics . 3 - n°4 : 360-368

2006

Journal article

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Longest Repeats with a Block of k Don't Cares

Maxime Crochemore, Costas S. Iliopoulos, Manal Mohamed, Marie-France Sagot

Theoretical Computer Science . 362 ( 1-3 ) : 248-254

DOI: 10.1016/j.tcs.2006.06.029

2006

Journal article

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Origin and molecular evolution of receptor tyrosine kinases with immunoglobulin-like domains.

Julien Grassot, Manolo Gouy, Guy Perrière, Guy Mouchiroud

Molecular Biology and Evolution . 23 ( 6 ) : 1232-41

DOI: 10.1093/molbev/msk007

2006

Journal article

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Efficient Likelihood Computations with Nonreversible Models of Evolution

Bastien Boussau, Manolo Gouy

Systematic Biology . 55 ( 5 ) : 756-768

DOI: 10.1080/10635150600975218

2006

Journal article

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Phylogeography of a subterranean amphipod reveals cryptic diversity and dynamic evolution in extreme environments

T. Lefébure, C.J. Douady, Manolo Gouy, P. Trontel, J. Briolay, J. Gibert

Molecular Ecology . 15 : 1797-1806

DOI: 10.1111/j.1365-294X.2006.02888.x

2006

Journal article

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Mycobacterium bovis Infection

S. Mignard, Jean-Pierre Flandrois

Journal of Medical Microbiology . 56 : 1033-1041

2006

Journal article

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Molecular diversity of rhizobia nodulating the invasive legume Cytisus scoparius in Australia.

Bénédicte Lafay, Jeremy J. Burdon

Journal of Applied Microbiology . 100 ( 6 ) : 1228-38

DOI: 10.1111/j.1365-2672.2006.02902.x

2006

Journal article

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GECO Evolutionary and Computational Genomics

Bioinformatics, Phylogeny and Evolutionary Genomics Group

Baobab Group

Publications

Identification de motifs dans les réseaux métaboliques

An archaeal orthologue of the universal protein Kae1 is an iron metalloprotein which exhibits atypical DNA-binding properties and apurinic-endonuclease activity in vitro.

Early archives of genetically-restricted proviral DNA in the female genital tract after heterosexual transmission of HIV-1

Phylogenomics of the archaeal flagellum: rare horizontal gene transfer in a unique motility structure

Identification and molecular characterization of new STLV-1 and STLV-3 strains in wild-caught nonhuman primates in Cameroon

Evaluation of the models handling heterotachy in phylogenetic inference

Suppression of Long-Branch Attraction Artefacts in the Animal Phylogeny Using a Site-Heterogeneous Model

A New Method for Assessing the Effect of Replication on DNA Base Composition Asymmetry

Maintenance in the chicken genome of the retroviral-like cENS gene family specifically expressed in early embryos

Predictions for whole genome 2D display according to size and sequence composition

Genetic diversity and phylogeographic clustering of SIVcpzPtt in wild chimpanzees in Cameroon.

Prevalence and genetic diversity of simian immunodeficiency virus infection in wild red colobus Monkeys (Piliocolobus badius badius) from the Taï Forest, Côte d'Ivoire

Molecular characterization of a simian immunodeficiency virus lineage (SIVwrc) from western red colobus (Piliocolobus badius badius)

Simian immunodeficiency virus infection in wildliving red colobus monkey (Piliocolobus badius badius) from the Taï forest, Côte D'Ivoire

Molecular diversity of legume root-nodule bacteria in Kakadu National Park, Northern Territory, Australia.

Identification and characterization of human Mex-3 proteins, a novel family of evolutionarily conserved RNA-binding proteins differentially localized to processing bodies.

Investigating the effects of prehistoric migrations in Siberia: genetic variation and the origins of Yakuts

Melanesian and Asian origins of Polynesians: mtDNA and Y chromosome gradients across the Pacific

Mycotoxin fumonisin B-1 selectively down-regulates the basal IL-8 expression in pig intestine: in vivo and in vitro studies

Global trends of whole genome duplications revealed by the genome sequence of the ciliate Paramecium tetraurelia

GC Content Evolution of the Human and Mouse Genomes : Insights from the Study of Processed Pseudogenes in Regions of Different Recombination Rates.

Insights into social insects from the genome of the honeybee Apis mellifera

Uncovering structure in biological networks

Motif search in graphs: application to metabolic networks.

Longest Repeats with a Block of k Don't Cares

Origin and molecular evolution of receptor tyrosine kinases with immunoglobulin-like domains.

Efficient Likelihood Computations with Nonreversible Models of Evolution

Phylogeography of a subterranean amphipod reveals cryptic diversity and dynamic evolution in extreme environments

Mycobacterium bovis Infection

Molecular diversity of rhizobia nodulating the invasive legume Cytisus scoparius in Australia.