GECO Evolutionary and Computational Genomics

Bioinformatics, Phylogeny and Evolutionary Genomics Group

Baobab Group

Publications

Display of 811 to 840 publications on 1403 in total

Phylogeny of prokaryotes: does it exist and why should we care?

Simonetta Gribaldo, Céline Brochier-Armanet

Research in Microbiology . 160 : 513-21

Journal article

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Happy together: genomic insights into the unique Nanoarchaeum/Ignicoccus association.

Patrick Forterre, Simonetta Gribaldo, Céline Brochier-Armanet

Journal of Biology . 8 ( 1 ) : 7

DOI: 10.1186/jbiol110

Journal article

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Complete genome of the cellulolytic thermophile Acidothermus cellulolyticus 11B provides insights into its ecophysiological and evolutionary adaptations

Ravi D. Barabote, Gary Xie, David H. Leu, Philippe Normand, Anamaria Necsulea, Vincent Daubin...

Genome Research . ( 19 ) : 1033-1043

DOI: 10.1101/gr.084848.108

Journal article

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Genomic environment influences the dynamics of the tirant LTR retrotransposon in Drosophila

M. Fablet, E. Lerat, R. Rebollo, B. Horard, N. Burlet, S. Martinez...

FASEB Journal . 23 : 54-62

Journal article

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Infra- and Transspecific Clues to Understanding the Dynamics of Transposable Elements

Cristina Vieira, M. Fablet, E. Lerat

genome dyn stab . -- : 115-123

Journal article

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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 . -- : 1-14

Journal article

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The relationship between DNA replication and human genome organization.

Anamaria Necsulea, Claire Guillet, Jean-Charles Cadoret, Marie-Noëlle Prioleau, L. Duret

Molecular Biology and Evolution . 26 ( 4 ) : 729-741

DOI: 10.1093/molbev/msn303

Journal article

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Multiple alignment of biological networks: A flexible approach

Yves-Pol Deniélou, Frédéric Boyer, Alain Viari, Marie-France Sagot

Combinatorial Pattern Matching (CPM) . 5577 : 263-273

DOI: 10.1007/978-3-642-02441-2_23

Conference paper

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Assessing the exceptionality of coloured motifs in networks

Sophie S. Schbath, Vincent Lacroix, Marie-France Sagot

EURASIP Journal on Bioinformatics and Systems Biology . 2009 : 9 pages on line

DOI: 10.1155/2009/616234

Journal article

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Fast optimization of statistical potentials for structurally constrained phylogenetic models

Cécile Bonnard, Claudia L. Kleinman, Nicolas Rodrigue, Nicolas Lartillot

BMC Evolutionary Biology . 9 ( 1 ) : 227

DOI: 10.1186/1471-2148-9-227

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Comment on “Human-Specific Gain of Function in a Developmental Enhancer”

L. Duret, N. Galtier

Science . 323(5915) : 714-715

Journal article

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Biased Gene Conversion and the Evolution of Mammalian Genomic Landscapes

L. Duret, N. Galtier

Annual Review of Genomics and Human Genetics . 10 : 285-311

Journal article

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L’évolution des chromosomes sexuels humains

Gabriel Marais, L. Duret

Biofutur . 304 : 40-41

Journal article

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Current tools for the identification of miRNA genes and their targets

N.D. Mendes, A.T. Freitas, M.-F. Sagot

Nucleic Acids Research . 2009 : 2419-2433

Journal article

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Lossless filter for multiple repeats with bounded edit distance

Pierre Peterlongo, Gustavo Akio Tominaga Sacomoto, Alair Pereira Do Lago, Nadia Pisanti, Marie-France Sagot

Algorithms for Molecular Biology . 4 ( 1 ) : 3

DOI: 10.1186/1748-7188-4-3

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An asymmetric approach to preserve common intervals while sorting by reversals

Marília D.V. Braga, Christian Gautier, Marie-France Sagot

Algorithms for Molecular Biology . 4 ( 1 ) : 16

DOI: 10.1186/1748-7188-4-16

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AcypiCyc (Acyrthosiphon pisum Cyc database) and CycADS (Cyc Annotation Database System): moving from genome sequence annotation to metabolic network analyses

Stefano Colella, A. Vellozo, L. Cottret, G. Febvay, Federica Calevro, Yvan Rahbé...

8th International Symposium on Aphids (8 ISA 2009) . : 1-1

Conference paper

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A pharmacologically based multiscale mathematical model of angiogenesis and its use in investigating the efficacy of a new cancer treatment strategy.

Frédérique Billy, Benjamin Ribba, Olivier Saut, Hélène Morre-Trouilhet, Thierry Colin, Didier Bresch...

Journal of Theoretical Biology . 260 ( 4 ) : 545-62

DOI: 10.1016/j.jtbi.2009.06.026

Journal article

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Iron-sulfur (Fe/S) protein biogenesis: phylogenomic and genetic studies of A-type carriers

D. Vinella, Céline Brochier-Armanet, L. Loiseau, E. Talla, F. Barras

PLoS Genetics . 5 : 261-268

Journal article

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Qri7/OSGEPL the mitochondrial version of the universal Kae1/YgjD protein is essential for mitochondrial genome maintenance

J. Oberto, N. Breuil, A. Hecker, F. Farina, Céline Brochier-Armanet, E. Culetto...

Nucleic Acids Research . 37 : 5343-52

Journal article

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Comparison of alignment free string distances for complete genome phylogeny

F. Guyon, Céline Brochier-Armanet, A. Guénoche

Advances in Data Analysis and Classification . 3 : 95-108

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Full-Length Genome Characterization of a Novel Simian Immunodeficiency Virus Lineage (SIVolc) from Olive Colobus (Procolobus verus) and New SIVwrcPbb Strains from Western Red Colobus (Piliocolobus badius badius) from the Taï Forest in Ivory Coast

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

Journal of Virology . 83 ( 1 ) : 428-439

DOI: 10.1128/JVI.01725-08

Journal article

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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, Sonia Martinez...

FASEB Journal . 23 ( 5 ) : 1482-9

DOI: 10.1096/fj.08-123513

Journal article

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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

BMC Evolutionary Biology . 9 : 174

DOI: 10.1186/1471-2148-9-174

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Qri7/OSGEPL, the mitochondrial version of the universal Kae1/YgjD protein, is essential for mitochondrial genome maintenance.

Jacques Oberto, Norman Breuil, Arnaud Hecker, Francesca Farina, Céline Brochier-Armanet, Emmanuel Culetto...

Nucleic Acids Research . : epub ahead of print

DOI: 10.1093/nar/gkp557

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Computational Methods for Evaluating Phylogenetic Models of Coding Sequence Evolution with Dependence between Codons

Nicolas Rodrigue, Claudia L Kleinman, Hervé Philippe, Nicolas Lartillot

Molecular Biology and Evolution . 26 ( 7 ) : 1663 - 1676

DOI: 10.1093/molbev/msp078

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In Retrospect: Lamarck's treatise at 200

Dan Graur, Manolo Gouy, David Wool

Nature . 460 ( 7256 ) : 688-689

DOI: 10.1038/460688a

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A White Campion textit(Silene latifolia) floral expressed sequence tag (EST) library: annotation EST-SSR characterization transferability and utility for comparative mapping

Md. Moccia, C. Oger-Desfeux, Gabriel Marais, A. Widmer

BMC Genomics . 10(243) : 1-14

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Silene as a model system in ecology and evolution

G. Bernasconi, J. Antonovics, A. Biere, D. Charlesworth, Lf. Delph, D. Filatov...

Heredity . 103 : 583-589

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