GECO Génomique Computationnelle et Evolutive

“One code to find them all”: a perl tool to conveniently parse RepeatMasker output files

Marc Bailly-Bechet, Annabelle Haudry, Emmanuelle Lerat

Mobile DNA . 5 : 13

DOI: 10.1186/1759-8753-5-13

2014

Article dans une revue

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Dioecy is associated with higher diversification rates in flowering plants

Jos Käfer, Hugo J de Boer, Sylvain Mousset, Anneleen Kool, Mathilde Dufaÿ, Gabriel A.B. Marais

Journal of Evolutionary Biology . 27 : 1478-1490

DOI: 10.1111/jeb.12385

2014

Article dans une revue

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Identification and Analysis of Transposable Elements in Genomic Sequences

Laurent Modolo, Emmanuelle Lerat

Genome analysis, current procedures and applications . 978-1-908230-29-4

2014

Chapitre d'ouvrage

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Formation of chromosome in bacteria

Olivier Poirion, Bénédicte Lafay

FEBS-EMBO 2014 Conference .

2014

Acte de congrès

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Amortized Õ(|V|) -Delay Algorithm for Listing Chordless Cycles in Undirected Graphs

Rui Ferreira, Roberto Grossi, Romeo Rizzi, Gustavo Sacomoto, Marie-France Sagot

22th Annual European Symposium on Algorithms . 8737 : 418-429

DOI: 10.1007/978-3-662-44777-2_35

2014

Acte de congrès

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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, Cristina Vieira

Genome Biology and Evolution . 6 : 1806 - 1817

DOI: 10.1093/gbe/evu141

2014

Article dans une revue

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Relationship between life-style and demography: new insights on human's demographic History from modern genetic data

Carla Aimé, Guillaume Laval, Etienne Patin, Paul Verdu, Laure Ségurel, Raphaëlle Chaix...

New Zealand annual Phylogenomics meeting .

2013

Acte de congrès

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GC-Biased Gene Conversion in Yeast Is Specifically Associated with Crossovers: Molecular Mechanisms and Evolutionary Significance

Y. Lesecque, D. Mouchiroud, L. Duret

Molecular Biology and Evolution . 30 : 1409--19

DOI: 10.1093/molbev/mst056

2013

Article dans une revue

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XACT, a long noncoding transcript coating the active X chromosome in human pluripotent cells

C. Vallot, C. Huret, Yann Lesecque, A. Resch, N. Oudrhiri, A. Bennaceur-Griscelli...

Nature Genetics . 45 : 239--41

DOI: 10.1038/ng.2530

2013

Article dans une revue

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The origin, evolution, and functional impact of short insertion-deletion variants identified in 179 human genomes

S. B. Montgomery, D. L. Goode, E. Kvikstad, C. A. Albers, Z. D. Zhang, X. J. Mu...

Genome Research . 23 : 749--61

DOI: 10.1101/gr.148718.112

2013

Article dans une revue

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PCR survey of 50 introns in animals: Cross-amplification of homologous EPIC loci in eight non-bilaterian, protostome and deuterostome phyla

K. Gerard, E. Guilloton, S. Arnaud-Haond, D. Aurelle, R. Bastrop, Pierre Chevaldonné...

Marine Genomics . 12 : 1-8

DOI: 10.1016/j.margen.2013.10.001

2013

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The short-term impact of wetland restoration on the genetic diversity of a predominantly clonal plant species

Jehanne Oudot-Canaff, Gudrun Bornette, Marie-Rose Viricel, Florence Piola, Sylvain Mousset, Evelyne Martel

Aquatic Botany . 110 : 16-23

DOI: 10.1016/j.aquabot.2013.04.006

2013

Article dans une revue

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Ancient Substructure in Early mtDNA Lineages of Southern Africa

Chiara Barbieri, Mário Vicente, Jorge Rocha, Sununguko w. Mpoloka, Mark Stoneking, Brigitte Pakendorf

American Journal of Human Genetics . 92 ( 2 ) : 285-292

DOI: 10.1016/j.ajhg.2012.12.010

2013

Article dans une revue

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Genome-wide analysis in chicken reveals that local levels of genetic diversity are mainly governed by the rate of recombination

Carina Mugal, Benoit Nabholz, Hans Ellegren

BMC Genomics . 14 ( 1 ) : 86

DOI: 10.1186/1471-2164-14-86

2013

Article dans une revue

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Twisted Signatures of GC-Biased Gene Conversion Embedded in an Evolutionary Stable Karyotype

Carina Mugal, Peter Arndt, Hans Ellegren

Molecular Biology and Evolution . 30 ( 7 ) : 1700-1712

DOI: 10.1093/molbev/mst067

2013

Article dans une revue

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Elementary Flux Modes Analysis of Functional Domain Networks Allows a Better Metabolic Pathway Interpretation

Sabine Pérès, Liza L. Felicori, Franck Molina

PLoS ONE . 8 ( 10 )

DOI: 10.1371/journal.pone.0076143

2013

Article dans une revue

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Analysis of metabolic networks using elementary flux modes

Sabine Pérès

Advances in systems and synthetic biology . : 165--170

2013

Acte de congrès

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Human Genetic Data Reveal Contrasting Demographic Patterns between Sedentary and Nomadic Populations That Predate the Emergence of Farming

Carla Aimé, Guillaume Laval, Etienne Patin, Paul Verdu, Laure L. Segurel, Raphaëlle Chaix...

Molecular Biology and Evolution . 30 ( 12 ) : 2629 - 2644

DOI: 10.1093/molbev/mst156

2013

Article dans une revue

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Ancestry runs deeper than blood: The evolutionary history of ABO points to cryptic variation of functional importance

Laure L. Segurel, Ziyue Gao, Molly Przeworski

BioEssays . : n/a-n/a

DOI: 10.1002/bies.201300030

2013

Article dans une revue

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Multiple Instances of Ancient Balancing Selection Shared Between Humans and Chimpanzees

E. Leffler, Z. Gao, S. Pfeifer, L. Segurel, A. Auton, O. Venn...

Science . 339 ( 6127 ) : 1578-1582

DOI: 10.1126/science.1234070

2013

Article dans une revue

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Positive selection of protective variants for type 2 diabetes from the Neolithic onward: a case study in Central Asia

Laure Ségurel, Frédéric Austerlitz, Bruno Toupance, Mathieu M. Gautier, Joanna L Kelley, Patrick Pasquet...

European Journal of Human Genetics . 21 ( 10 ) : 1146-1151

DOI: 10.1038/ejhg.2012.295

2013

Article dans une revue

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The complex binding of PRDM9

Laure Ségurel

Genome Biology . 14 ( 4 ) : 112

DOI: 10.1186/gb-2013-14-4-112

2013

Article dans une revue

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Eloge de l'ADN poubelle

Laurent Duret, Sylvain Charlat

Pour la science . 81 : 10--17

2013

Article dans une revue

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Is RAD-seq suitable for phylogenetic inference? An in silico assessment and optimization

Marie Cariou, Laurent Duret, Sylvain Charlat

Ecology and Evolution . 3 ( 4 ) : 846-852

DOI: 10.1002/ece3.512

2013

Article dans une revue

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On the genetic architecture of cytoplasmic incompatibility: inference from phenotypic data

Igor Nor, Jan Engelstädter, Olivier Duron, Max Reuter, Marie-France Sagot, Sylvain Charlat

The American Naturalist . 182 ( 1 ) : 15-24

DOI: 10.1086/670612

2013

Article dans une revue

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A polynomial delay algorithm for the enumeration of bubbles with length constraints in directed graphs and its application to the detection of alternative splicing in RNA-seq data

Gustavo Akio Tominaga Sacomoto, Vincent Lacroix, Marie-France Sagot

Workshop on Algorithms in Bioinformatics (WABI) .

2013

Acte de congrès

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Telling Stories Fast

Michele Borassi, Pierluigi Crescenzi, Vincent Lacroix, Andrea Marino, Marie-France Sagot, Paulo Vieira Milreu

12th International Symposium Experimental Algorithms (SEA) . 7933 : 200-211

2013

Acte de congrès

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Predicting the proteins of Angomonas deanei, Strigomonas culicis and their respective endosymbionts reveals new aspects of the trypanosomatidae family

Maria Cristina Machado Motta, Allan Cezar de Azevedo Martins, Silvana Sant'Anna de Souza, Carolina Moura Costa Catta-Preta, Rosane Silva, Cecilia Coimbra Klein...

PLoS ONE . 8 ( 4 ) : e60209

DOI: 10.1371/journal.pone.0060209

2013

Article dans une revue

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Génomes, protéomes et transcriptomes à foison

G. Perrière

Pour la science . 433 : 38--39

2013

Article dans une revue

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The molecular signal for the adaptation to cold temperature during early life on Earth

Mathieu Groussin, Bastien Boussau, Sandrine Charles, Samuel Blanquart, Manolo Gouy

Biology Letters . 9 ( 5 ) : 20130608

DOI: 10.1098/rsbl.2013.0608

2013

Article dans une revue

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GECO Génomique Computationnelle et Evolutive

Equipe Bioinformatique, Phylogénie et Génomique Évolutive

Equipe Baobab

Publications

“One code to find them all”: a perl tool to conveniently parse RepeatMasker output files

Dioecy is associated with higher diversification rates in flowering plants

Identification and Analysis of Transposable Elements in Genomic Sequences

Formation of chromosome in bacteria

Amortized Õ(|V|) -Delay Algorithm for Listing Chordless Cycles in Undirected Graphs

Specific Activation of an I-Like Element in Drosophila Interspecific Hybrids

Relationship between life-style and demography: new insights on human's demographic History from modern genetic data

GC-Biased Gene Conversion in Yeast Is Specifically Associated with Crossovers: Molecular Mechanisms and Evolutionary Significance

XACT, a long noncoding transcript coating the active X chromosome in human pluripotent cells

The origin, evolution, and functional impact of short insertion-deletion variants identified in 179 human genomes

PCR survey of 50 introns in animals: Cross-amplification of homologous EPIC loci in eight non-bilaterian, protostome and deuterostome phyla

The short-term impact of wetland restoration on the genetic diversity of a predominantly clonal plant species

Ancient Substructure in Early mtDNA Lineages of Southern Africa

Genome-wide analysis in chicken reveals that local levels of genetic diversity are mainly governed by the rate of recombination

Twisted Signatures of GC-Biased Gene Conversion Embedded in an Evolutionary Stable Karyotype

Elementary Flux Modes Analysis of Functional Domain Networks Allows a Better Metabolic Pathway Interpretation

Analysis of metabolic networks using elementary flux modes

Human Genetic Data Reveal Contrasting Demographic Patterns between Sedentary and Nomadic Populations That Predate the Emergence of Farming

Ancestry runs deeper than blood: The evolutionary history of ABO points to cryptic variation of functional importance

Multiple Instances of Ancient Balancing Selection Shared Between Humans and Chimpanzees

Positive selection of protective variants for type 2 diabetes from the Neolithic onward: a case study in Central Asia

The complex binding of PRDM9

Eloge de l'ADN poubelle

Is RAD-seq suitable for phylogenetic inference? An in silico assessment and optimization

On the genetic architecture of cytoplasmic incompatibility: inference from phenotypic data

A polynomial delay algorithm for the enumeration of bubbles with length constraints in directed graphs and its application to the detection of alternative splicing in RNA-seq data

Telling Stories Fast

Predicting the proteins of Angomonas deanei, Strigomonas culicis and their respective endosymbionts reveals new aspects of the trypanosomatidae family

Génomes, protéomes et transcriptomes à foison

The molecular signal for the adaptation to cold temperature during early life on Earth