GECO Evolutionary and Computational Genomics

Bioinformatics, Phylogeny and Evolutionary Genomics Group

Baobab Group

Publications

Display of 331 to 360 publications on 1243 in total

Combined Genotypic, Phylogenetic, and Epidemiologic Analyses of Mycobacterium tuberculosis Genetic Diversity in the Rhône Alpes Region, France

Catherine Pichat, David Couvin, Gérard Carret, Isabelle Frédénucci, Véronique Jacomo, Anne Carricajo...

PLoS ONE . 11 ( 4 ) : e0153580

DOI: 10.1371/journal.pone.0153580

Journal article

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Splicing misregulation of SCN5A contributes to cardiac-conduction delay and heart arrhythmia in myotonic dystrophy

Fernande Freyermuth, Frédérique Rau, Yosuke Kokunai, Thomas Linke, Chantal Sellier, Masayuki Nakamori...

Nature Communications . 7 : 11067

DOI: 10.1038/ncomms11067

Journal article

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Silencing of natural transformation by an RNA chaperone and a multitarget small RNA

Laetitia Attaiech, Aïda Boughammoura, Céline Brochier-Armanet, Omran Allatif, Flora Peillard-Fiorente, Ross A. Edwards...

Proceedings of the National Academy of Sciences of the United States of America . 113 ( 31 ) : 8813-8818

DOI: 10.1073/pnas.1601626113

Journal article

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Transcriptional start site turnover in the evolution of bacterial paralogous genes - the pelE-pelD virulence genes in Dickeya

Alexandre Duprey, William Nasser, Simon Leonard, Céline Brochier-Armanet, S. Reverchon

FEBS Journal . 283 ( 22 ) : 4192-4207

Journal article

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Control of Hoxd gene transcription in the mammary bud by hijacking a preexisting regulatory landscape

R. Schep, A. Necsulea, E. Rodriguez-Carballo, I. Guerreiro, G. Andrey, T.H. Nguyen Huynh...

Proceedings of the National Academy of Sciences of the United States of America . 113 ( 48 ) : e7720-e7729

DOI: 10.1073/pnas.1617141113

Journal article

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Phylogenomic analysis supports the ancestral presence of LPS-outer membranes in the Firmicutes.

Luisa Cs Antunes, Daniel Poppleton, Andreas Klingl, Alexis Criscuolo, Bruno Dupuy, Céline Brochier-Armanet...

eLife . 5 : e14589

DOI: 10.7554/eLife.14589.020

Journal article

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Cell division of Streptococcus pneumoniae: think positive!

P. S. Garcia, J. P. Simorre, Céline Brochier-Armanet, C. Grangeasse

Current Opinion in Microbiology . 34 : 18-23

DOI: 10.1016/j.mib.2016.07.014

Journal article

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MultiPus: Conception de communautés microbiennes pour la production de composés d'intérêt

A Julien-Laferrière, Laurent Bulteau, D Parrot, A Marchetti-Spaccamela, L Stougie, S Vinga...

Jobim .

Poster

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Reply to Halanych et al.

Davide Pisani, Walker Pett, Martin Dohrmann, Roberto Feuda, Omar Rota-Stabelli, Herve Philippe...

Proceedings of the National Academy of Sciences of the United States of America . 113 ( 8 ) : E948-E949

DOI: 10.1073/pnas.1525718113

Journal article

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A role for HOX13 proteins in the regulatory switch between TADs at the HoxD locus

L. Beccari, N. Yakushiji-Kaminatsui, J. M. Woltering, A. Necsulea, N. Lonfat, E. Rodriguez-Carballo...

Genes and Development . 30 : 1172-86

DOI: 10.1101/gad.281055.116

Journal article

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RevBayes: Bayesian Phylogenetic Inference Using Graphical Models and an Interactive Model-Specification Language

S. Hohna, M. J. Landis, T. A. Heath, Bastien Boussau, Nicolas Lartillot, B. R. Moore...

Systematic Biology . 65 : 726-36

DOI: 10.1093/sysbio/syw021

Journal article

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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

BMC Genomics . 17 ( 1 )

DOI: 10.1186/s12864-016-2970-1

Journal article

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Efficient Enumeration of Solutions Produced by Closure Operations

Arnaud Mary, Yann Strozecki

33rd Symposium on Theoretical Aspects of Computer Science, STACS 2016 . 47

DOI: 10.4230/LIPIcs.STACS.2016.52

Conference paper

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On Maximal Chain Subgraphs and Covers of Bipartite Graphs

Tiziana Calamoneri, Mattia Gastaldello, Arnaud Mary, Marie-France Sagot, Blerina Sinaimeri

Combinatorial Algorithms - 27th International Workshop, IWOCA 2016 . 9843 : 137-150

DOI: 10.1007/978-3-319-44543-4_11

Conference paper

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Mycoplasma non-coding RNA: identification of small RNAs and targets

Franciele Maboni Siqueira, Guilherme Loss de Morais, Susan Higashi, Laura Scherer Beier, Gabriela Merker Breyer, Caio Padoan de Sá Godinho...

BMC Genomics . 23 : 1289 - 26

DOI: 10.1186/s12864-016-3061-z

Journal article

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No Evidence That Nitrogen Limitation Influences the Elemental Composition of Isopod Transcriptomes and Proteomes

Clémentine François, L. Duret, Laurent Simon, Florian Mermillod-Blondin, Florian Malard, Lara Konecny-Dupré...

Molecular Biology and Evolution . 33 ( 10 ) : 2605–2620

DOI: 10.1093/molbev/msw131

Journal article

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Recombination Rate Variation Modulates Gene Sequence Evolution Mainly via GC-Biased Gene Conversion, Not Hill–Robertson Interference, in an Avian System

Paulina Bolívar, Carina Mugal, Alexander Nater, Hans Ellegren

Molecular Biology and Evolution . 33 ( 1 ) : 216-227

DOI: 10.1093/molbev/msv214

Journal article

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GC‐biased gene conversion links the recombination landscape and demography to genomic base composition

Carina Mugal, Claudia Weber, Hans Ellegren

BioEssays . 37 ( 12 ) : 1317-1326

DOI: 10.1002/bies.201500058

Journal article

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Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum of Ficedula flycatchers

Reto Burri, Alexander Nater, Takeshi Kawakami, Carina Mugal, Pall Olason, Linnea Smeds...

Genome Research . 25 ( 11 ) : 1656-1665

DOI: 10.1101/gr.196485.115

Journal article

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Evolutionary Consequences of DNA Methylation on the GC Content in Vertebrate Genomes

Carina Mugal, Peter Arndt, Lena Holm, Hans Ellegren

G3 . 5 ( 3 ) : 441-447

DOI: 10.1534/g3.114.015545

Journal article

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Cell cycle progression is regulated by intertwined redox oscillators

Jorgelindo da Veiga Moreira, Sabine Pérès, Jean-Marc Steyaert, Erwan Bigan, Loïc Paulevé, Marcel Levy Nogeira...

Theoretical Biology and Medical Modelling . 12 ( 1 ) : 10

DOI: 10.1186/s12976-015-0005-2

Journal article

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Variation in Rural African Gut Microbiota Is Strongly Correlated with Colonization by Entamoeba and Subsistence

Elise R Morton, Joshua Lynch, Alain Froment, Sophie Lafosse, Evelyne Heyer, Molly M. Przeworski...

PLoS Genetics . 11 ( 11 ) : e1005658

DOI: 10.1371/journal.pgen.1005658

Journal article

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Genome reduction and potential metabolic complementation of the dual endosymbionts in the whitefly Bemisia tabaci

Qiong Rao, Pierre-Antoine Rollat-Farnier, Dan-Tong Zhu, Diego Santos-Garcia, Francisco J Silva, Andrés Moya...

BMC Genomics . 16 : 226

DOI: 10.1186/s12864-015-1379-6

Journal article

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Two Host Clades, Two Bacterial Arsenals: Evolution through Gene Losses in Facultative Endosymbionts.

Pierre-Antoine Rollat-Farnier, Diego Santos-Garcia, Qiong Rao, Marie-France Sagot, Francisco J Silva, Hélène Henri...

Genome Biology and Evolution . 7 ( 3 ) : 839-855

DOI: 10.1093/gbe/evv030

Journal article

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MeDuSa: A multi-draft based scaffolder.

Emanuele Bosi, Beatrice Donati, Marco Galardini, Sara Brunetti, Marie-France Sagot, Pietro Lió...

Bioinformatics . : pii: btv171 [Epub ahead of print]

DOI: 10.1093/bioinformatics/btv171

Journal article

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A polynomial delay algorithm for the enumeration of bubbles with length constraints in directed graphs

Gustavo Sacomoto, Vincent Lacroix, Marie‑france Sagot

Algorithms for Molecular Biology . : 10

DOI: 10.1186/s13015-015-0046-4

Journal article

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Mitochondrial respiration and genomic analysis provide insight into the influence of the symbiotic bacterium on host trypanosomatid oxygen consumption.

Allan C. Azevedo-Martins, A. C. L. Machado, Cecilia Coimbra Klein, L. Ciapina, Luiz Gonzaga, Ana Tereza Ribeiro Vasconcelos...

Parasitology . 142 ( 2 ) : 352-362

DOI: 10.1017/S0031182014001139

Journal article

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Polynomial Delay Algorithm for Listing Minimal Edge Dominating Sets in Graphs

Mamadou Moustapha Kanté, Vincent Limouzy, Arnaud Mary, Lhouari Nourine, Takeaki Uno

Algorithms and Data Structures (WADS) . 9214 : 446-457

Conference paper

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Assessment of polycarbonate filter in a molecular analytical system for the microbiological quality monitoring of recycled waters onboard ISS

Anne-Laure Bechy-Loizeau, Jean-Pierre Flandrois, Hafid Abaibou

Life Sciences in Space Research . 6 : 29-35

DOI: 10.1016/j.lssr.2015.06.002

Journal article

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