GECO Evolutionary and Computational Genomics

Bioinformatics, Phylogeny and Evolutionary Genomics Group

Baobab Group

Publications

Display of 571 to 600 publications on 1303 in total

A Fine-Scale Chimpanzee Genetic Map from Population Sequencing

A. Auton, A. Fledel-Alon, S. Pfeifer, O. Venn, L. Segurel, T. Street...

Science . 336 ( 6078 ) : 193-198

DOI: 10.1126/science.1216872

Journal article

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The ABO blood group is a trans-species polymorphism in primates

Laure L. Segurel, Emma E. E. E. Thompson, Timothée T. Flutre, Jessica J. Lovstad, Aarti A. Venkat, Susan W. S. W. Margulis...

Proceedings of the National Academy of Sciences of the United States of America . 109 ( 45 ) : 18493 - 18498

DOI: 10.1073/pnas.1210603109

Journal article

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Evidence for Widespread GC-biased Gene Conversion in Eukaryotes

Eugénie Pessia, Alexandra Popa, Sylvain Mousset, Clément Rezvoy, Laurent Duret, G. Marais

Genome Biology and Evolution . 4 : 787-794

DOI: 10.1093/gbe/evs052

Journal article

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Efficient Bubble Enumeration in Directed Graphs

Etienne E. Birmelé, Pierluigi Crescenzi, Rui Ferreira, Roberto Grossi, Vincent Lacroix, Andrea Marino...

String Processing and Information Retrieval (SPIRE) . 7608 : 118-129

DOI: 10.1007/978-3-642-34109-0_13

Conference paper

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Minimum ratio cover of matrix columns by extreme rays of its induced cone

Alexandre da Silva Freire, Vicente Acuña, Pierluigi Crescenzi, Carlos Eduardo Ferreira, Vincent Lacroix, Paulo Vieira Milreu...

Proceedings of the Second international Symposium on Combinatorial Optimization (ISCO) . 7422 : 165--177

DOI: 10.1007/978-3-642-32147-4_16

Conference paper

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Sampling solution traces for the problem of sorting permutations by signed reversals

Christian Baudet, Zanoni Dias, Marie-France Sagot

Algorithms for Molecular Biology . 7 ( 1 ) : 18

DOI: 10.1186/1748-7188-7-18

Journal article

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KISSPLICE: de-novo calling alternative splicing events from RNA-seq data

Gustavo Sacomoto, Janice Kielbassa, Rayan Chikhi, Raluca Uricaru, Pavlos Antoniou, Marie-France Sagot...

BMC Bioinformatics . 13 ( Suppl 6 ) : S5

DOI: 10.1186/1471-2105-13-S6-S5

Journal article

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Toward community standards in the quest for orthologs

Christophe Dessimoz, Toni Gabaldon, David Roos, Erik L L Sonnhammer, Javier Herrero, Alfonso Valencia...

Bioinformatics . 28 ( 6 ) : 900-904

DOI: 10.1093/bioinformatics/bts050

Journal article

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Simplified detection of food-borne pathogens: An in situ high affinity capture and staining concept

T. Junillon, A. Vimont, D. Mosticone, B. Mallen, F. Baril, C. Rozand...

Journal of Microbiological Methods . 91 : 501--505

DOI: 10.1016/j.mimet.2012.09.015

Journal article

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Modelling and simulating generic RNA-Seq experiments with the flux simulator.

Thasso Griebel, Benedikt Zacher, Paolo Ribeca, Emanuele Raineri, Vincent Lacroix, Roderic Guigó...

Nucleic Acids Research . 40 ( 20 ) : 10073-10083

DOI: 10.1093/nar/gks666

Journal article

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Les défis de la systématique face au monde microbien

Céline Brochier-Armanet, Simonetta Gribaldo

incollection . 328 : 49-52

Journal article

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Comparative genomic analysis of the DUF71/COG2102 family predicts roles in diphthamide biosynthesis and B12 salvage

V. de Crécy-Lagard, F. Forouhar, Céline Brochier-Armanet, L. Tong, Jf. Hunt

Biology Direct . 7 : 1--13

DOI: 10.1186/1745-6150-7-32

Journal article

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A comparative analysis of the amounts and dynamics of transposable elements in natural populations of Drosophila melanogaster and Drosophila simulans.

Cristina Vieira, Marie Fablet, Emmanuelle Lerat, Matthieu Boulesteix, Rita Rebollo, Nelly Burlet...

Journal of Environmental Radioactivity . 113 : 83-86

DOI: 10.1016/j.jenvrad.2012.04.001

Journal article

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The CycADS annotation database system to support the development and update of enriched BioCyc databases. Development of ad hoc BioCyc DB : AcypiCyc, ArthopodaCyc

Patrice Baa-Puyoulet, Augusto Vellozo, Jaime Huerta-Cepas, Gérard Febvay, Toni Gabaldon, Marie-France Sagot...

5. Réunion Réseau BAPOA .

Poster

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Navigating the unexplored seascape of pre-miRNA candidates in single-genome approaches.

Nuno D Mendes, Steffen Heyne, Ana T Freitas, Marie-France Sagot, Rolf Backofen

Bioinformatics . 28 ( 23 ) : 3034-3041

DOI: 10.1093/bioinformatics/bts574

Journal article

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Analysis of RNA Transcripts by High-Throughput RNA Sequencing

Paolo Ribeca, Vincent Lacroix, Michael Sammeth, Roderic Guigó

Alternative pre-mRNA Splicing: Theory and Protocols . 9783527636778

DOI: 10.1002/9783527636778.ch50

Book chapter

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Molecular organization, biochemical function, cellular role and evolution of NfuA, an atypical Fe-S carrier.

Béatrice Py, Catherine Gerez, Sandra Angelini, Rémy Planel, Daniel Vinella, Laurent Loiseau...

Molecular Microbiology . 86 ( 1 ) : 155-71

DOI: 10.1111/j.1365-2958.2012.08181.x

Journal article

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Spotlight on the Thaumarchaeota

C. Brochier-Armanet, Simonetta Gribaldo, Patrick Forterre

The International Society of Microbiologial Ecology Journal . 6 : 227-230

DOI: 10.1038/ismej.2011.145

Journal article

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The Paramecium Germline Genome Provides a Niche for Intragenic Parasitic DNA: Evolutionary Dynamics of Internal Eliminated Sequences.

Olivier Arnaiz, Nathalie Mathy, Céline Baudry, Sophie Malinsky, Jean-Marc Aury, Cyril Denby Wilkes...

PLoS Genetics . 8 ( 10 ) : e1002984

DOI: 10.1371/journal.pgen.1002984

Journal article

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Mod/Resc Parsimony Inference: Theory and application

Igor Nor, Danny Hermelin, Sylvain Charlat, Jan Engelstadter, Max Reuter, Olivier Duron...

Information and Computation . 213 : 23-32

DOI: 10.1016/j.ic.2011.03.008

Journal article

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Algorithms and complexity of enumerating minimal precursor sets in genome-wide metabolic networks.

Vicente Acuña, Paulo Vieira Milreu, Ludovic Cottret, Alberto Marchetti-Spaccamela, Leen Stougie, Marie-France Sagot

Bioinformatics . 28 ( 19 ) : 2474-2483

DOI: 10.1093/bioinformatics/bts423

Journal article

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The CycADS annotation database system to support the development and update of enriched BioCyc databases. Development of ad hoc BioCyc DB : AcypiCyc, ArthopodaCyc

Patrice Baa-Puyoulet, Augusto F. Vellozo, Jaime Huerta-Cepas, Gérard Febvay, Toni Gabaldon, Marie-France Sagot...

13. Journées Ouvertes en Biologie, Informatique et Mathématiques . 978-2-7261-1301-1 : Pagination multiple

Conference paper

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Telling stories: Enumerating maximal directed acyclic graphs with a constrained set of sources and targets

Vicente Acuña, Etienne Birmelé, Ludovic Cottret, Pierluigi Crescenzi, Fabien Jourdan, Vincent Lacroix...

Theoretical Computer Science . 457 : 1--9

DOI: 10.1016/j.tcs.2012.07.023

Journal article

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Exploration of the core metabolism of symbiotic bacteria

Cecilia Coimbra Klein, Ludovic Cottret, Janice Kielbassa, Hubert Charles, Christian Gautier, Ana Tereza Ribeiro de Vasconcelos...

BMC Genomics . 13 ( 1 ) : 438

DOI: 10.1186/1471-2164-13-438

Journal article

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ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data.

Milana Frenkel-Morgenstern, Alessandro Gorohovski, Vincent Lacroix, Mark Rogers, Kristina Ibanez, Cesar Boullosa...

Nucleic Acids Research . 41 ( D1 ) : D142-D151

DOI: 10.1093/nar/gks1041

Journal article

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Chimeras taking shape: potential functions of proteins encoded by chimeric RNA transcripts.

Milana Frenkel-Morgenstern, Vincent Lacroix, Iakes Ezkurdia, Yishai Levin, Alexandra Gabashvili, Jaime Prilusky...

Genome Research . 22 ( 7 ) : 1231-1242

DOI: 10.1101/gr.130062.111

Journal article

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Evidence for transcript networks composed of chimeric RNAs in human cells

Sarah Djebali, Julien Lagarde, Philipp Kapranov, Vincent Lacroix, Christelle Borel, Jonathan M. Mudge...

PLoS ONE . 7 ( 1 ) : Non paginé

DOI: 10.1371/journal.pone.0028213

Journal article

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