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Results: 1 to 20 of 33


USI: a fast and accurate approach for conceptual document annotation.

Fiorini N, Ranwez S, Montmain J, Ranwez V.

BMC Bioinformatics. 2015 Mar 14;16:83. doi: 10.1186/s12859-015-0513-4.


Exploring the space of gene/species reconciliations with transfers.

Chan YB, Ranwez V, Scornavacca C.

J Math Biol. 2014 Dec 14. [Epub ahead of print]


Impact of recurrent gene duplication on adaptation of plant genomes.

Fischer I, Dainat J, Ranwez V, Glémin S, Dufayard JF, Chantret N.

BMC Plant Biol. 2014 May 31;14:151. doi: 10.1186/1471-2229-14-151.


OrthoMaM v8: a database of orthologous exons and coding sequences for comparative genomics in mammals.

Douzery EJ, Scornavacca C, Romiguier J, Belkhir K, Galtier N, Delsuc F, Ranwez V.

Mol Biol Evol. 2014 Jul;31(7):1923-8. doi: 10.1093/molbev/msu132. Epub 2014 Apr 9.


Evolutionary tinkering of the expression of PDF1s suggests their joint effect on zinc tolerance and the response to pathogen attack.

Nguyen NN, Ranwez V, Vile D, Soulié MC, Dellagi A, Expert D, Gosti F.

Front Plant Sci. 2014 Mar 11;5:70. doi: 10.3389/fpls.2014.00070. eCollection 2014.


Disentangling homeologous contigs in allo-tetraploid assembly: application to durum wheat.

Ranwez V, Holtz Y, Sarah G, Ardisson M, Santoni S, Glémin S, Tavaud-Pirra M, David J.

BMC Bioinformatics. 2013;14 Suppl 15:S15. doi: 10.1186/1471-2105-14-S15-S15. Epub 2013 Oct 15.


Reconciliation-based detection of co-evolving gene families.

Chan YB, Ranwez V, Scornavacca C.

BMC Bioinformatics. 2013 Nov 20;14:332. doi: 10.1186/1471-2105-14-332.


Support measures to estimate the reliability of evolutionary events predicted by reconciliation methods.

Nguyen TH, Ranwez V, Berry V, Scornavacca C.

PLoS One. 2013 Oct 4;8(10):e73667. doi: 10.1371/journal.pone.0073667. eCollection 2013.


Plant Defensin type 1 (PDF1): protein promiscuity and expression variation within the Arabidopsis genus shed light on zinc tolerance acquisition in Arabidopsis halleri.

Shahzad Z, Ranwez V, Fizames C, Marquès L, Le Martret B, Alassimone J, Godé C, Lacombe E, Castillo T, Saumitou-Laprade P, Berthomieu P, Gosti F.

New Phytol. 2013 Nov;200(3):820-33. doi: 10.1111/nph.12396. Epub 2013 Jul 19.


Less is more in mammalian phylogenomics: AT-rich genes minimize tree conflicts and unravel the root of placental mammals.

Romiguier J, Ranwez V, Delsuc F, Galtier N, Douzery EJ.

Mol Biol Evol. 2013 Sep;30(9):2134-44. doi: 10.1093/molbev/mst116. Epub 2013 Jun 29.


A new versatile primer set targeting a short fragment of the mitochondrial COI region for metabarcoding metazoan diversity: application for characterizing coral reef fish gut contents.

Leray M, Yang JY, Meyer CP, Mills SC, Agudelo N, Ranwez V, Boehm JT, Machida RJ.

Front Zool. 2013 Jun 14;10:34. doi: 10.1186/1742-9994-10-34. eCollection 2013.


Representing a set of reconciliations in a compact way.

Scornavacca C, Paprotny W, Berry V, Ranwez V.

J Bioinform Comput Biol. 2013 Apr;11(2):1250025. doi: 10.1142/S0219720012500254. Epub 2012 Dec 28.


Reconciliation and local gene tree rearrangement can be of mutual profit.

Nguyen TH, Ranwez V, Pointet S, Chifolleau AM, Doyon JP, Berry V.

Algorithms Mol Biol. 2013 Apr 8;8(1):12. doi: 10.1186/1748-7188-8-12.


Genomic evidence for large, long-lived ancestors to placental mammals.

Romiguier J, Ranwez V, Douzery EJ, Galtier N.

Mol Biol Evol. 2013 Jan;30(1):5-13. doi: 10.1093/molbev/mss211. Epub 2012 Sep 4.


Sequencing of the smallest Apicomplexan genome from the human pathogen Babesia microti.

Cornillot E, Hadj-Kaddour K, Dassouli A, Noel B, Ranwez V, Vacherie B, Augagneur Y, Brès V, Duclos A, Randazzo S, Carcy B, Debierre-Grockiego F, Delbecq S, Moubri-Ménage K, Shams-Eldin H, Usmani-Brown S, Bringaud F, Wincker P, Vivarès CP, Schwarz RT, Schetters TP, Krause PJ, Gorenflot A, Berry V, Barbe V, Ben Mamoun C.

Nucleic Acids Res. 2012 Oct;40(18):9102-14. doi: 10.1093/nar/gks700. Epub 2012 Jul 24.


Reference-free transcriptome assembly in non-model animals from next-generation sequencing data.

Cahais V, Gayral P, Tsagkogeorga G, Melo-Ferreira J, Ballenghien M, Weinert L, Chiari Y, Belkhir K, Ranwez V, Galtier N.

Mol Ecol Resour. 2012 Sep;12(5):834-45. doi: 10.1111/j.1755-0998.2012.03148.x. Epub 2012 Apr 30.


Fast and robust characterization of time-heterogeneous sequence evolutionary processes using substitution mapping.

Romiguier J, Figuet E, Galtier N, Douzery EJ, Boussau B, Dutheil JY, Ranwez V.

PLoS One. 2012;7(3):e33852. doi: 10.1371/journal.pone.0033852. Epub 2012 Mar 27.


User centered and ontology based information retrieval system for life sciences.

Sy MF, Ranwez S, Montmain J, Regnault A, Crampes M, Ranwez V.

BMC Bioinformatics. 2012 Jan 25;13 Suppl 1:S4. doi: 10.1186/1471-2105-13-S1-S4.


Efficient selection of branch-specific models of sequence evolution.

Dutheil JY, Galtier N, Romiguier J, Douzery EJ, Ranwez V, Boussau B.

Mol Biol Evol. 2012 Jul;29(7):1861-74. doi: 10.1093/molbev/mss059. Epub 2012 Feb 2.


MACSE: Multiple Alignment of Coding SEquences accounting for frameshifts and stop codons.

Ranwez V, Harispe S, Delsuc F, Douzery EJ.

PLoS One. 2011;6(9):e22594. doi: 10.1371/journal.pone.0022594. Epub 2011 Sep 16.

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