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33

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Article dans une revue21 documents

  • Wandrille Duchemin, Yoann Anselmetti, Murray Patterson, Yann Ponty, Sèverine Bérard, et al.. DeCoSTAR: Reconstructing the ancestral organization of genes or genomes using reconciled phylogenies. Genome Biology and Evolution, Society for Molecular Biology and Evolution, 2017, 9 (5), pp.1312-1319. <hal-01503766v2>
  • Edwin Jacox, Cedric Chauve, Gergely J Szöllősi, Yann Ponty, Celine Scornavacca. ecceTERA: comprehensive gene tree-species tree reconciliation using parsimony.. Bioinformatics (Oxford, England), 2016, pp.2056-8. <hal-01276903>
  • Matija Brozovic, Cyril Martin, Christelle Dantec, Delphine Dauga, Mickäel Mendez, et al.. ANISEED 2015: a digital framework for the comparative developmental biology of ascidians. Nucleic Acids Research, Oxford University Press (OUP): Policy C - Option B, 2016, 44 (D1), pp.D808-D818. <10.1093/nar/gkv966>. <hal-01295171>
  • Philippe Gambette, Leo Van Iersel, Steven Kelk, Fabio Pardi, Celine Scornavacca. Do branch lengths help to locate a tree in a phylogenetic network?. Bulletin of Mathematical Biology, Springer Verlag, 2016, 78 (9), pp.1773-1795. <10.1007/s11538-016-0199-4>. <hal-01372824>
  • Mark Jones, Christophe Paul, Celine Scornavacca. On the consistency of orthology relationships. BMC Bioinformatics, BioMed Central, 2016, 17 (S14), <10.1186/s12859-016-1267-3>. <lirmm-01481206>
  • Vincent Ranwez, Celine Scornavacca, Jean-Philippe Doyon, Vincent Berry. Inferring gene duplications, transfers and losses can be done in a discrete framework. Journal of Mathematical Biology, Springer Verlag (Germany), 2016, 72 (7), pp.1811-1844. <10.1007/s00285-015-0930-z>. <hal-01370854>
  • Magnus Bordewich, Celine Scornavacca, Nihan Tokac, Mathias Weller. On the fixed parameter tractability of agreement-based phylogenetic distances. Journal of Mathematical Biology, Springer Verlag (Germany), 2016, In press. <10.1007/s00285-016-1023-3>. <lirmm-01348420>
  • Manuel Binet, Olivier Gascuel, Celine Scornavacca, Emmanuel J P Douzery, Fabio Pardi. Fast and accurate branch lengths estimation for phylogenomic trees. BMC Bioinformatics, BioMed Central, 2016, 17 (23), <10.1186/s12859-015-0821-8>. <lirmm-01236485>
  • Steven Kelk, Leo Van Iersel, Celine Scornavacca, Mathias Weller. Phylogenetic incongruence through the lens of Monadic Second Order logic. Journal of Graph Algorithms and Applications (JGAA), Brown University, 2016, 20 (2), pp.189-215. <10.7155/jgaa.00390>. <lirmm-01348425>
  • Fabio Pardi, Celine Scornavacca. Reconstructible Phylogenetic Networks: Do Not Distinguish the Indistinguishable. PLoS Computational Biology, Public Library of Science, 2015, 11 (4), pp.e1004135. <10.1371/journal.pcbi.1004135>. <lirmm-01194638>
  • Yao-Ban Chan, Vincent Ranwez, Céline Scornavacca. Exploring the space of gene/species reconciliations with transfers. Journal of Mathematical Biology, Springer Verlag (Germany), 2015, 71 (5), pp.1179-1209. <10.1007/s00285-014-0851-2>. <hal-01268903>
  • François Chevenet, Jean-Philippe Doyon, Celine Scornavacca, Edwin Jacox, Emmanuelle Jousselin, et al.. SylvX: a viewer for phylogenetic tree reconciliations. Bioinformatics, Oxford University Press (OUP), 2015, <10.1093/bioinformatics/btv625>. <lirmm-01264279>
  • Thi-Hau Nguyen, Vincent Ranwez, Vincent Berry, Celine Scornavacca. Support measures to estimate the reliability of evolutionary events predicted by reconciliation methods. PLoS ONE, Public Library of Science, 2013, 8 (10), pp.e73667. <10.1371/journal.pone.0073667 >. <hal-01189798>
  • Celine Scornavacca, Wojciech Paprotny, Vincent Berry, Vincent Ranwez. Representing a set of reconciliations in a compact way. Journal of Bioinformatics and Computational Biology, World Scientific Publishing, 2013, 11 (2), pp.1250025. <http://www.worldscientific.com/doi/abs/10.1142/S0219720012500254>. <10.1142/S0219720012500254>. <lirmm-00818801>
  • Yao-Ban Chan, Vincent Ranwez, Celine Scornavacca. Reconciliation-based detection of co-evolving gene families. BMC Bioinformatics, BioMed Central, 2013, 14, 15 p. <10.1186/1471-2105-14-332>. <hal-01189789>
  • Laurent Gueguen, Sylvain Gaillard, Bastien Boussau, Manolo Gouy, Mathieu Groussin, et al.. Bio++ : Efficient Extensible Libraries and Tools for Computational Molecular Evolution. Molecular Biology and Evolution, Oxford University Press (OUP), 2013, 30 (8), pp.1745 - 1750. <10.1093/molbev/mst097>. <hal-01209906>
  • Steven Kelk, Leo Van Iersel, Nela Lekic, Simone Linz, Celine Scornavacca, et al.. Cycle killer... qu'est-ce que c'est? On the comparative approximability of hybridization number and directed feedback vertex set. Siam Journal on Discrete Mathematics, Society for Industrial and Applied Mathematics, 2012, 26 (4), pp.1635-1656. <hal-00765019>
  • Celine Scornavacca, Vincent Berry, Vincent Ranwez. Building species trees from larger parts of phylogenomic databases. Information and Computation, Elsevier, 2011, 209 (3), pp.590-605. <http://www.sciencedirect.com/science/article/pii/S0890540110002087>. <10.1016/j.ic.2010.11.022>. <lirmm-00825050>
  • M.D.V. Braga, M.-F. Sagot, C. Scornavacca, E. Tannier. Exploring the Solution Space of Sorting by Reversals with Experiments and an Application to Evolution. IEEE-ACM IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2008, 5 - n°3, pp.348-356. <hal-00428206>
  • Celine Scornavacca, Vincent Berry, Vincent Lefort, Emmanuel Douzery, Vincent Ranwez. PhySIC IST : cleaning source trees to infer more informative supertrees. BMC Bioinformatics, BioMed Central, 2008, 9 (413), pp.1471-2105. <http://www.atgc-montpellier.fr/physic ist/>. <10.1186/1471-2105-9-413>. <lirmm-00324069>
  • Vincent Ranwez, Vincent Berry, Alexis Criscuolo, Pierre-Henri Fabre, Sylvain Guillemot, et al.. PhySIC: A Veto Supertree Method with Desirable Properties. Systematic Biology, Oxford University Press (OUP), 2007, 56 (5), pp.293-304. <http://www.atgc-montpellier.fr/physic/>. <lirmm-00194235>

Communication dans un congrès10 documents

  • Julien Baste, Christophe Paul, Ignasi Sau, Celine Scornavacca. Efficient FPT Algorithms for (Strict) Compatibility of Unrooted Phylogenetic Trees. AAIM: Algorithmic Aspects in Information and Management, Jul 2016, Bergamo, Italy. 11th International Conference on Algorithmic Aspects of Information and Management, LNCS (9778), pp.53-64, 2017, <10.1007/s11538-017-0260-y>. <lirmm-01481368>
  • Manuel Binet, Olivier Gascuel, Celine Scornavacca, Emmanuel J. P. Douzery, Fabio Pardi. Fast and accurate branch lengths estimation for phylogenomic trees. Evolution, Jun 2015, Guarujà, Brazil. 1st Joint Annual Meeting on Evolution, 2015, <http://evolution2015.org/>. <lirmm-01237507>
  • Fabio Pardi, Celine Scornavacca. Reconstructible phylogenetic networks: do not distinguish the indistinguishable. Evolution, Jun 2015, Guarujà, Brazil. 1st joint annual meeting of the Society for the Study of Evolution (SSE), the Society of Systematic Biologists (SSB), and the American Society of Naturalists (ASN), 2015, <http://evolution2015.org/>. <lirmm-01237428>
  • Manuel Binet, Olivier Gascuel, Celine Scornavacca, Emmanuel J. P. Douzery, Fabio Pardi. Fast and accurate branch length estimation for phylogenomic trees: ERaBLE (Evolutionary Rates and Branch Length Estimation). Rencontres ALPHY - Génomique Evolutive, Bioinformatique, Alignement et Phylogénie, Mar 2015, Montpellier, France. 2015. <lirmm-01237447>
  • Fabio Pardi, Celine Scornavacca. Reconstructible phylogenetic networks: no need to distinguish the indistinguishable. Waiheke: The Interface of Mathematics and Biology - New Zealand Phylogenomics Meeting, Feb 2014, Waiheke, New Zealand. The Interface of Mathematics and Biology, The 18th Annual New Zealand Phylogenomics Meeting, Sunday 2nd - Friday 7th February, 2014, 2014, <http://www.math.canterbury.ac.nz/bio/events/waiheke2014/>. <lirmm-01237408>
  • Fabio Pardi, Celine Scornavacca. Identifiability of phylogenetic networks. MCEB: Mathematical and Computational Evolutionary Biology, Jun 2014, Hameau de l'Etoile, St Martin de Londres, France. 2014, <http://www.lirmm.fr/mceb2014/program.php>. <lirmm-01237418>
  • Jean-Philippe Doyon, Celine Scornavacca, Yu Gorbunov, Gergely Szöllősi, Vincent Ranwez, et al.. An Efficient Algorithm for Gene/Species Trees Parsimonious Reconciliation with Losses, Duplications and Transfers. Eric Tannier. RECOMB'10: Comparative Genomics, Oct 2010, Ottawa, Canada. Springer Berlin Heidelberg, 6398 (6398), pp.93-108, 2010, LNCS. <http://recombcg.uottawa.ca/recombcg2010/>. <10.1007/978-3-642-16181-0_9>. <lirmm-00818889>
  • Jean-Philippe Doyon, Celine Scornavacca, Gergely J. Szöllősi, Vincent Ranwez, Vincent Berry. Un algorithme de parcimonie efficace pour la réconciliation d'arbres de gènes/espèces avec pertes, duplications et transferts. Journées Ouvertes en Biologie, Informatique et Mathématiques, Sep 2010, France. pp.8, 2010, <http://www.jobim2010.fr/>. <lirmm-00833164>
  • Celine Scornavacca, Vincent Berry, Vincent Ranwez. From Gene Trees to Species Trees Through a Supertree Approach. Dediu, Adrian Horia, Ionescu, Armand Mihai, Martin-Vide, Carlos. LATA'09: Third International Conference on Language and Automata Theory and Applications, Apr 2009, Tarragone, Espagne, Springer, 5457, pp.10-19, 2009, Lecture Notes in Computer Science (LNCS). <http://grammars.grlmc.com/LATA2009/>. <lirmm-00367086>
  • M.D.V. Braga, M.-F. Sagot, C. Scornavacca, E. Tannier. The solution space of sorting by reversals. ISBRA 2007, May 2007, Atlanta, United States. Proceedings of the Third International Symposium Bioinformatics Research and Applications, 4463, pp.293-304, 2007, LNBI. <10.1007/978-3-540-72031-7_27>. <hal-00434566>

Pré-publication, Document de travail1 document

  • Cédric Chauve, Akbar Rafiey, Adrian Davin, Celine Scornavacca, Philippe Veber, et al.. MaxTiC: Fast ranking of a phylogenetic tree by Maximum Time Consistency with lateral gene Transfers. 2017. <hal-01532738>

Thèse1 document

  • Celine Scornavacca. Supertree methods for phylogenomics. Bioinformatics [q-bio.QM]. Université Montpellier II - Sciences et Techniques du Languedoc, 2009. English. <tel-00842893>