Publications

Martijn Callens, Celine Scornavacca, Stéphanie Bedhomme. Evolutionary responses to codon usage of horizontally transferred genes in Pseudomonas aeruginosa. Microbial Genomics, Society for General Microbiology, 2021, ⟨10.1101/2020.07.11.198432⟩. ⟨hal-03098020⟩

Charles-Elie Rabier, Vincent Berry, Marnus Stoltz, Joao D. Santos, Wensheng Wang, et al.. On the inference of complex phylogenetic networks by Markov Chain Monte-Carlo. PLoS Computational Biology, Public Library of Science, In press, ⟨10.1371/journal.pcbi.1008380⟩. ⟨hal-03287030v2⟩

Anton Suvorov, Celine Scornavacca, M Stanley Fujimoto, Paul Bodily, Mark Clement, et al.. Deep ancestral introgression shapes evolutionary history of dragonflies and damselflies. Systematic Biology, Oxford University Press (OUP), 2021, ⟨10.1093/sysbio/syab063⟩. ⟨hal-03321815⟩

Rémi Allio, Marie-Ka Tilak, Celine Scornavacca, Nico Avenant, Andrew Kitchener, et al.. High-quality carnivoran genomes from roadkill samples enable comparative species delineation in aardwolf and bat-eared fox. eLife, eLife Sciences Publication, 2021, 10, ⟨10.7554/eLife.63167⟩. ⟨hal-03147106⟩

Thibault Leroy, Marjolaine Rousselle, Marie-Ka Tilak, Aude Caizergues, Celine Scornavacca, et al.. Island songbirds as windows into evolution in small populations. Current Biology - CB, Elsevier, 2021, ⟨10.1016/j.cub.2020.12.040⟩. ⟨hal-03166614⟩

Jakub Truszkowski, Celine Scornavacca, Fabio Pardi. Computing the probability of gene trees concordant with the species tree in the multispecies coalescent. Theoretical Population Biology, Elsevier, 2021, 137, pp.22-31. ⟨10.1016/j.tpb.2020.12.002⟩. ⟨hal-03047963⟩

Qiuyi Li, Celine Scornavacca, Nicolas Galtier, Yao-Ban Chan. The Multilocus Multispecies Coalescent: A Flexible New Model of Gene Family Evolution. Systematic Biology, Oxford University Press (OUP), 2020. ⟨hal-02972075⟩

Chao Zhang, Celine Scornavacca, Erin K. Molloy, Siavash Mirarab. ASTRAL-Pro: quartet-based species tree inference despite paralogy. Molecular Biology and Evolution, Oxford University Press (OUP), 2020. ⟨hal-02866202⟩

Nicolas Comte, Benoît Morel, Damir Hasic, Laurent Guéguen, Bastien Boussau, et al.. Treerecs: an integrated phylogenetic tool, from sequences to reconciliations.. Bioinformatics, Oxford University Press (OUP), 2020, 36 (18), pp.4822-4824. ⟨10.1093/bioinformatics/btaa615⟩. ⟨hal-02883386⟩

Rémi Allio, Celine Scornavacca, Benoit Nabholz, Anne-Laure Clamens, Felix Sperling, et al.. Whole genome shotgun phylogenomics resolves the pattern and timing of swallowtail butterfly evolution. Systematic Biology, Oxford University Press (OUP), 2020, 69 (1), pp.38-60. ⟨10.1093/sysbio/syz030⟩. ⟨hal-02125214⟩

Joan Carles Pons, Celine Scornavacca, Gabriel Cardona. Generation of level-k LGT Networks. IEEE/ACM Transactions on Computational Biology and Bioinformatics, Institute of Electrical and Electronics Engineers, 2020, 17 (1), pp.158-164. ⟨10.1109/TCBB.2019.2895344⟩. ⟨hal-02155279⟩

Riccardo Dondi, Manuel Lafond, Celine Scornavacca. Reconciling multiple genes trees via segmental duplications and losses. Algorithms for Molecular Biology, BioMed Central, 2019, 14 (1), ⟨10.1186/s13015-019-0139-6⟩. ⟨hal-02154306⟩

Gabriel Cardona, Joan Carles Pons, Celine Scornavacca. Generation of Binary Tree-Child phylogenetic networks. PLoS Computational Biology, Public Library of Science, 2019, 15 (10), pp.e1007440. ⟨hal-02417275⟩

Steven Kelk, Fabio Pardi, Celine Scornavacca, Leo van Iersel. Finding a most parsimonious or likely tree in a network with respect to an alignment. Journal of Mathematical Biology, Springer Verlag (Germany), 2019, 78 (1-2), pp.527-547. ⟨10.1007/s00285-018-1282-2⟩. ⟨lirmm-01964467⟩

Celine Scornavacca, Khalid Belkhir, Jimmy Lopez, Rémy Dernat, Frédéric Delsuc, et al.. OrthoMaM v10: Scaling-Up Orthologous Coding Sequence and Exon Alignments with More than One Hundred Mammalian Genomes. Molecular Biology and Evolution, Oxford University Press (OUP), 2019, 36 (4), pp.861-862. ⟨10.1093/molbev/msz015⟩. ⟨hal-02139915⟩

David Bryant, Celine Scornavacca. An O ( n log n ) Time Algorithm for Computing the Path-Length Distance Between Trees. Algorithmica, Springer Verlag, 2019, 81 (9), pp.3692-3706. ⟨10.1007/s00453-019-00594-5⟩. ⟨hal-02163060⟩

Fabio Pardi, Celine Scornavacca. Correction: Reconstructible Phylogenetic Networks: Do Not Distinguish the Indistinguishable. PLoS Computational Biology, Public Library of Science, 2019, 15 (6), pp.e1007137. ⟨10.1371/journal.pcbi.1007137.s001⟩. ⟨lirmm-01194638v2⟩

Sylvain Glémin, Celine Scornavacca, Jacques Dainat, Concetta Burgarella, Veronique Viader, et al.. Pervasive hybridizations in the history of wheat relatives. Science Advances , American Association for the Advancement of Science (AAAS), 2019, 5 (5), pp.eaav9188. ⟨10.1126/sciadv.aav9188⟩. ⟨hal-02144799⟩

Manuel Lafond, Celine Scornavacca. On the Weighted Quartet Consensus problem. Theoretical Computer Science, Elsevier, 2019, 769, pp.1-17. ⟨10.1016/j.tcs.2018.10.005⟩. ⟨hal-02154302⟩

Leo van Iersel, Mark Jones, Celine Scornavacca. Improved Maximum Parsimony Models for Phylogenetic Networks. Systematic Biology, Oxford University Press (OUP), 2018, 67 (3), pp.518-542. ⟨10.1093/sysbio/syx094⟩. ⟨hal-02154860⟩

Remie Janssen, Mark Jones, Péter Erdős, Leo van Iersel, Celine Scornavacca. Exploring the Tiers of Rooted Phylogenetic Network Space Using Tail Moves. Bulletin of Mathematical Biology, Springer Verlag, 2018, 80 (8), pp.2177-2208. ⟨10.1007/s11538-018-0452-0⟩. ⟨hal-02154852⟩

Wandrille Duchemin, Guillaume Gence, Anne-Muriel Arigon Chifolleau, Lars Arvestad, Mukul Bansal, et al.. RecPhyloXML: a format for reconciled gene trees. Bioinformatics, Oxford University Press (OUP), 2018, 34 (21), pp.3646-3652. ⟨10.1093/bioinformatics/bty389⟩. ⟨lirmm-01800296⟩

Matija Brozovic, Christelle Dantec, Justine Dardaillon, Delphine Dauga, Emmanuel Faure, et al.. ANISEED 2017: extending the integrated ascidian database to the exploration and evolutionary comparison of genome-scale datasets. Nucleic Acids Research, Oxford University Press, 2018, 46 (D1), pp.D718-D725. ⟨10.1093/nar/gkx1108⟩. ⟨hal-01636650⟩

Laurent Brottier, Clémence Chaintreuil, Paul Simion, Celine Scornavacca, Ronan Rivallan, et al.. A phylogenetic framework of the legume genus Aeschynomene for comparative genetic analysis of the Nod-dependent and Nod-independent symbioses. BMC Plant Biology, BioMed Central, 2018, 18 (1), ⟨10.1186/s12870-018-1567-z⟩. ⟨hal-01961745⟩

Julia Matsieva, Steven Kelk, Celine Scornavacca, Chris Whidden, Dan Gusfield. A Resolution of the Static Formulation Question for the Problem of Computing the History Bound. IEEE/ACM Transactions on Computational Biology and Bioinformatics, Institute of Electrical and Electronics Engineers, 2017, 14 (2), pp.404-417. ⟨10.1109/TCBB.2016.2527645⟩. ⟨hal-02154874⟩

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), 2017, 74 (1-2), pp.239-257. ⟨10.1007/s00285-016-1023-3⟩. ⟨lirmm-01348420⟩

Philippe Gambette, Leo van Iersel, Mark Jones, Manuel Lafond, Fabio Pardi, et al.. Rearrangement Moves on Rooted Phylogenetic Networks. PLoS Computational Biology, Public Library of Science, 2017, 13 (8), pp.e1005611. ⟨10.1371/journal.pcbi.1005611⟩. ⟨hal-01572624v2⟩

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. ⟨10.1093/gbe/evx069⟩. ⟨hal-01503766v2⟩

Katharina Huber, Leo van Iersel, Vincent Moulton, Celine Scornavacca, Taoyang Wu. Reconstructing Phylogenetic Level-1 Networks from Nondense Binet and Trinet Sets. Algorithmica, Springer Verlag, 2017, 77 (1), pp.173-200. ⟨10.1007/s00453-015-0069-8⟩. ⟨hal-02154892⟩

Yao-Ban Chan, Vincent Ranwez, Celine Scornavacca. Inferring incomplete lineage sorting, duplications, transfers and losses with reconciliations. Journal of Theoretical Biology, Elsevier, 2017, 432, pp.1-13. ⟨10.1016/j.jtbi.2017.08.008⟩. ⟨hal-02154862⟩

Edwin Jacox, Mathias Weller, Eric Tannier, Celine Scornavacca. Resolution and reconciliation of non-binary gene trees with transfers, duplications and losses. Bioinformatics, Oxford University Press (OUP), 2017, 33 (7), pp.980-987. ⟨10.1093/bioinformatics/btw778⟩. ⟨hal-01526643⟩

Celine Scornavacca, Joan Carles Pons Mayol, Gabriel Cardona. Fast algorithm for the reconciliation of gene trees and LGT networks. Journal of Theoretical Biology, Elsevier, 2017, 418, pp.129-137. ⟨10.1016/j.jtbi.2017.01.024⟩. ⟨hal-02154890⟩

Leo van Iersel, Steven Kelk, Celine Scornavacca. Kernelizations for the hybridization number problem on multiple nonbinary trees. Journal of Computer and System Sciences, Elsevier, 2016, 82 (6), pp.1075-1089. ⟨10.1016/j.jcss.2016.03.006⟩. ⟨hal-02154926⟩

Edwin Jacox, Cedric Chauve, Gergely J Szöllősi, Yann Ponty, Celine Scornavacca. ecceTERA: Comprehensive gene tree-species tree reconciliation using parsimony. Bioinformatics, Oxford University Press (OUP), 2016, 32 (13), pp.2056-2058. ⟨10.1093/bioinformatics/btw105⟩. ⟨hal-01276903⟩

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, Brown University, 2016, 20 (2), pp.189-215. ⟨10.7155/jgaa.00390⟩. ⟨lirmm-01348425⟩

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), 2016, 32 (4), pp.608-610. ⟨10.1093/bioinformatics/btv625⟩. ⟨hal-01942605⟩

Celine Scornavacca, Nicolas Galtier. Incomplete Lineage Sorting in Mammalian Phylogenomics. Systematic Biology, Oxford University Press (OUP), 2016, 66, pp.112 - 120. ⟨10.1093/sysbio/syw082⟩. ⟨hal-01815360⟩

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, 2016, 44 (D1), pp.D808-D818. ⟨10.1093/nar/gkv966⟩. ⟨hal-01295171⟩

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⟩

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⟩

Julien Baste, Christophe Paul, Ignasi Sau Valls, Celine Scornavacca. Efficient FPT Algorithms for (Strict) Compatibility of Unrooted Phylogenetic Trees. Bulletin of Mathematical Biology, Springer Verlag, 2016, 79 (4), pp.920-938. ⟨10.1007/s11538-017-0260-y⟩. ⟨lirmm-03113710⟩

Manuel Binet, Olivier Gascuel, Celine Scornavacca, Emmanuel 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⟩

Mark Jones, Christophe Paul, Celine Scornavacca. On the consistency of orthology relationships. BMC Bioinformatics, BioMed Central, 2016, 17 (S14), pp.11-14. ⟨10.1186/s12859-016-1267-3⟩. ⟨lirmm-01481206⟩

Yao-Ban Chan, Vincent Ranwez, Celine 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⟩

Mareike Fischer, Leo van Iersel, Steven Kelk, Celine Scornavacca. On Computing the Maximum Parsimony Score of a Phylogenetic Network. SIAM Journal on Discrete Mathematics, Society for Industrial and Applied Mathematics, 2015, 29 (1), pp.559-585. ⟨10.1137/140959948⟩. ⟨hal-02154929⟩

Thu-Hien To, Celine Scornavacca. Efficient algorithms for reconciling gene trees and species networks via duplication and loss events. BMC Genomics, BioMed Central, 2015, 16 (S10), pp.4 - 7. ⟨10.1186/1471-2164-16-S10-S6⟩. ⟨hal-02155241⟩

Thu Hien To, Edwin Jacox, Vincent Ranwez, Celine Scornavacca. A fast method for calculating reliable event supports in tree reconciliations via Pareto optimality. BMC Bioinformatics, BioMed Central, 2015, 16, pp.1-15. ⟨10.1186/s12859-015-0803-x⟩. ⟨hal-01595105⟩

Celine Scornavacca, Edwin Jacox, Gergely Szöllősi. Joint amalgamation of most parsimonious reconciled gene trees. Bioinformatics, Oxford University Press (OUP), 2015, 31 (6), pp.841-848. ⟨10.1093/bioinformatics/btu728⟩. ⟨hal-02154935⟩

Leo Van Iersel, Steven Kelk, Nela Lekić, Celine Scornavacca. A practical approximation algorithm for solving massive instances of hybridization number for binary and nonbinary trees. BMC Bioinformatics, BioMed Central, 2014, 15 (1), pp.296-302. ⟨10.1186/1471-2105-15-127⟩. ⟨hal-02154944⟩

Steven Kelk, Celine Scornavacca. Constructing Minimal Phylogenetic Networks from Softwired Clusters is Fixed Parameter Tractable. Algorithmica, Springer Verlag, 2014, 68 (4), pp.886-915. ⟨10.1007/s00453-012-9708-5⟩. ⟨hal-02154980⟩

Emmanuel Douzery, Celine Scornavacca, Jonathan Romiguier, Khalid Belkhir, Nicolas Galtier, et al.. OrthoMaM v8: A Database of Orthologous Exons and Coding Sequences for Comparative Genomics in Mammals. Molecular Biology and Evolution, Oxford University Press (OUP), 2014, 31 (7), pp.1923-1928. ⟨10.1093/molbev/msu132⟩. ⟨hal-01133634⟩

Celine Scornavacca, Leo Van Iersel, Steven Kelk, David Bryant. The agreement problem for unrooted phylogenetic trees is FPT. Journal of Graph Algorithms and Applications, Brown University, 2014, 18 (3), pp.385-392. ⟨10.7155/jgaa.00327⟩. ⟨hal-02154951⟩

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⟩

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. ⟨10.1142/S0219720012500254⟩. ⟨lirmm-00818801⟩

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⟩

Benjamin Albrecht, Celine Scornavacca, Alberto Cenci, Daniel Huson. Fast computation of minimum hybridization networks. Bioinformatics, Oxford University Press (OUP), 2012, 28 (2), pp.191-197. ⟨10.1093/bioinformatics/btr618⟩. ⟨hal-02155006⟩

Daniel Huson, Celine Scornavacca. Dendroscope 3: An Interactive Tool for Rooted Phylogenetic Trees and Networks. Systematic Biology, Oxford University Press (OUP), 2012, 61 (6), pp.1061-1067. ⟨10.1093/sysbio/sys062⟩. ⟨hal-02154987⟩

Celine Scornavacca, Simone Linz, Benjamin Albrecht. A First Step Toward Computing All Hybridization Networks For Two Rooted Binary Phylogenetic Trees. Journal of Computational Biology, Mary Ann Liebert, 2012, 19 (11), pp.1227-1242. ⟨10.1089/cmb.2012.0192⟩. ⟨hal-02154992⟩

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. ⟨10.1016/j.ic.2010.11.022⟩. ⟨lirmm-00825050⟩

Juan-Sebastian Escobar, Celine Scornavacca, Alberto Cenci, Claire Guilhaumon, Sylvain Santoni, et al.. Multigenic phylogeny and analysis of tree incongruences in Triticeae (Poaceae). BMC Evolutionary Biology, BioMed Central, 2011, 11 (181), 17 p. ⟨10.1186/1471-2148-11-181⟩. ⟨hal-01499047⟩

Celine Scornavacca, Franziska Zickmann, Daniel Huson. Tanglegrams for rooted phylogenetic trees and networks. Bioinformatics, Oxford University Press (OUP), 2011, 27 (13), pp.i248-i256. ⟨10.1093/bioinformatics/btr210⟩. ⟨hal-02155176⟩

Daniel Huson, Celine Scornavacca. A Survey of Combinatorial Methods for Phylogenetic Networks. Genome Biology and Evolution, Society for Molecular Biology and Evolution, 2011, 3, pp.23-35. ⟨10.1093/gbe/evq077⟩. ⟨hal-02155011⟩

Marília Braga, Marie-France Sagot, Celine Scornavacca, Eric Tannier. Exploring the Solution Space of Sorting by Reversals, with Experiments and an Application to Evolution. IEEE/ACM Transactions on Computational Biology and Bioinformatics, Institute of Electrical and Electronics Engineers, 2008, 5 (3), pp.348-356. ⟨10.1109/TCBB.2008.16⟩. ⟨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. ⟨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.798-817. ⟨10.1080/10635150701639754⟩. ⟨lirmm-00194235⟩

Celine Scornavacca, Mathias Weller. Treewidth-Based Algorithms for the Small Parsimony Problem on Networks. 21st International Workshop on Algorithms in Bioinformatics (WABI), Aug 2021, Chicago. Due to COVID-19, WABI 2021 will be held online., United States. pp.6:1, ⟨10.4230/LIPIcs.WABI.2021.6⟩. ⟨hal-03287112⟩

Vincent Berry, Celine Scornavacca, Mathias Weller. Scanning Phylogenetic Networks is NP-hard. SOFSEM, Jan 2020, Limassol, Cyprus. pp.519-530, ⟨10.1007/978-3-030-38919-2_42⟩. ⟨hal-02353161⟩

Riccardo Dondi, Manuel Lafond, Celine Scornavacca. Reconciling Multiple Genes Trees via Segmental Duplications and Losses. WABI, 2018, Helsinki, Finland. pp.5:1--5:16. ⟨hal-02155103⟩

Manuel Lafond, Celine Scornavacca. On the Weighted Quartet Consensus problem. CPM, 2018, Warsaw, Poland. pp.28:1-28:18, ⟨10.4230/LIPIcs.CPM.2017.28⟩. ⟨hal-02155127⟩

Cédric Chauve, Mark Jones, Manuel Lafond, Celine Scornavacca, Mathias Weller. Constructing a Consensus Phylogeny from a Leaf-Removal Distance. SPIRE 2017, Sep 2017, Palermo, Italy. pp.129--143, ⟨10.1007/978-3-319-67428-5\_12⟩. ⟨hal-02155266⟩

Celine Scornavacca, Sylvain Glémin, Jacques Dainat, Concetta Burgarella, Gautier Sarah, et al.. Phylogenomics unravels the complex reticulated history and shifts in mating systems in wheat relatives (Aegilops/Triticum genus). ALPHY 2016: Belgium-French meeting on Bioinformatics and Evolutionary Genomics March 17-18 2016, Institut de Biologie Physico-Chimique (IBPC). Paris, FRA. Muséum National d’Histoire Naturelle (MNHN), FRA., Mar 2016, Lille, France. ⟨hal-02793573⟩

Julien Baste, Christophe Paul, Ignasi Sau Valls, Celine Scornavacca. Efficient FPT Algorithms for (Strict) Compatibility of Unrooted Phylogenetic Trees. AAIM: Algorithmic Aspects in Information and Management, Jul 2016, Bergamo, Italy. pp.53-64, ⟨10.1007/978-3-319-41168-2_5⟩. ⟨lirmm-01481368⟩

Fabio Pardi, Celine Scornavacca. Reconstructible phylogenetic networks: do not distinguish the indistinguishable. Evolution, Jun 2015, Guarujà, Brazil. ⟨lirmm-01237428⟩

Manuel Binet, Olivier Gascuel, Celine Scornavacca, Emmanuel Douzery, Fabio Pardi. Fast and accurate branch lengths estimation for phylogenomic trees. Evolution, Jun 2015, Guarujà, Brazil. ⟨lirmm-01237507⟩

Manuel Binet, Olivier Gascuel, Celine Scornavacca, Emmanuel 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. ⟨lirmm-01237447⟩

Fabio Pardi, Celine Scornavacca. Reconstructible phylogenetic networks: no need to distinguish the indistinguishable. Waiheke, Feb 2014, Waiheke, New Zealand. ⟨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. ⟨lirmm-01237418⟩

Leo Van Iersel, Steven Kelk, Nela Lekić, Celine Scornavacca. A practical approximation algorithm for solving massive instances of hybridization number for binary and nonbinary trees. WABI, 2012, Ljubljana, Slovenia. pp.430-440. ⟨hal-02155227⟩

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. RECOMB-CG: Comparative Genomics, Oct 2010, Ottawa, Canada. pp.93-108, ⟨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, Institut National d'Etudes Supérieures Agronomiques de Montpellier (Montpellier SupAgro). Montpellier, FRA., Sep 2010, Montpellier, France. pp.8. ⟨lirmm-00833164⟩

Celine Scornavacca, Vincent Berry, Vincent Ranwez. From Gene Trees to Species Trees Through a Supertree Approach. LATA: Language and Automata Theory and Applications, Apr 2009, Tarragone, Spain. pp.10-19, ⟨10.1007/978-3-642-00982-2_60⟩. ⟨lirmm-00367086⟩

Marília Braga, Marie-France Sagot, Celine Scornavacca, Eric Tannier. The solution space of sorting by reversals. 3rd International Symposium on Bioinformatics Research and Applications (ISBRA 2007), May 2007, Atlanta, GA, United States. pp.293-304, ⟨10.1007/978-3-540-72031-7_27⟩. ⟨hal-00434566⟩

Celine Scornavacca, Frédéric Delsuc, Nicolas Galtier. Phylogenetics in the Genomic Era. Scornavacca, Celine; Delsuc, Frédéric; Galtier, Nicolas. No commercial publisher | Authors open access book, p.p. 1-568, 2020, 978-2-9575069-0-3. ⟨hal-02535070v3⟩

Daniel Huson, Regula Rupp, Celine Scornavacca. Phylogenetic Networks. Cambridge University Press, 2010. ⟨hal-02155099⟩

Bastien Boussau, Celine Scornavacca. Reconciling Gene trees with Species Trees. Scornavacca, Celine; Delsuc, Frédéric; Galtier, Nicolas. Phylogenetics in the Genomic Era, No commercial publisher | Authors open access book, pp.3.2:1--3.2:23, 2020. ⟨hal-02535529⟩

Celine Scornavacca. Comparing reconciled gene trees in linear time. 2020, pp.100002. ⟨10.24072/pci.mcb.100002⟩. ⟨hal-03087729⟩

Thibault Leroy, Yoann Anselmetti, Marie-Ka Tilak, Sèverine Bérard, Laura Csukonyi, et al.. A bird’s white-eye view on neosex chromosome evolution. 2019, ⟨10.1101/505610⟩. ⟨hal-02155307⟩

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, ⟨10.1101/127548⟩. ⟨hal-01532738v3⟩

Mark Jones, Philippe Gambette, Leo van Iersel, Remie Janssen, Steven Kelk, et al.. Cutting an alignment with Ockham's razor. 2019. ⟨lirmm-02413025⟩

Samuel Alizon, Frédéric Cazals, Stéphane Guindon, Claire Lemaitre, Tristan Mary-Huard, et al.. SARS-CoV-2 Through the Lens of Computational Biology: How bioinformatics is playing a key role in the study of the virus and its origins. [Research Report] CNRS. 2021. ⟨hal-03170023⟩

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