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2020 – today
- 2024
[j41]Reza Kalhor, Guillaume Beslon, Manuel Lafond, Céline Scornavacca:
A Rigorous Framework to Classify the Postduplication Fate of Paralogous Genes. J. Comput. Biol. 31(9): 815-833 (2024)- [e1]Céline Scornavacca, Maribel Hernández-Rosales
:
Comparative Genomics - 21st International Conference, RECOMB-CG 2024, Boston, MA, USA, April 27-28, 2024, Proceedings. Lecture Notes in Computer Science 14616, Springer 2024, ISBN 978-3-031-58071-0 [contents] - [i19]Leo van Iersel, Mark Jones, Jannik Schestag, Céline Scornavacca, Mathias Weller:
Maximizing Network Phylogenetic Diversity. CoRR abs/2405.01091 (2024) - 2023
- [c11]Reza Kalhor, Guillaume Beslon, Manuel Lafond, Céline Scornavacca:
Classifying the Post-duplication Fate of Paralogous Genes. RECOMB-CG 2023: 1-18 - 2022
- [j40]Céline Scornavacca, Mathias Weller:
Treewidth-based algorithms for the small parsimony problem on networks. Algorithms Mol. Biol. 17(1): 15 (2022) - [j39]Sarah Lutteropp, Céline Scornavacca, Alexey M. Kozlov, Benoit Morel, Alexandros Stamatakis:
NetRAX: accurate and fast maximum likelihood phylogenetic network inference. Bioinform. 38(15): 3725-3733 (2022) - 2021
- [j38]Charles-Elie Rabier, Vincent Berry, Marnus Stoltz, João D. Santos, Wensheng Wang, Jean-Christophe Glaszmann, Fabio Pardi, Céline Scornavacca:
On the inference of complex phylogenetic networks by Markov Chain Monte-Carlo. PLoS Comput. Biol. 17(9) (2021) - [c10]Céline Scornavacca, Mathias Weller:
Treewidth-Based Algorithms for the Small Parsimony Problem on Networks. WABI 2021: 6:1-6:21 - 2020
- [j37]Nicolas Comte, Benoit Morel, Damir Hasic, Laurent Guéguen, Bastien Boussau, Vincent Daubin, Simon Penel, Céline Scornavacca, Manolo Gouy, Alexandros Stamatakis, Eric Tannier, David P. Parsons:
Treerecs: an integrated phylogenetic tool, from sequences to reconciliations. Bioinform. 36(18): 4822-4824 (2020) - [j36]Joan Carles Pons, Céline Scornavacca, Gabriel Cardona:
Generation of Level-kk LGT Networks. IEEE ACM Trans. Comput. Biol. Bioinform. 17(1): 158-164 (2020) - [c9]Vincent Berry, Céline Scornavacca, Mathias Weller:
Scanning Phylogenetic Networks Is NP-hard. SOFSEM 2020: 519-530 - [i18]Jakub Truszkowski, Céline Scornavacca, Fabio Pardi:
Computing the probability of gene trees concordant with the species tree in the multispecies coalescent. CoRR abs/2001.06741 (2020)
2010 – 2019
- 2019
- [j35]David Bryant, Céline Scornavacca:
An O(n log n) Time Algorithm for Computing the Path-Length Distance Between Trees. Algorithmica 81(9): 3692-3706 (2019) - [j34]Riccardo Dondi, Manuel Lafond, Céline Scornavacca:
Reconciling multiple genes trees via segmental duplications and losses. Algorithms Mol. Biol. 14(1): 7:1-7:19 (2019) - [j33]Gabriel Cardona, Joan Carles Pons, Céline Scornavacca:
Generation of Binary Tree-Child phylogenetic networks. PLoS Comput. Biol. 15(9) (2019) - [j32]Gabriel Cardona, Joan Carles Pons, Céline Scornavacca:
Correction: Generation of Binary Tree-Child phylogenetic networks. PLoS Comput. Biol. 15(10) (2019) - [j31]Manuel Lafond, Céline Scornavacca:
On the Weighted Quartet Consensus problem. Theor. Comput. Sci. 769: 1-17 (2019) - [i17]Gabriel Cardona, Joan Carles Pons, Céline Scornavacca:
Generation of Tree-Child phylogenetic networks. CoRR abs/1902.09015 (2019) - [i16]Mark Jones, Philippe Gambette, Leo van Iersel, Remie Janssen, Steven Kelk, Fabio Pardi, Céline Scornavacca:
Cutting an alignment with Ockham's razor. CoRR abs/1910.11041 (2019) - 2018
- [j30]Wandrille Duchemin, Guillaume Gence, Anne-Muriel Arigon Chifolleau, Lars Arvestad, Mukul S. Bansal, Vincent Berry, Bastien Boussau, François Chevenet, Nicolas Comte, Adrián A. Davín, Christophe Dessimoz, David Dylus, Damir Hasic, Diego Mallo, Rémi Planel, David Posada, Céline Scornavacca, Gergely J. Szöllosi, Louxin Zhang, Eric Tannier, Vincent Daubin:
RecPhyloXML: a format for reconciled gene trees. Bioinform. 34(21): 3646-3652 (2018) - [j29]Matija Brozovic, Christelle Dantec, Justine Dardaillon, Delphine Dauga, Emmanuel Faure, Mathieu Gineste, Alexandra Louis, Magali Naville, Kazuhiro R. Nitta, Jacques Piette, Wendy Reeves, Céline Scornavacca, Paul Simion, Renaud Vincentelli, Maelle Bellec, Sameh Ben Aicha, Marie Fagotto, Marion Guéroult-Bellone, Maximilian Haeussler, Edwin Jacox, Elijah K. Lowe, Mickaël Mendez, Alexis Roberge, Alberto Stolfi, Rui Yokomori, C. Titus Brown, Christian Cambillau, Lionel A. Christiaen, Frédéric Delsuc, Emmanuel J. P. Douzery, Rémi Dumollard, Takehiro Kusakabe, Kenta Nakai, Hiroki Nishida, Yutaka Satou, Billie J. Swalla, Michael Veeman, Jean-Nicolas Volff, Patrick Lemaire:
ANISEED 2017: extending the integrated ascidian database to the exploration and evolutionary comparison of genome-scale datasets. Nucleic Acids Res. 46(Database-Issue): D718-D725 (2018) - [c8]Riccardo Dondi, Manuel Lafond, Céline Scornavacca:
Reconciling Multiple Genes Trees via Segmental Duplications and Losses. WABI 2018: 5:1-5:16 - [i15]Riccardo Dondi, Manuel Lafond, Céline Scornavacca:
Reconciling Multiple Genes Trees via Segmental Duplications and Losses. CoRR abs/1806.03988 (2018) - [i14]David Bryant, Céline Scornavacca:
An O(n log n) time Algorithm for computing the Path-length Distance between Trees. CoRR abs/1811.00619 (2018) - 2017
- [j28]Katharina T. Huber, Leo van Iersel, Vincent Moulton, Céline Scornavacca, Taoyang Wu:
Reconstructing Phylogenetic Level-1 Networks from Nondense Binet and Trinet Sets. Algorithmica 77(1): 173-200 (2017) - [j27]Edwin Jacox, Mathias Weller, Eric Tannier, Céline Scornavacca:
Resolution and reconciliation of non-binary gene trees with transfers, duplications and losses. Bioinform. 33(7): 980-987 (2017) - [j26]Philippe Gambette, Leo van Iersel, Mark Jones, Manuel Lafond, Fabio Pardi, Céline Scornavacca:
Rearrangement moves on rooted phylogenetic networks. PLoS Comput. Biol. 13(8) (2017) - [j25]Julia Matsieva, Steven Kelk, Céline Scornavacca, Chris Whidden, Dan Gusfield:
A Resolution of the Static Formulation Question for the Problem of Computing the History Bound. IEEE ACM Trans. Comput. Biol. Bioinform. 14(2): 404-417 (2017) - [c7]Manuel Lafond, Céline Scornavacca:
On the Weighted Quartet Consensus Problem. CPM 2017: 28:1-28:18 - [c6]Cédric Chauve, Mark Jones, Manuel Lafond, Céline Scornavacca, Mathias Weller:
Constructing a Consensus Phylogeny from a Leaf-Removal Distance (Extended Abstract). SPIRE 2017: 129-143 - [i13]Mark Jones, Manuel Lafond, Céline Scornavacca:
Consistency of orthology and paralogy constraints in the presence of gene transfers. CoRR abs/1705.01240 (2017) - [i12]Cédric Chauve, Mark Jones, Manuel Lafond, Céline Scornavacca, Mathias Weller:
Constructing a Consensus Phylogeny from a Leaf-Removal Distance. CoRR abs/1705.05295 (2017) - [i11]Steven Kelk, Fabio Pardi, Céline Scornavacca, Leo van Iersel:
Finding the most parsimonious or likely tree in a network with respect to an alignment. CoRR abs/1707.03648 (2017) - [i10]Remie Janssen, Mark Jones, Péter L. Erdös, Leo van Iersel, Céline Scornavacca:
Exploring the tiers of rooted phylogenetic network space using tail moves. CoRR abs/1708.07656 (2017) - 2016
- [j24]François Chevenet, Jean-Philippe Doyon, Céline Scornavacca, Edwin Jacox, Emmanuelle Jousselin, Vincent Berry:
SylvX: a viewer for phylogenetic tree reconciliations. Bioinform. 32(4): 608-610 (2016) - [j23]Edwin Jacox, Cédric Chauve, Gergely J. Szöllosi, Yann Ponty, Céline Scornavacca:
ecceTERA: comprehensive gene tree-species tree reconciliation using parsimony. Bioinform. 32(13): 2056-2058 (2016) - [j22]Manuel Binet, Olivier Gascuel, Céline Scornavacca, Emmanuel J. P. Douzery, Fabio Pardi:
Fast and accurate branch lengths estimation for phylogenomic trees. BMC Bioinform. 17: 23 (2016) - [j21]Mark Jones, Christophe Paul, Céline Scornavacca:
On the consistency of orthology relationships. BMC Bioinform. 17(S-14): 251-262 (2016) - [j20]Leo van Iersel, Steven Kelk, Céline Scornavacca:
Kernelizations for the hybridization number problem on multiple nonbinary trees. J. Comput. Syst. Sci. 82(6): 1075-1089 (2016) - [j19]Steven Kelk, Leo van Iersel, Céline Scornavacca, Mathias Weller:
Phylogenetic incongruence through the lens of Monadic Second Order logic. J. Graph Algorithms Appl. 20(2): 189-215 (2016) - [j18]Matija Brozovic, Cyril Martin, Christelle Dantec, Delphine Dauga, Mickaël Mendez, Paul Simion, Madeline Percher, Baptiste Laporte, Céline Scornavacca, Anna Di Gregorio, Shigeki Fujiwara, Mathieu Gineste, Elijah K. Lowe, Jacques Piette, Claudia Racioppi, Filomena Ristoratore, Yasunori Sasakura, Naohito Takatori, C. Titus Brown, Frédéric Delsuc, Emmanuel J. P. Douzery, Carmela Gissi, Alex McDougall, Hiroki Nishida, Hitoshi Sawada, Billie J. Swalla, Hitoyoshi Yasuo, Patrick Lemaire:
ANISEED 2015: a digital framework for the comparative developmental biology of ascidians. Nucleic Acids Res. 44(Database-Issue): 808-818 (2016) - [c5]Julien Baste, Christophe Paul, Ignasi Sau, Céline Scornavacca:
Efficient FPT Algorithms for (Strict) Compatibility of Unrooted Phylogenetic Trees. AAIM 2016: 53-64 - [i9]Julien Baste, Christophe Paul, Ignasi Sau, Céline Scornavacca:
Efficient FPT algorithms for (strict) compatibility of unrooted phylogenetic trees. CoRR abs/1604.03008 (2016) - [i8]Philippe Gambette, Leo van Iersel, Steven Kelk, Fabio Pardi, Céline Scornavacca:
Do branch lengths help to locate a tree in a phylogenetic network? CoRR abs/1607.06285 (2016) - [i7]Manuel Lafond, Céline Scornavacca:
On the Weighted Quartet Consensus problem. CoRR abs/1610.00505 (2016) - 2015
- [j17]Céline Scornavacca, Edwin Jacox, Gergely J. Szöllosi:
Joint amalgamation of most parsimonious reconciled gene trees. Bioinform. 31(6): 841-848 (2015) - [j16]Thu-Hien To, Edwin Jacox, Vincent Ranwez, Céline Scornavacca:
A fast method for calculating reliable event supports in tree reconciliations via Pareto optimality. BMC Bioinform. 16: 384:1-384:15 (2015) - [j15]Fabio Pardi, Céline Scornavacca:
Reconstructible Phylogenetic Networks: Do Not Distinguish the Indistinguishable. PLoS Comput. Biol. 11(4) (2015) - [j14]Mareike Fischer, Leo van Iersel, Steven Kelk, Céline Scornavacca:
On Computing the Maximum Parsimony Score of a Phylogenetic Network. SIAM J. Discret. Math. 29(1): 559-585 (2015) - [i6]Steven Kelk, Leo van Iersel, Céline Scornavacca:
Phylogenetic incongruence through the lens of Monadic Second Order logic. CoRR abs/1503.00368 (2015) - 2014
- [j13]Steven Kelk, Céline Scornavacca:
Constructing Minimal Phylogenetic Networks from Softwired Clusters is Fixed Parameter Tractable. Algorithmica 68(4): 886-915 (2014) - [j12]Leo van Iersel, Steven Kelk, Nela Lekic, Céline Scornavacca:
A practical approximation algorithm for solving massive instances of hybridization number for binary and nonbinary trees. BMC Bioinform. 15: 127 (2014) - [j11]Céline Scornavacca, Leo van Iersel, Steven Kelk, David Bryant:
The agreement problem for unrooted phylogenetic trees is FPT. J. Graph Algorithms Appl. 18(3): 385-392 (2014) - [i5]Katharina T. Huber, Leo van Iersel, Vincent Moulton, Céline Scornavacca, Taoyang Wu:
Reconstructing phylogenetic level-1 networks from nondense binet and trinet sets. CoRR abs/1411.6804 (2014) - 2013
- [j10]Yao-ban Chan, Vincent Ranwez, Céline Scornavacca:
Reconciliation-based detection of co-evolving gene families. BMC Bioinform. 14: 332 (2013) - [j9]Céline Scornavacca, Wojciech Paprotny, Vincent Berry, Vincent Ranwez:
Representing a Set of Reconciliations in a Compact Way. J. Bioinform. Comput. Biol. 11(2) (2013) - 2012
- [j8]Benjamin Albrecht, Céline Scornavacca, Alberto Cenci, Daniel H. Huson:
Fast computation of minimum hybridization networks. Bioinform. 28(2): 191-197 (2012) - [j7]Céline Scornavacca, Simone Linz, Benjamin Albrecht:
A First Step Toward Computing All Hybridization Networks For Two Rooted Binary Phylogenetic Trees. J. Comput. Biol. 19(11): 1227-1242 (2012) - [j6]Steven Kelk, Leo van Iersel, Nela Lekic, Simone Linz, Céline Scornavacca, Leen Stougie:
Cycle Killer...Qu'est-ce que c'est? On the Comparative Approximability of Hybridization Number and Directed Feedback Vertex Set. SIAM J. Discret. Math. 26(4): 1635-1656 (2012) - [j5]Steven Kelk, Céline Scornavacca, Leo van Iersel:
On the Elusiveness of Clusters. IEEE ACM Trans. Comput. Biol. Bioinform. 9(2): 517-534 (2012) - [c4]Leo van Iersel, Steven Kelk, Nela Lekic, Céline Scornavacca:
A Practical Approximation Algorithm for Solving Massive Instances of Hybridization Number. WABI 2012: 430-440 - [i4]Steven Kelk, Céline Scornavacca:
Towards the fixed parameter tractability of constructing minimal phylogenetic networks from arbitrary sets of nonbinary trees. CoRR abs/1207.7034 (2012) - 2011
- [j4]Céline Scornavacca, Franziska Zickmann, Daniel H. Huson:
Tanglegrams for rooted phylogenetic trees and networks. Bioinform. 27(13): 248-256 (2011) - [j3]Céline Scornavacca, Vincent Berry, Vincent Ranwez:
Building species trees from larger parts of phylogenomic databases. Inf. Comput. 209(3): 590-605 (2011) - [i3]Steven Kelk, Céline Scornavacca, Leo van Iersel:
On the elusiveness of clusters. CoRR abs/1103.1834 (2011) - [i2]Steven Kelk, Céline Scornavacca:
Constructing minimal phylogenetic networks from softwired clusters is fixed parameter tractable. CoRR abs/1108.3653 (2011) - [i1]Steven Kelk, Leo van Iersel, Nela Lekic, Simone Linz, Céline Scornavacca, Leen Stougie:
Cycle killer... qu'est-ce que c'est? On the comparative approximability of hybridization number and directed feedback vertex set. CoRR abs/1112.5359 (2011) - 2010
- [b2]Daniel H. Huson, Regula Rupp, Céline Scornavacca:
Phylogenetic Networks - Concepts, Algorithms and Applications. Cambridge University Press 2010, ISBN 978-0-521-75596-2, pp. I-XII, 1-362 - [c3]Jean-Philippe Doyon, Céline Scornavacca, K. Yu. Gorbunov, Gergely J. Szöllosi, Vincent Ranwez, Vincent Berry:
An Efficient Algorithm for Gene/Species Trees Parsimonious Reconciliation with Losses, Duplications and Transfers. RECOMB-CG 2010: 93-108
2000 – 2009
- 2009
- [b1]Céline Scornavacca:
Supertree methods for phylogenomics. (Méthodes de superarbres pour la phylogénomique). Montpellier 2 University, France, 2009 - [c2]Céline Scornavacca, Vincent Berry, Vincent Ranwez:
From Gene Trees to Species Trees through a Supertree Approach. LATA 2009: 702-714 - 2008
- [j2]Céline Scornavacca, Vincent Berry, Vincent Lefort, Emmanuel J. P. Douzery, Vincent Ranwez:
PhySIC_IST: cleaning source trees to infer more informative supertrees. BMC Bioinform. 9 (2008) - [j1]Marília D. V. Braga, Marie-France Sagot, Céline Scornavacca, Eric Tannier:
Exploring the Solution Space of Sorting by Reversals, with Experiments and an Application to Evolution. IEEE ACM Trans. Comput. Biol. Bioinform. 5(3): 348-356 (2008) - 2007
- [c1]Marília D. V. Braga, Marie-France Sagot, Céline Scornavacca, Eric Tannier:
The Solution Space of Sorting by Reversals. ISBRA 2007: 293-304
Coauthor Index
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