Nadia El-Mabrouk

81 papers B 10C 12Misc 2Journal 40Unranked 12

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	FullSynesth: Syntenic Reconciliation of a Set of Consistent Gene Trees. Theory Comput. Syst. Mathieu Gascon, Mattéo Delabre, Nadia El-Mabrouk
2024	C	`conf`	Simultaneously Building and Reconciling a Synteny Tree. SPIRE Mathieu Gascon, Mattéo Delabre, Nadia El-Mabrouk
2024	J	`jnl`	Synesth: Comprehensive Syntenic Reconciliation with Unsampled Lineages. Algorithms Mattéo Delabre, Nadia El-Mabrouk
2023	J	`jnl`	On the complexity of non-binary tree reconciliation with endosymbiotic gene transfer. Algorithms Mol. Biol. Mathieu Gascon, Nadia El-Mabrouk
2022	J	`jnl`	MUL-tree pruning for consistency and optimal reconciliation - complexity and algorithms. Theor. Comput. Sci. Mathieu Gascon, Riccardo Dondi, Nadia El-Mabrouk
2022	C	`conf`	Non-Binary Tree Reconciliation with Endosymbiotic Gene Transfer. WABI Mathieu Gascon, Nadia El-Mabrouk
2022	—	`conf`	Reconciliation with Segmental Duplication, Transfer, Loss and Gain. RECOMB-CG Yoann Anselmetti, Mattéo Delabre, Nadia El-Mabrouk
2021	C	`conf`	Complexity and Algorithms for MUL-Tree Pruning. IWOCA Mathieu Gascon, Riccardo Dondi, Nadia El-Mabrouk
2021	J	`jnl`	Gene tree and species tree reconciliation with endosymbiotic gene transfer. Bioinform. Yoann Anselmetti, Nadia El-Mabrouk, Manuel Lafond, Aïda Ouangraoua
2021	J	`jnl`	Predicting the Evolution of Syntenies - An Algorithmic Review. Algorithms Nadia El-Mabrouk
2020	J	`jnl`	A generalized Robinson-Foulds distance for labeled trees. BMC Genom. Samuel Briand, Christophe Dessimoz, Nadia El-Mabrouk, Manuel Lafond, Gabriela Lobinska
2020	J	`jnl`	Evolution through segmental duplications and losses: a Super-Reconciliation approach. Algorithms Mol. Biol. Mattéo Delabre, Nadia El-Mabrouk, Katharina T. Huber, Manuel Lafond, Vincent Moulton, Emmanuel Noutahi, Miguel Sautie Castellanos
2020	J	`jnl`	ISMB 2020 proceedings. Bioinform. Nadia El-Mabrouk, Donna K. Slonim
2019	J	`jnl`	ISMB/ECCB 2019 Proceedings. Bioinform. Yana Bromberg, Nadia El-Mabrouk, Predrag Radivojac
2019	J	`jnl`	The complexity of comparing multiply-labelled trees by extending phylogenetic-tree metrics. Theor. Comput. Sci. Manuel Lafond, Nadia El-Mabrouk, Katharina T. Huber, Vincent Moulton
2018	J	`jnl`	GATC: a genetic algorithm for gene tree construction under the Duplication-Transfer-Loss model of evolution. BMC Genom. Emmanuel Noutahi, Nadia El-Mabrouk
2018	J	`jnl`	Gene Tree Construction and Correction Using SuperTree and Reconciliation. IEEE ACM Trans. Comput. Biol. Bioinform. Manuel Lafond, Cédric Chauve, Nadia El-Mabrouk, Aïda Ouangraoua
2018	Misc	`conf`	Partial Homology Relations - Satisfiability in Terms of Di-Cographs. COCOON Nikolai Nøjgaard, Nadia El-Mabrouk, Daniel Merkle, Nicolas Wieseke, Marc Hellmuth
2018	—	`conf`	Reconstructing the History of Syntenies Through Super-Reconciliation. RECOMB-CG Mattéo Delabre, Nadia El-Mabrouk, Katharina T. Huber, Manuel Lafond, Vincent Moulton, Emmanuel Noutahi, Miguel Sautie Castellanos
2018	J	`jnl`	The complexity of comparing multiply-labelled trees by extending phylogenetic-tree metrics. CoRR Manuel Lafond, Nadia El-Mabrouk, Katharina T. Huber, Vincent Moulton
2017	C	`conf`	A General Framework for Gene Tree Correction Based on Duplication-Loss Reconciliation. WABI Nadia El-Mabrouk, Aïda Ouangraoua
2017	J	`jnl`	Approximating the correction of weighted and unweighted orthology and paralogy relations. Algorithms Mol. Biol. Riccardo Dondi, Manuel Lafond, Nadia El-Mabrouk
2017	J	`jnl`	CoreTracker: accurate codon reassignment prediction, applied to mitochondrial genomes. Bioinform. Emmanuel Noutahi, Virginie Calderon, Mathieu Blanchette, B. Franz Lang, Nadia El-Mabrouk
2017	J	`jnl`	Partial Orthology, Paralogy and Xenology Relations - Satisfiability in terms of Di-Cographs. CoRR Nikolai Nøjgaard, Nadia El-Mabrouk, Daniel Merkle, Nicolas Wieseke, Marc Hellmuth
2016	C	`conf`	Correction of Weighted Orthology and Paralogy Relations - Complexity and Algorithmic Results. WABI Riccardo Dondi, Nadia El-Mabrouk, Manuel Lafond
2016	B	`conf`	Efficient Non-Binary Gene Tree Resolution with Weighted Reconciliation Cost. CPM Manuel Lafond, Emmanuel Noutahi, Nadia El-Mabrouk
2016	J	`jnl`	Gene Tree Construction and Correction using SuperTree and Reconciliation. CoRR Manuel Lafond, Cédric Chauve, Nadia El-Mabrouk, Aïda Ouangraoua
2016	J	`jnl`	The link between orthology relations and gene trees: a correction perspective. Algorithms Mol. Biol. Manuel Lafond, Riccardo Dondi, Nadia El-Mabrouk
2015	C	`conf`	Orthology Relation and Gene Tree Correction: Complexity Results. WABI Manuel Lafond, Nadia El-Mabrouk
2015	J	`jnl`	Reconstructing a SuperGeneTree minimizing reconciliation. BMC Bioinform. Manuel Lafond, Aïda Ouangraoua, Nadia El-Mabrouk
2014	J	`jnl`	Gene tree correction for reconciliation and species tree inference: Complexity and algorithms. J. Discrete Algorithms Riccardo Dondi, Nadia El-Mabrouk, Krister M. Swenson
2014	J	`jnl`	Polytomy refinement for the correction of dubious duplications in gene trees. Bioinform. Manuel Lafond, Cédric Chauve, Riccardo Dondi, Nadia El-Mabrouk
2013	C	`conf`	Aligning and Labeling Genomes under the Duplication-Loss Model. CiE Riccardo Dondi, Nadia El-Mabrouk
2013	J	`jnl`	Ancestral Genome Organization: An Alignment Approach. J. Comput. Biol. Patrick Holloway, Krister M. Swenson, David H. Ardell, Nadia El-Mabrouk
2013	—	`ch.`	Duplication, Rearrangement and Reconciliation: A Follow-Up 13 Years Later. Models and Algorithms for Genome Evolution Cédric Chauve, Nadia El-Mabrouk, Laurent Guéguen, Magali Semeria, Eric Tannier
2013	C	`conf`	Duplication-Loss Genome Alignment: Complexity and Algorithm. LATA Billel Benzaid, Riccardo Dondi, Nadia El-Mabrouk
2013	—	`ch.`	Error Detection and Correction of Gene Trees. Models and Algorithms for Genome Evolution Manuel Lafond, Krister M. Swenson, Nadia El-Mabrouk
2013	J	`jnl`	Gene tree correction guided by orthology. BMC Bioinform. Manuel Lafond, Magali Semeria, Krister M. Swenson, Eric Tannier, Nadia El-Mabrouk
2013	—	`book`	Models and Algorithms for Genome Evolution Cédric Chauve, Nadia El-Mabrouk, Eric Tannier
2012	J	`jnl`	A flexible ancestral genome reconstruction method based on gapped adjacencies. BMC Bioinform. Yves Gagnon, Mathieu Blanchette, Nadia El-Mabrouk
2012	C	`conf`	An Optimal Reconciliation Algorithm for Gene Trees with Polytomies. WABI Manuel Lafond, Krister M. Swenson, Nadia El-Mabrouk
2012	B	`conf`	Evolution of Genome Organization by Duplication and Loss: An Alignment Approach. RECOMB Patrick Holloway, Krister M. Swenson, David H. Ardell, Nadia El-Mabrouk
2012	J	`jnl`	Gene tree correction for reconciliation and species tree inference. Algorithms Mol. Biol. Krister M. Swenson, Andrea Doroftei, Nadia El-Mabrouk
2012	J	`jnl`	Gene trees and species trees: irreconcilable differences. BMC Bioinform. Krister M. Swenson, Nadia El-Mabrouk
2012	B	`conf`	Minimum Leaf Removal for Reconciliation: Complexity and Algorithms. CPM Riccardo Dondi, Nadia El-Mabrouk
2012	J	`jnl`	On the Complexity of Minimum Labeling Alignment of Two Genomes CoRR Riccardo Dondi, Nadia El-Mabrouk
2011	J	`jnl`	Evolution of orthologous tandemly arrayed gene clusters. BMC Bioinform. Olivier Tremblay-Savard, Denis Bertrand, Nadia El-Mabrouk
2011	J	`jnl`	Genome Halving and Double Distance with Losses. J. Comput. Biol. Olivier Tremblay-Savard, Yves Gagnon, Denis Bertrand, Nadia El-Mabrouk
2011	C	`conf`	Removing Noise from Gene Trees. WABI Andrea Doroftei, Nadia El-Mabrouk
2010	—	`conf`	Advances on Genome Duplication Distances. RECOMB-CG Yves Gagnon, Olivier Tremblay-Savard, Denis Bertrand, Nadia El-Mabrouk
2010	C	`conf`	Reconstruction of Ancestral Genome Subject to Whole Genome Duplication, Speciation, Rearrangement and Loss. WABI Denis Bertrand, Yves Gagnon, Mathieu Blanchette, Nadia El-Mabrouk
2009	J	`jnl`	Genetic Map Refinement Using a Comparative Genomic Approach. J. Comput. Biol. Denis Bertrand, Mathieu Blanchette, Nadia El-Mabrouk
2009	B	`conf`	New Perspectives on Gene Family Evolution: Losses in Reconciliation and a Link with Supertrees. RECOMB Cédric Chauve, Nadia El-Mabrouk
2008	—	`conf`	A Phylogenetic Approach to Genetic Map Refinement. RECOMB-CG Denis Bertrand, Mathieu Blanchette, Nadia El-Mabrouk
2008	J	`jnl`	Gene Family Evolution by Duplication, Speciation, and Loss. J. Comput. Biol. Cédric Chauve, Jean-Philippe Doyon, Nadia El-Mabrouk
2008	J	`jnl`	Inferring Ancestral Gene Orders for a Family of Tandemly Arrayed Genes. J. Comput. Biol. Denis Bertrand, Mathieu Lajoie, Nadia El-Mabrouk
2007	J	`jnl`	Duplication and Inversion History of a Tandemly Repeated Genes Family. J. Comput. Biol. Mathieu Lajoie, Denis Bertrand, Nadia El-Mabrouk, Olivier Gascuel
2007	—	`conf`	Evolution of Tandemly Arrayed Genes in Multiple Species. RECOMB-CG Mathieu Lajoie, Denis Bertrand, Nadia El-Mabrouk
2007	J	`jnl`	Gene Maps Linearization Using Genomic Rearrangement Distances. J. Comput. Biol. Guillaume Blin, Eric Blais, Danny Hermelin, Pierre Guillon, Mathieu Blanchette, Nadia El-Mabrouk
2007	—	`ch.`	Genome rearrangement with gene families. Mathematics of Evolution and Phylogeny Nadia El-Mabrouk
2007	—	`conf`	Inferring a Duplication, Speciation and Loss History from a Gene Tree (Extended Abstract). RECOMB-CG Cédric Chauve, Jean-Philippe Doyon, Nadia El-Mabrouk
2007	Misc	`conf`	Seed-Based Exclusion Method for Non-coding RNA Gene Search. COCOON Jean-Eudes Duchesne, Mathieu Giraud, Nadia El-Mabrouk
2006	—	`ed.`	Comparative Genomics, RECOMB 2006 International Workshop, RCG 2006, Montreal, Canada, September 24-26, 2006, Proceedings Comparative Genomics Guillaume Bourque, Nadia El-Mabrouk
2006	—	`conf`	Evolution of Tandemly Repeated Sequences Through Duplication and Inversion. Comparative Genomics Denis Bertrand, Mathieu Lajoie, Nadia El-Mabrouk, Olivier Gascuel
2006	—	`conf`	Inferring Gene Orders from Gene Maps Using the Breakpoint Distance. Comparative Genomics Guillaume Blin, Eric Blais, Pierre Guillon, Mathieu Blanchette, Nadia El-Mabrouk
2005	J	`jnl`	Approximate Matching of Structured Motifs in Dna Sequences. J. Bioinform. Comput. Biol. Nadia El-Mabrouk, Mathieu Raffinot, Jean-Eudes Duchesne, Mathieu Lajoie, Nicolas Luc
2005	—	`conf`	Maximizing Synteny Blocks to Identify Ancestral Homologs. Comparative Genomics Guillaume Bourque, Yasmine Yacef, Nadia El-Mabrouk
2005	—	`conf`	Recovering haplotype structure through recombination and gene conversion. ECCB/JBI Mathieu Lajoie, Nadia El-Mabrouk
2004	J	`jnl`	Deriving Haplotypes through Recombination and Gene Conversion Pathways. J. Bioinform. Comput. Biol. Nadia El-Mabrouk
2004	J	`jnl`	Haplotypes histories as pathways of recombinations. Bioinform. Nadia El-Mabrouk, Damian Labuda
2004	—	`conf`	The Distribution of Inversion Lengths in Bacteria. Comparative Genomics David Sankoff, Jean-François Lefebvre, Elisabeth R. M. Tillier, Adrian Maler, Nadia El-Mabrouk
2003	—	`conf`	Detection and validation of single gene inversions. ISMB (Supplement of Bioinformatics) Jean-François Lefebvre, Nadia El-Mabrouk, Elisabeth R. M. Tillier, David Sankoff
2003	J	`jnl`	The Reconstruction of Doubled Genomes. SIAM J. Comput. Nadia El-Mabrouk, David Sankoff
2002	B	`conf`	Approximate matching of secondary structures. RECOMB Nadia El-Mabrouk, Mathieu Raffinot
2002	C	`conf`	Exploring the Set of All Minimal Sequences of Reversals - An Application to Test the Replication-Directed Reversal Hypothesis. WABI Yasmine Ajana, Jean-François Lefebvre, Elisabeth R. M. Tillier, Nadia El-Mabrouk
2002	J	`jnl`	Reconstructing an ancestral genome using minimum segments duplications and reversals. J. Comput. Syst. Sci. Nadia El-Mabrouk
2000	B	`conf`	Genome Rearrangement by Reversals and Insertions/Deletions of Contiguous Segments. CPM Nadia El-Mabrouk
1999	B	`conf`	Hybridization and Genome Rearrangement. CPM Nadia El-Mabrouk, David Sankoff
1999	B	`conf`	Reconstructing the pre-doubling genome. RECOMB Nadia El-Mabrouk, David Bryant, David Sankoff
1998	B	`conf`	Genome Halving. CPM Nadia El-Mabrouk, Joseph H. Nadeau, David Sankoff
1996	B	`conf`	Boyer-Moore Strategy to Efficient Approximate String Matching. CPM Nadia El-Mabrouk, Maxime Crochemore