Aïda Ouangraoua

55 papers B 1C 3Journal 40Unranked 10
YearRankTypeTitle / Venue / Authors
2024 — conf
Inferring Transcript Phylogenies from Transcript Ortholog Clusters.
RECOMB-CG
Wend Yam Donald Davy Ouedraogo, Aïda Ouangraoua
2024 J jnl
Median and Small Parsimony Problems on RNA trees.
CoRR
Bertrand Marchand, Yoann Anselmetti, Manuel Lafond, Aïda Ouangraoua
2024 J jnl
Median and small parsimony problems on RNA trees.
Bioinform.
Bertrand Marchand, Yoann Anselmetti, Manuel Lafond, Aïda Ouangraoua
2024 J jnl
Orthology and Paralogy Relationships at Transcript Level.
J. Comput. Biol.
Wend Yam Donald Davy Ouedraogo, Aïda Ouangraoua
2023 C ed.
23rd International Workshop on Algorithms in Bioinformatics, WABI 2023, Houston, TX, USA, September 4-6, 2023
WABI
Djamal Belazzougui, Aïda Ouangraoua
2023 J jnl
GAIA: G-quadruplexes in alive creature database.
Nucleic Acids Res.
Anaïs Vannutelli, Lauriane lucienne noele Schell, Jean-Pierre Perreault, Aïda Ouangraoua
2023 — conf
Inferring Clusters of Orthologous and Paralogous Transcripts.
RECOMB-CG
Wend Yam Donald Davy Ouedraogo, Aïda Ouangraoua
2023 J jnl
SimSpliceEvol2: alternative splicing-aware simulation of biological sequence evolution and transcript phylogenies.
BMC Bioinform.
Wend Yam Donald Davy Ouedraogo, Aïda Ouangraoua
2021 J jnl
DoubleRecViz: a web-based tool for visualizing transcript-gene-species tree reconciliation.
Bioinform.
Esaie Kuitche, Yanchun Qi, Nadia Tahiri, Jack Parmer, Aïda Ouangraoua
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
OpenProt 2021: deeper functional annotation of the coding potential of eukaryotic genomes.
Nucleic Acids Res.
Marie A. Brunet, Jean-François Lucier, Maxime Levesque, Sébastien Leblanc, Jean-Francois Jacques, Hassan R. H. Al-Saedi, Noé Guilloy, Frédéric Grenier, Mariano Avino, Isabelle Fournier, Michel Salzet, Aïda Ouangraoua, Michelle S. Scott, François-Michel Boisvert, Xavier Roucou
2019 J jnl
OpenProt: a more comprehensive guide to explore eukaryotic coding potential and proteomes.
Nucleic Acids Res.
Marie A. Brunet, Mylène Brunelle, Jean-François Lucier, Vivian Delcourt, Maxime Levesque, Frédéric Grenier, Sondos Samandi, Sébastien Leblanc, Jean-David Aguilar, Pascal Dufour, Jean-Francois Jacques, Isabelle Fournier, Aïda Ouangraoua, Michelle S. Scott, François-Michel Boisvert, Xavier Roucou
2019 J jnl
SimSpliceEvol: alternative splicing-aware simulation of biological sequence evolution.
BMC Bioinform.
Esaie Kuitche, Safa Jammali, Aïda Ouangraoua
2019 J jnl
SplicedFamAlign: CDS-to-gene spliced alignment and identification of transcript orthology groups.
BMC Bioinform.
Safa Jammali, Jean-David Aguilar, Esaie Kuitche, Aïda Ouangraoua
2019 J jnl
The SCJ Small Parsimony Problem for Weighted Gene Adjacencies.
IEEE ACM Trans. Comput. Biol. Bioinform.
Nina Luhmann, Manuel Lafond, Annelyse Thévenin, Aïda Ouangraoua, Roland Wittler, Cédric Chauve
2018 — ed.
Comparative Genomics - 16th International Conference, RECOMB-CG 2018, Magog-Orford, QC, Canada, October 9-12, 2018, Proceedings
RECOMB-CG
Mathieu Blanchette, Aïda Ouangraoua
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 J jnl
aliFreeFold: an alignment-free approach to predict secondary structure from homologous RNA sequences.
Bioinform.
Jean-Pierre Séhi Glouzon, Aïda Ouangraoua
2017 C conf
A General Framework for Gene Tree Correction Based on Duplication-Loss Reconciliation.
WABI
Nadia El-Mabrouk, Aïda Ouangraoua
2017 J jnl
Aligning coding sequences with frameshift extension penalties.
Algorithms Mol. Biol.
Safa Jammali, Esaie Kuitche, Ayoub Rachati, François Bélanger, Michelle S. Scott, Aïda Ouangraoua
2017 J jnl
Improving spliced alignment for identification of ortholog groups and multiple CDS alignment.
CoRR
Jean-David Aguilar, Safa Jammali, Esaie Kuitche, Aïda Ouangraoua
2017 J jnl
Reconstructing protein and gene phylogenies using reconciliation and soft-clustering.
J. Bioinform. Comput. Biol.
Esaie Kuitche, Manuel Lafond, Aïda Ouangraoua
2016 J jnl
Aligning coding sequences with frameshift extension penalties.
CoRR
Safa Jammali, Esaie Kuitche, Ayoub Rachati, François Bélanger, Michelle S. Scott, Aïda Ouangraoua
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
Reconstructing protein and gene phylogenies by extending the framework of reconciliation.
CoRR
Esaie Kuitche, Aïda Ouangraoua
2016 — conf
The SCJ Small Parsimony Problem for Weighted Gene Adjacencies.
ISBRA
Nina Luhmann, Annelyse Thévenin, Aïda Ouangraoua, Roland Wittler, Cédric Chauve
2016 J jnl
The SCJ small parsimony problem for weighted gene adjacencies (Extended version).
CoRR
Nina Luhmann, Annelyse Thévenin, Aïda Ouangraoua, Roland Wittler, Cédric Chauve
2015 J jnl
Alignment of protein-coding sequences with frameshift extension penalties.
CoRR
François Bélanger, Aïda Ouangraoua
2015 J jnl
Reconstructing a SuperGeneTree minimizing reconciliation.
BMC Bioinform.
Manuel Lafond, Aïda Ouangraoua, Nadia El-Mabrouk
2015 J jnl
Reconstructing the history of a WD40 beta-propeller tandem repeat using a phylogenetically informed algorithm.
PeerJ Comput. Sci.
Philippe Lavoie-Mongrain, Mahdi Belcaid, Aïda Ouangraoua, Anne Bergeron, Guylaine Poisson
2014 J jnl
On the Identification of Conflicting Contiguities in Ancestral Genome Reconstruction.
J. Comput. Biol.
Aïda Ouangraoua, Mathieu Raffinot
2012 J jnl
BRASERO: A Resource for Benchmarking RNA Secondary Structure Comparison Algorithms.
Adv. Bioinformatics
Julien Allali, Cédric Saule, Cédric Chauve, Yves D'Aubenton-Carafa, Alain Denise, Christine Drevet, Pascal Ferraro, Daniel Gautheret, Claire Herrbach, Fabrice Leclerc, Antoine de Monte, Aïda Ouangraoua, Marie-France Sagot, Michel Termier, Claude Thermes, Hélène Touzet
2012 J jnl
Faster and Simpler Minimal Conflicting Set Identification
CoRR
Aïda Ouangraoua, Mathieu Raffinot
2012 B conf
Faster and Simpler Minimal Conflicting Set Identification - (Extended Abstract).
CPM
Aïda Ouangraoua, Mathieu Raffinot
2012 — conf
Genome Halving by Block Interchange.
BIOINFORMATICS
Antoine Thomas, Aïda Ouangraoua, Jean-Stéphane Varré
2012 — conf
On the Comparison of Sets of Alternative Transcripts.
ISBRA
Aïda Ouangraoua, Krister M. Swenson, Anne Bergeron
2012 — conf
Single Tandem Halving by Block Interchange.
BIOSTEC (Selected Papers)
Antoine Thomas, Aïda Ouangraoua, Jean-Stéphane Varré
2012 C conf
Tandem Halving Problems by DCJ.
WABI
Antoine Thomas, Aïda Ouangraoua, Jean-Stéphane Varré
2011 J jnl
A 2-Approximation for the Minimum Duplication Speciation Problem.
J. Comput. Biol.
Aïda Ouangraoua, Krister M. Swenson, Cédric Chauve
2011 J jnl
A new algorithm for aligning nested arc-annotated sequences under arbitrary weight schemes.
Theor. Comput. Sci.
Aïda Ouangraoua, Valentin Guignon, Sylvie Hamel, Cédric Chauve
2011 J jnl
Genome Halving by Block Interchange
CoRR
Antoine Thomas, Aïda Ouangraoua, Jean-Stéphane Varré
2011 J jnl
Genome dedoubling by DCJ and reversal.
BMC Bioinform.
Antoine Thomas, Jean-Stéphane Varré, Aïda Ouangraoua
2011 J jnl
Reconstructing the architecture of the ancestral amniote genome.
Bioinform.
Aïda Ouangraoua, Eric Tannier, Cédric Chauve
2011 J jnl
Theory and Practice of Ultra-Perfection.
J. Comput. Biol.
Aïda Ouangraoua, Anne Bergeron, Krister M. Swenson
2010 — conf
An Approximation Algorithm for Computing a Parsimonious First Speciation in the Gene Duplication Model.
RECOMB-CG
Aïda Ouangraoua, Krister M. Swenson, Cédric Chauve
2010 J jnl
Combinatorial Structure of Genome Rearrangements Scenarios.
J. Comput. Biol.
Aïda Ouangraoua, Anne Bergeron
2010 — conf
Ultra-Perfect Sorting Scenarios.
RECOMB-CG
Aïda Ouangraoua, Anne Bergeron, Krister M. Swenson
2010 J jnl
Yeast Ancestral Genome Reconstructions: The Possibilities of Computational Methods II.
J. Comput. Biol.
Cédric Chauve, Haris Gavranovic, Aïda Ouangraoua, Eric Tannier
2009 J jnl
A 3-approximation algorithm for computing a parsimonious first speciation in the gene duplication model
CoRR
Cédric Chauve, Aïda Ouangraoua
2009 J jnl
A constrained edit distance algorithm between semi-ordered trees.
Theor. Comput. Sci.
Aïda Ouangraoua, Pascal Ferraro
2009 J jnl
A new constrained edit distance between quotiented ordered trees.
J. Discrete Algorithms
Aïda Ouangraoua, Pascal Ferraro
2009 — conf
Parking Functions, Labeled Trees and DCJ Sorting Scenarios.
RECOMB-CG
Aïda Ouangraoua, Anne Bergeron
2009 J jnl
Parking functions, labeled trees and DCJ sorting scenarios
CoRR
Aïda Ouangraoua, Anne Bergeron
2009 — conf
Prediction of Contiguous Regions in the Amniote Ancestral Genome.
ISBRA
Aïda Ouangraoua, Frédéric Boyer, Andrew W. McPherson, Eric Tannier, Cédric Chauve
2007 J jnl
Local similarity between quotiented ordered trees.
J. Discrete Algorithms
Aïda Ouangraoua, Pascal Ferraro, Laurent Tichit, Serge Dulucq