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ORCIDAïda Ouangraoua
Person information
- affiliation: University of Sherbrooke, Canada
- affiliation (former): INRIA, France
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Journal Articles
- 2024
[j28]Wend Yam Donald Davy Ouedraogo
, Aïda Ouangraoua:
Orthology and Paralogy Relationships at Transcript Level. J. Comput. Biol. 31(4): 277-293 (2024)- 2023
- [j27]Wend Yam Donald Davy Ouedraogo, Aïda Ouangraoua:
SimSpliceEvol2: alternative splicing-aware simulation of biological sequence evolution and transcript phylogenies. BMC Bioinform. 24(1): 235 (2023) - [j26]Anaïs Vannutelli, Lauriane lucienne noele Schell, Jean-Pierre Perreault, Aïda Ouangraoua:
GAIA: G-quadruplexes in alive creature database. Nucleic Acids Res. 51(D1): 135-140 (2023) - 2021
- [j25]Esaie Kuitche, Yanchun Qi, Nadia Tahiri, Jack Parmer, Aïda Ouangraoua:
DoubleRecViz: a web-based tool for visualizing transcript-gene-species tree reconciliation. Bioinform. 37(13): 1920-1922 (2021) - [j24]Yoann Anselmetti, Nadia El-Mabrouk, Manuel Lafond, Aïda Ouangraoua:
Gene tree and species tree reconciliation with endosymbiotic gene transfer. Bioinform. 37(Supplement): 120-132 (2021) - [j23]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:
OpenProt 2021: deeper functional annotation of the coding potential of eukaryotic genomes. Nucleic Acids Res. 49(Database-Issue): D380-D388 (2021) - 2019
- [j22]Safa Jammali, Jean-David Aguilar, Esaie Kuitche, Aïda Ouangraoua:
SplicedFamAlign: CDS-to-gene spliced alignment and identification of transcript orthology groups. BMC Bioinform. 20-S(3): 37-52 (2019) - [j21]Esaie Kuitche, Safa Jammali, Aïda Ouangraoua:
SimSpliceEvol: alternative splicing-aware simulation of biological sequence evolution. BMC Bioinform. 20-S(20): 640 (2019) - [j20]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:
OpenProt: a more comprehensive guide to explore eukaryotic coding potential and proteomes. Nucleic Acids Res. 47(Database-Issue): D403-D410 (2019) - [j19]Nina Luhmann, Manuel Lafond, Annelyse Thévenin, Aïda Ouangraoua, Roland Wittler, Cédric Chauve:
The SCJ Small Parsimony Problem for Weighted Gene Adjacencies. IEEE ACM Trans. Comput. Biol. Bioinform. 16(4): 1364-1373 (2019) - 2018
- [j18]Jean-Pierre Séhi Glouzon, Aïda Ouangraoua:
aliFreeFold: an alignment-free approach to predict secondary structure from homologous RNA sequences. Bioinform. 34(13): i70-i78 (2018) - [j17]Manuel Lafond, Cédric Chauve, Nadia El-Mabrouk, Aïda Ouangraoua:
Gene Tree Construction and Correction Using SuperTree and Reconciliation. IEEE ACM Trans. Comput. Biol. Bioinform. 15(5): 1560-1570 (2018) - 2017
- [j16]Safa Jammali, Esaie Kuitche, Ayoub Rachati, François Bélanger, Michelle S. Scott, Aïda Ouangraoua:
Aligning coding sequences with frameshift extension penalties. Algorithms Mol. Biol. 12(1): 10:1-10:18 (2017) - [j15]Esaie Kuitche, Manuel Lafond, Aïda Ouangraoua:
Reconstructing protein and gene phylogenies using reconciliation and soft-clustering. J. Bioinform. Comput. Biol. 15(6): 1740007:1-1740007:25 (2017) - 2015
- [j14]Manuel Lafond, Aïda Ouangraoua, Nadia El-Mabrouk:
Reconstructing a SuperGeneTree minimizing reconciliation. BMC Bioinform. 16(S14): S4 (2015) - [j13]Philippe Lavoie-Mongrain, Mahdi Belcaid, Aïda Ouangraoua, Anne Bergeron, Guylaine Poisson:
Reconstructing the history of a WD40 beta-propeller tandem repeat using a phylogenetically informed algorithm. PeerJ Comput. Sci. 1: e6 (2015) - 2014
- [j12]Aïda Ouangraoua, Mathieu Raffinot:
On the Identification of Conflicting Contiguities in Ancestral Genome Reconstruction. J. Comput. Biol. 21(1): 64-79 (2014) - 2012
- [j11]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:
BRASERO: A Resource for Benchmarking RNA Secondary Structure Comparison Algorithms. Adv. Bioinformatics 2012: 893048:1-893048:5 (2012) - 2011
- [j10]Aïda Ouangraoua, Eric Tannier, Cédric Chauve:
Reconstructing the architecture of the ancestral amniote genome. Bioinform. 27(19): 2664-2671 (2011) - [j9]Antoine Thomas, Jean-Stéphane Varré, Aïda Ouangraoua:
Genome dedoubling by DCJ and reversal. BMC Bioinform. 12(S-9): S20 (2011) - [j8]Aïda Ouangraoua, Krister M. Swenson, Cédric Chauve:
A 2-Approximation for the Minimum Duplication Speciation Problem. J. Comput. Biol. 18(9): 1041-1053 (2011) - [j7]Aïda Ouangraoua, Anne Bergeron, Krister M. Swenson:
Theory and Practice of Ultra-Perfection. J. Comput. Biol. 18(9): 1219-1230 (2011) - [j6]Aïda Ouangraoua, Valentin Guignon, Sylvie Hamel, Cédric Chauve:
A new algorithm for aligning nested arc-annotated sequences under arbitrary weight schemes. Theor. Comput. Sci. 412(8-10): 753-764 (2011) - 2010
- [j5]Cédric Chauve, Haris Gavranovic, Aïda Ouangraoua, Eric Tannier:
Yeast Ancestral Genome Reconstructions: The Possibilities of Computational Methods II. J. Comput. Biol. 17(9): 1097-1112 (2010) - [j4]Aïda Ouangraoua, Anne Bergeron:
Combinatorial Structure of Genome Rearrangements Scenarios. J. Comput. Biol. 17(9): 1129-1144 (2010) - 2009
- [j3]Aïda Ouangraoua, Pascal Ferraro:
A new constrained edit distance between quotiented ordered trees. J. Discrete Algorithms 7(1): 78-89 (2009) - [j2]Aïda Ouangraoua, Pascal Ferraro:
A constrained edit distance algorithm between semi-ordered trees. Theor. Comput. Sci. 410(8-10): 837-846 (2009) - 2007
- [j1]Aïda Ouangraoua, Pascal Ferraro, Laurent Tichit, Serge Dulucq:
Local similarity between quotiented ordered trees. J. Discrete Algorithms 5(1): 23-35 (2007)
Conference and Workshop Papers
- 2024
- [c13]Wend Yam Donald Davy Ouedraogo, Aïda Ouangraoua:
Inferring Transcript Phylogenies from Transcript Ortholog Clusters. RECOMB-CG 2024: 47-68 - 2023
- [c12]Wend Yam Donald Davy Ouedraogo, Aïda Ouangraoua:
Inferring Clusters of Orthologous and Paralogous Transcripts. RECOMB-CG 2023: 19-34 - 2017
- [c11]Nadia El-Mabrouk, Aïda Ouangraoua:
A General Framework for Gene Tree Correction Based on Duplication-Loss Reconciliation. WABI 2017: 8:1-8:14 - 2016
- [c10]Nina Luhmann, Annelyse Thévenin, Aïda Ouangraoua, Roland Wittler, Cédric Chauve:
The SCJ Small Parsimony Problem for Weighted Gene Adjacencies. ISBRA 2016: 200-210 - 2012
- [c9]Antoine Thomas, Aïda Ouangraoua, Jean-Stéphane Varré:
Genome Halving by Block Interchange. BIOINFORMATICS 2012: 58-65 - [c8]Antoine Thomas, Aïda Ouangraoua, Jean-Stéphane Varré:
Single Tandem Halving by Block Interchange. BIOSTEC (Selected Papers) 2012: 162-174 - [c7]Aïda Ouangraoua, Mathieu Raffinot:
Faster and Simpler Minimal Conflicting Set Identification - (Extended Abstract). CPM 2012: 41-55 - [c6]Aïda Ouangraoua, Krister M. Swenson, Anne Bergeron:
On the Comparison of Sets of Alternative Transcripts. ISBRA 2012: 201-212 - [c5]Antoine Thomas, Aïda Ouangraoua, Jean-Stéphane Varré:
Tandem Halving Problems by DCJ. WABI 2012: 417-429 - 2010
- [c4]Aïda Ouangraoua, Anne Bergeron, Krister M. Swenson:
Ultra-Perfect Sorting Scenarios. RECOMB-CG 2010: 50-61 - [c3]Aïda Ouangraoua, Krister M. Swenson, Cédric Chauve:
An Approximation Algorithm for Computing a Parsimonious First Speciation in the Gene Duplication Model. RECOMB-CG 2010: 290-301 - 2009
- [c2]Aïda Ouangraoua, Frédéric Boyer, Andrew W. McPherson, Eric Tannier, Cédric Chauve:
Prediction of Contiguous Regions in the Amniote Ancestral Genome. ISBRA 2009: 173-185 - [c1]Aïda Ouangraoua, Anne Bergeron:
Parking Functions, Labeled Trees and DCJ Sorting Scenarios. RECOMB-CG 2009: 24-35
Editorship
- 2023
- [e2]Djamal Belazzougui, Aïda Ouangraoua:
23rd International Workshop on Algorithms in Bioinformatics, WABI 2023, September 4-6, 2023, Houston, TX, USA. LIPIcs 273, Schloss Dagstuhl - Leibniz-Zentrum für Informatik 2023, ISBN 978-3-95977-294-5 [contents] - 2018
- [e1]Mathieu Blanchette, Aïda Ouangraoua:
Comparative Genomics - 16th International Conference, RECOMB-CG 2018, Magog-Orford, QC, Canada, October 9-12, 2018, Proceedings. Lecture Notes in Computer Science 11183, Springer 2018, ISBN 978-3-030-00833-8 [contents]
Informal and Other Publications
- 2024
- [i11]Bertrand Marchand, Yoann Anselmetti, Manuel Lafond, Aïda Ouangraoua:
Median and Small Parsimony Problems on RNA trees. CoRR abs/2402.03455 (2024) - 2017
- [i10]Jean-David Aguilar, Safa Jammali, Esaie Kuitche, Aïda Ouangraoua:
Improving spliced alignment for identification of ortholog groups and multiple CDS alignment. CoRR abs/1709.06169 (2017) - 2016
- [i9]Nina Luhmann, Annelyse Thévenin, Aïda Ouangraoua, Roland Wittler, Cédric Chauve:
The SCJ small parsimony problem for weighted gene adjacencies (Extended version). CoRR abs/1603.08819 (2016) - [i8]Manuel Lafond, Cédric Chauve, Nadia El-Mabrouk, Aïda Ouangraoua:
Gene Tree Construction and Correction using SuperTree and Reconciliation. CoRR abs/1610.05068 (2016) - [i7]Safa Jammali, Esaie Kuitche, Ayoub Rachati, François Bélanger, Michelle S. Scott, Aïda Ouangraoua:
Aligning coding sequences with frameshift extension penalties. CoRR abs/1610.08809 (2016) - [i6]Esaie Kuitche, Aïda Ouangraoua:
Reconstructing protein and gene phylogenies by extending the framework of reconciliation. CoRR abs/1610.09732 (2016) - 2015
- [i5]François Bélanger, Aïda Ouangraoua:
Alignment of protein-coding sequences with frameshift extension penalties. CoRR abs/1508.04783 (2015) - 2012
- [i4]Aïda Ouangraoua, Mathieu Raffinot:
Faster and Simpler Minimal Conflicting Set Identification. CoRR abs/1201.5513 (2012) - 2011
- [i3]Antoine Thomas, Aïda Ouangraoua, Jean-Stéphane Varré:
Genome Halving by Block Interchange. CoRR abs/1107.1076 (2011) - 2009
- [i2]Aïda Ouangraoua, Anne Bergeron:
Parking functions, labeled trees and DCJ sorting scenarios. CoRR abs/0903.2499 (2009) - [i1]Cédric Chauve, Aïda Ouangraoua:
A 3-approximation algorithm for computing a parsimonious first speciation in the gene duplication model. CoRR abs/0904.1645 (2009)
Coauthor Index
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last updated on 2024-10-07 22:15 CEST by the dblp team
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