Annie CHATEAU Publications of Annie Duchateau

Identifiants chercheurs

IdHAL :

annie-chateau

ORCID :

0000-0003-4760-8171

IdRef :

227798856

Présentation

Publications

Article dans une revue (18)

On a greedy approach for genome scaffolding Tom Davot,Annie Chateau,Rohan Fossé,Rodolphe Giroudeau,Mathias Weller Algorithms for Molecular Biology, 2022, 17 (1), pp.16-46. ⟨10.1186/s13015-022-00223-x⟩ Article dans une revue lirmm-03835013v1
RedOak: a reference-free and alignment-free structure for indexing a collection of similar genomes Clément Agret,Annie Chateau,Gaetan Droc,Gautier Sarah,Manuel Ruizet al. Journal of Open Source Software, 2022, 7 (80), pp.4363. ⟨10.21105/joss.04363⟩ Article dans une revue lirmm-03920648v1
Involving repetitive regions in scaffolding improvement Quentin Delorme,Rémy Costa,Yasmine Mansour,Anna-Sophie Fiston-Lavier,Annie Chateau Journal of Bioinformatics and Computational Biology, 2021, 19 (06), pp.2140016. ⟨10.1142/S0219720021400163⟩ Article dans une revue hal-04954688v1
Producing Genomic Sequences after Genome Scaffolding with Ambiguous Paths: Complexity, Approximation and Lower Bounds Tom Davot,Annie Chateau,Rodolphe Giroudeau,Mathias Weller,Dorine Tabary Algorithmica, 2021, 83, pp.2063-2095. ⟨10.1007/s00453-021-00819-6⟩ Article dans une revue lirmm-03218029v2
Efficient assembly consensus algorithms for divergent contig sets Annie Chateau,Tom Davot,Manuel Lafond Computational Biology and Chemistry, 2021, 93, pp.#107516. ⟨10.1016/j.compbiolchem.2021.107516⟩ Article dans une revue lirmm-03244191v1
BREC: An R package/Shiny app for automatically identifying heterochromatin boundaries and estimating local recombination rates along chromosomes Yasmine Mansour,Annie Chateau,Anna-Sophie Fiston-Lavier BMC Bioinformatics, 2021, 22 (S6), pp.#396. ⟨10.1186/s12859-021-04233-1⟩ Article dans une revue lirmm-03475277v1
Machine learning meets genome assembly Kleber Padovani de Souza,João Carlos Setubal,André Carlos Ponce de Leon F. de Carvalho,Guilherme Oliveira,Annie Chateauet al. Briefings in Bioinformatics, 2019, 20 (6), pp.2116-2129. ⟨10.1093/bib/bby072⟩ Article dans une revue lirmm-02067457v1
A general framework for genome rearrangement with biological constraints Pijus Simonaitis,Annie Chateau,Krister M. Swenson Algorithms for Molecular Biology, 2019, 14 (1), ⟨10.1186/s13015-019-0149-4⟩ Article dans une revue lirmm-02410420v1
On Residual Approximation in Solution Extension Problems Mathias Weller,Annie Chateau,Rodolphe Giroudeau,Jean-Claude König,Valentin Pollet Journal of Combinatorial Optimization, 2018, 36 (4), pp.1195-1220. ⟨10.1007/s10878-017-0202-5⟩ Article dans une revue lirmm-01889394v1
Complexity and lowers bounds for Power Edge Set Problem Benoit Darties,Nicolas Champseix,Annie Chateau,Rodolphe Giroudeau,Mathias Weller Journal of Discrete Algorithms, 2018, 52-53, pp.70-91. ⟨10.1016/j.jda.2018.11.006⟩ Article dans une revue lirmm-01950398v1
Measurement and Generation of Diversity and Meaningfulness in Model Driven Engineering Adel Ferdjoukh,Florian Galinier,Eric Bourreau,Annie Chateau,Clémentine Nebut International Journal On Advances in Software, 2018, 11 (1/2), pp.131-146 Article dans une revue lirmm-02067506v1
Scaffolding Problems Revisited: Complexity, Approximation and Fixed Parameter Tractable Algorithms, and Some Special Cases Mathias Weller,Annie Chateau,Clément Dallard,Rodolphe Giroudeau Algorithmica, 2018, 80 (6), pp.1771-1803. ⟨10.1007/s00453-018-0405-x⟩ Article dans une revue hal-01833303v1
Aligning the unalignable: bacteriophage whole genome alignments Sèverine Bérard,Annie Chateau,Nicolas Pompidor,Paul Guertin,Anne Bergeronet al. BMC Bioinformatics, 2016, 17 (1), pp.30-43. ⟨10.1186/s12859-015-0869-5⟩ Article dans une revue lirmm-01275670v1
Exact approaches for scaffolding Mathias Weller,Annie Chateau,Rodolphe Giroudeau BMC Bioinformatics, 2015, 16 (Suppl 14), pp.S2. ⟨10.1186/1471-2105-16-S14-S2⟩ Article dans une revue lirmm-01219627v1
Ancestral gene synteny reconstruction improves extant species scaffolding Yoann Anselmetti,Vincent Berry,Cedric Chauve,Annie Chateau,Eric Tannieret al. BMC Genomics, 2015, 16 (Suppl 10), pp.S11. ⟨10.1186/1471-2164-16-S10-S11⟩ Article dans une revue hal-01180303v2
A complexity and approximation framework for the maximization scaffolding problem Annie Chateau,Rodolphe Giroudeau Theoretical Computer Science, 2015, 595, pp.92-106. ⟨10.1016/j.tcs.2015.06.023⟩ Article dans une revue lirmm-01219622v1
An improved genome of the model marine alga [i]Ostreococcus tauri[/i] unfolds by assessing Illumina [i]de novo[/i] assemblies Romain Blanc Mathieu,Bram Verhelst,Evelyne Derelle,Stephane Rombauts,Francois-Yves Bougetet al. BMC Genomics, 2014, 15, pp.1-11. ⟨10.1186/1471-2164-15-1103⟩ Article dans une revue hal-01130514v1
Computation of Perfect DCJ Rearrangement Scenarios with Linear and Circular Chromosomes Sèverine Bérard,Annie Chateau,Cedric Chauve,Christophe Paul,Eric Tannier Journal of Computational Biology, 2009, 16 (10), pp.1287-1309. ⟨10.1089/cmb.2009.0088⟩ Article dans une revue lirmm-00432670v1

Communication dans un congrès (29)

Linearizing Genomes: Exact Methods and Local Search Tom Davot,Annie Chateau,Rodolphe Giroudeau,Mathias Weller SOFSEM 2020 - 46th International Conference on Current Trends in Theory and Practice of Informatics, Jan 2020, Limassol, Cyprus. pp.505-518, ⟨10.1007/978-3-030-38919-2_41⟩ Communication dans un congrès lirmm-02332049v2
South Green resources to manage Rice Big Genomics Data [W682] Clément Agret,Celine Gottin,Alexis Dereeper,Christine Tranchant-Dubreuil,Annie Chateauet al. Plant and Animal Genome, Jan 2020, San Diego, United States. pp.302-302 Communication dans un congrès hal-05174640v1
Power Edge Set and Zero Forcing Set Remain Difficult in Cubic Graphs Pierre Cazals,Benoit Darties,Annie Chateau,Rodolphe Giroudeau,Mathias Weller IWOCA 2019 - 30th International Workshop on Combinatorial Algorithms, Jul 2019, Pisa, Italy. pp.122-135, ⟨10.1007/978-3-030-25005-8_11⟩ Communication dans un congrès hal-02359076v1
Weighted minimum-length rearrangement scenarios Pijus Simonaitis,Annie Chateau,Krister M. Swenson WABI 2019 - 19th International Workshop on Algorithms in Bioinformatics, Sep 2019, Niagara Falls, NY, United States. pp.13:1-13:17, ⟨10.4230/LIPIcs.WABI.2019.13⟩ Communication dans un congrès lirmm-02410451v1
New Polynomial-Time Algorithm around the Scaffolding Problem Tom Davot,Annie Chateau,Rodolphe Giroudeau,Mathias Weller AlCoB 2019 - 6th International Conference on Algorithms for Computational Biology, May 2019, Berkeley, United States. pp.25-38, ⟨10.1007/978-3-030-18174-1_2⟩ Communication dans un congrès lirmm-02047701v1
Improved Complexity for Power Edge Set Problem Benoit Darties,Annie Chateau,Rodolphe Giroudeau,Mathias Weller IWOCA: International Workshop on Combinatorial Algorithms, Jul 2017, Newcastle, Australia. pp.128-141, ⟨10.1007/978-3-319-78825-8_11⟩ Communication dans un congrès hal-01715909v1
On the hardness of approximating Linearization of Scaffolds sharing Repeated Contigs Tom Davot,Annie Chateau,Rodolphe Giroudeau,Mathias Weller RECOMB-CG: Comparative Genomics, Oct 2018, Magog-Orford, QC, Canada. pp.91-107, ⟨10.1007/978-3-030-00834-5_5⟩ Communication dans un congrès lirmm-01900395v2
New Results About the Linearization of Scaffolds Sharing Repeated Contigs Dorine Tabary,Tom Davot,Mathias Weller,Annie Chateau,Rodolphe Giroudeau COCOA 2018 - 12th International Conference on Combinatorial Optimization and Applications, Sep 2018, Atlanta, GA, United States. pp.94-107, ⟨10.1007/978-3-030-04651-4_7⟩ Communication dans un congrès lirmm-01900389v2
A General Framework for Genome Rearrangement with Biological Constraints Pijus Simonaitis,Annie Chateau,Krister M. Swenson RECOMB-CG: Comparative Genomics, Oct 2018, Magog-Orford, QC, Canada. pp.49-71, ⟨10.1007/978-3-030-00834-5_3⟩ Communication dans un congrès lirmm-02067487v1
Surveiller un réseau électrique en plaçant des dispositifs sur ses liens : un problème difficile Annie Chateau,Benoit Darties,Rodolphe Giroudeau,Mathias Weller AlgoTel: Aspects Algorithmiques des Télécommunications, May 2017, Quiberon, France Communication dans un congrès hal-01516931v1
New Insights for Power Edge Set Problem Benoit Darties,Annie Chateau,Rodolphe Giroudeau,Mathias Weller COCOA: Conference on Combinatorial Optimization and Applications, Dec 2017, Shanghai, China. pp.180-194, ⟨10.1007/978-3-319-71150-8_17⟩ Communication dans un congrès lirmm-01672895v1
Measuring Differences To Compare Sets Of Models And Improve Diversity In MDE Adel Ferdjoukh,Florian Galinier,Eric Bourreau,Annie Chateau,Clémentine Nebut ICSEA: International Conference on Software Engineering Advances, Oct 2017, Athenes, Greece Communication dans un congrès hal-01586827v1
On the Linearization of Scaffolds Sharing Repeated Contigs Mathias Weller,Annie Chateau,Rodolphe Giroudeau COCOA: Conference on Combinatorial Optimization and Applications, Dec 2017, Shanghai, China. pp.509-517, ⟨10.1007/978-3-319-71147-8_38⟩ Communication dans un congrès lirmm-01672893v1
Une modélisation par Contrainte de graphe pour résoudre l’échafaudage de génome Eric Bourreau,Annie Chateau,Rodolphe Giroudeau,Clément Dallard ROADEF 2017 - 18e Congrès de la Société Française de Recherche Opérationnelle et d'Aide à la Décision, Feb 2017, Metz, France Communication dans un congrès lirmm-01875591v1
A Graph Constraints Formulation for Contigs Scaffolding Eric Bourreau,Annie Chateau,Clément Dallard,Rodolphe Giroudeau WCB: Workshop on Constraint-Based Methods for Bioinformatics, Sep 2016, Toulouse, France. pp.136-149 Communication dans un congrès lirmm-01360463v1
Comment la reconstruction de génomes ancestraux peut aider à l'assemblage de génomes actuels Yoann Anselmetti,Vincent Berry,Cedric Chauve,Annie Chateau,Eric Tannieret al. Journées Ouvertes Biologie Informatique Mathématiques, 2016, Lyon, France Communication dans un congrès hal-01394409v1
Instance Guaranteed Ratio on Greedy Heuristic for Genome Scaffolding Clément Dallard,Mathias Weller,Annie Chateau,Rodolphe Giroudeau COCOA: Conference on Combinatorial Optimization and Applications, Dec 2016, Hong Kong, China. pp.294-308, ⟨10.1007/978-3-319-48749-6_22⟩ Communication dans un congrès lirmm-01378584v1
A Model-Driven Approach to Generate Relevant and Realistic Datasets Adel Ferdjoukh,Eric Bourreau,Annie Chateau,Clémentine Nebut SEKE: Software Engineering and Knowledge Engineering, Jul 2016, Redwood City, San Francisco Bay, United States. pp.105-109, ⟨10.18293/SEKE2016-029⟩ Communication dans un congrès lirmm-01397311v1
Genetic Algorithm to Improve Diversity in MDE Florian Galinier,Eric Bourreau,Annie Chateau,Adel Ferdjoukh,Clémentine Nebut META: Metaheuristics and Nature Inspired Computing, Oct 2016, Marrakech, Morocco Communication dans un congrès lirmm-01397321v1
On Residual Approximation in Solution Extension Problems Mathias Weller,Annie Chateau,Rodolphe Giroudeau,Jean-Claude König,Valentin Pollet COCOA: Conference on Combinatorial Optimization and Applications, Dec 2016, Hong Kong, China. pp.463-476, ⟨10.1007/978-3-319-48749-6_34⟩ Communication dans un congrès lirmm-01378581v1
Instantiation of meta-models constrained with OCL: A CSP approach Adel Ferdjoukh,Anne-Elisabeth Baert,Eric Bourreau,Annie Chateau,Remi Colettaet al. MODELSWARD: Model-Driven Engineering and Software Development, Feb 2015, Angers, France. pp.213-222, ⟨10.5220/0005231402130222⟩ Communication dans un congrès lirmm-01232891v1
On the Complexity of Scaffolding Problems: From Cliques to Sparse Graphs Mathias Weller,Annie Chateau,Rodolphe Giroudeau COCOA: Conference on Combinatorial Optimization and Applications, Dec 2015, Houston, United States. pp.409-423, ⟨10.1007/978-3-319-26626-8_30⟩ Communication dans un congrès lirmm-01250982v1
Complexity and Polynomial-Time Approximation Algorithms around the Scaffolding Problem Annie Chateau,Rodolphe Giroudeau AlCoB: Algorithms for Computational Biology, Jul 2014, Tarragona, Spain. pp.47-58, ⟨10.1007/978-3-319-07953-0_4⟩ Communication dans un congrès lirmm-01007556v1
An integer linear programming approach for genome scaffolding Nicolas Briot,Annie Chateau,Remi Coletta,Simon de Givry,Philippe Leleuxet al. WCB: Workshop on Constraint-Based Methods for Bioinformatics, Sep 2014, Lyon, France. 16 p Communication dans un congrès hal-01198359v1
A CSP Approach for Metamodel Instantiation Adel Ferdjoukh,Anne-Elisabeth Baert,Annie Chateau,Remi Coletta,Clémentine Nebut ICTAI: International Conference on Tools with Artificial Intelligence, Nov 2013, Washington, United States. pp.1044-1051, ⟨10.1109/ICTAI.2013.156⟩ Communication dans un congrès lirmm-01007571v1
Approximate Common Intervals in Multiple Genome Comparison Pierre Riou,Eric Rivals,Annie Chateau BIBM'11: Bioinformatics and Biomedicine, Nov 2011, Atlanta, United States. pp.131-134, ⟨10.1109/BIBM.2011.96⟩ Communication dans un congrès lirmm-00659473v1
Perfect DCJ rearrangement Annie Chateau,Cedric Chauve,Sèverine Bérard,Eric Tannier,Christophe Paul RECOMB-CG: Comparative Genomics, Oct 2008, Paris, France. pp.158-169, ⟨10.1007/978-3-540-87989-3_12⟩ Communication dans un congrès lirmm-00327258v1
Exploring Genome Rearrangements using Virtual Hybridization Mahdi Belcaid,Anne Bergeron,Annie Chateau,Cedric Chauve,Yannick Gingraset al. APBC'07: 5th Asia-Pacific Bioinformatics Conference, Jan 2007, Hong Kong, China. pp.205-214 Communication dans un congrès lirmm-00203873v1
Inferring Positional Homologs with Common Intervals of Sequences Guillaume Blin,Annie Chateau,Cedric Chauve,Yannick Gingras 4th Annual RECOMB Satellite Workshop on Comparative Genomics (RECOMB-CG'06), Sep 2006, Montreal, Canada. pp.24-38 Communication dans un congrès hal-00620367v1

Poster de conférence (1)

Resources to manage Rice Big Genomics Data Clément Agret,Celine Gottin,Alexis Dereeper,Christine Tranchant-Dubreuil,Annie Chateauet al. International Symposium of Rice Functional Genomics, Nov 2019, Taipei, Taiwan. ISFRG, 2019 Poster de conférence hal-05174377v1

Ouvrages (2)

From Sequences to Graphs: Discrete Methods and Structures for Bioinformatics Annie Chateau,Mikaël Salson Wiley, 2022, ⟨10.1002/9781394169641⟩ Ouvrages hal-03920813v1
Mathématiques pour l'agrégation Olivier Teytaud,Christophe Antonini,Pierre Borgnat,Annie Chateau,Edouard Lebeau Dunod, pp.736, 2007 Ouvrages inria-00173250v1

Pré-publication, Document de travail (2)

Evaluating K-Mer Transformations for Cache Coherence and Uniformity Clement Agret,Camille Marchet,Annie Chateau,Alban Mancheron,Antoine Limasset 2025 Pré-publication, Document de travail lirmm-04975743v1
RedOak: a reference-free and alignment-free structure for indexing a collection of similar genomes Clément Agret,Annie Chateau,Gaëtan Droc,Gautier Sarah,Alban Mancheronet al. 2021 Pré-publication, Document de travail lirmm-03117453v1

Thèse (1)

Utilisation des destinées pour la décision et sa complexité dans le cas de formules à profondeur de quantification bornée sur des structures logiques finies et infinies Annie Chateau Mathématiques [math]. Université d'Auvergne - Clermont-Ferrand I, 2003. Français. ⟨NNT : ⟩ Thèse tel-00011983v1