david allouche
51
Documents
Publications
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Bi-Objective Discrete Graphical Model OptimizationThe 21st International Conference on the Integration of Constraint Programming, Artificial Intelligence, and Operations Research, May 2024, Uppsala (Suède), Sweden
Conference papers
hal-04556832v1
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Side chain positioning optimization under Cryo-EM constraints based on cost-function networkEnergy Landscape Theory and Application 2023, inria, Jun 2023, Porquerolles (Var), France
Conference papers
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Cost function network for molecular design an IA method for discret search space explorationSymposium on Molecular Design and Bioinformatics 2019 (SEADIM), Jun 2019, Santa María Key, Cuba
Conference papers
hal-02734749v1
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Pourquoi les MATH et l’intelligence artificielle sont important pour comprend et améliorer le fonctionnement de protéine ?Fête de la science, Oct 2018, Castanet-Tolosan, France. 18 p
Conference papers
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Recent algorithmic advances for combinatorial optimization in graphical models23rd International Symposium on Mathematical Programming (ISMP-18), Jul 2018, Bordeaux, France. 80 p
Conference papers
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Recherche complète à voisinages variables guidée par la décomposition arborescente pour la minimisation d'énergie dans les modèles graphiques9e Journées Francophones sur les Réseaux Bayésiens et les Modèles Graphiques Probabilistes 2018 (JFRB 2018), May 2018, Toulouse, France. 114 p., ⟨10.3166/RIA.-.1-7⟩
Conference papers
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Constraint Programming and Graphical models - Pushing data into your models, The protein design case.23rd International Symposium on Mathematical Programming (ISMP-18), Jul 2018, Bordeaux, France
Conference papers
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Euclidean Variable Neighborhood Search: A method for large computation protein designDeciphering complex energy landscape and kinetic network from single molecules to cells: a new challenge to make theories meet experiments, Sep 2017, Dijon, France
Conference papers
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Iterative Decomposition Guided Variable Neighborhood Search for Graphical Model Energy MinimizationConference on Uncertainty in Artificial Intelligence (UAI'17), Aug 2017, Sydney, Australia. 10 p
Conference papers
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Iterative Decomposition Guided Variable Neighborhood Search for Graphical Model Energy MinimizationConference on Uncertainty in Artificial Intelligence, UAI 2017, Aug 2017, Sydney, Australia
Conference papers
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Computational Enzyme Design through deterministic optimization and counting3DSig Structural Bioinformatics and Computational Biophysics 2015, Jul 2015, Dublin, Ireland
Conference papers
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Approximate counting with deterministic guarantees for affinity computation3. International Conference on Modelling, Computation and Optimization in Information Systems and Management Sciences - MCO 2015, Université de Lorraine (UL). FRA., May 2015, Metz, France. 500 p., ⟨10.1007/978-3-319-18167-7_15⟩
Conference papers
hal-01269259v1
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Anytime hybrid best-first search with tree decomposition for weighted CSPCP 2015 - 21st International Conference on Principles and Practice of Constraint Programming, Aug 2015, Cork, Ireland. 17 p., ⟨10.1007/978-3-319-23219-5_2⟩
Conference papers
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An Experimental Evaluation of CP/AI/OR Solvers for Optimization in Graphical ModelsROADEF - 15ème congrès annuel de la Société française de recherche opérationnelle et d'aide à la décision, Société française de recherche opérationnelle et d'aide à la décision, Feb 2014, Bordeaux, France
Conference papers
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An experimental evaluation of CP/AI/OR solvers for optimization in graphical modelsCongrès ROADEF'2014, Feb 2014, Bordeaux, France. 1 p
Conference papers
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Une comparaison de logiciels d'optimisation sur une large collection de modèles graphiquesJFPC 2014 - Dixièmes Journées Francophones de Programmation par Contraintes, Jun 2014, Angers, France. 10 p
Conference papers
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A new framework for computational protein design through cost function network optimizationJOBIM 2013 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Société Française de Bio-Informatique (SFBI). FRA., Jul 2013, Toulouse, France. 2 p
Conference papers
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Computational protein design as a cost function network optimization problemSéminaire MOGISA du LAAS/CNRS, Centre National de la Recherche Scientifique (CNRS). FRA., Jun 2013, Toulouse, France
Conference papers
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Combining exact WCSP techniques and VNS search for solving MPEConference on Uncertainty in Artificial Intelligence (UAI'12), Aug 2012, Catalina Island, United States
Conference papers
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Filtering Decomposable Global Cost FunctionsAAAI Conference on Artificial Intelligence, Jul 2012, Toronto, ON, Canada
Conference papers
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Computational protein design as a cost function network optimization problemCP 2012 - 18th International Conference on Principles and Practice of Constraint Programming, Oct 2012, Québec, Canada. pp.10, ⟨10.1007/978-3-642-33558-7_60⟩
Conference papers
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Filtering decomposable global cost functionsTwenty-Sixth Conference on Artificial Intelligence, Jul 2012, Toronto, Canada. pp.7
Conference papers
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Filtrage de fonctions de coût globales décomposablesHuitièmes Journées Francophones de Programmation par Contraintes (JFPC), Association Française de Programmation par Contraintes (AFPC). FRA., May 2012, Toulouse, France. pp.358
Conference papers
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Filtrage de fonctions de coût globales décomposablesJFPC 2012 - 8es Journées Francophones de Programmation par Contraintes, May 2012, Toulouse, France
Conference papers
hal-00809789v1
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Towards parallel non serial dynamic programming for solving hard weighted CSP16th Annual International Conference on the Principles and Practice of Constraint Programming, Sep 2010, St. Andrews, Scotland, United Kingdom. pp.8, ⟨10.1007/978-3-642-15396-9_7⟩
Conference papers
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Sélection de tagSNP: une approche PLNECongrès ROADEF'2010, Feb 2010, Toulouse, France. pp.2
Conference papers
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Russian doll search with tree decomposition21st International Joint Conference on Artificial Intelligence, Jul 2009, Pasadena, United States. pp.6
Conference papers
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TagSNP selection using weighted CSP and russian doll search with tree decompositionCP-09 workshop on Constraint Based Methods for Bioinformatics, Sep 2009, Lisbonne, Portugal. pp.9
Conference papers
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Algorithme des Poupées Russes exploitant une décomposition arborescenteCinquièmes Journées Francophones de Programmation par Contraintes, Orléans, juin 2009, Jun 2009, France. pp.15-25
Conference papers
hal-00387845v1
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A Side-Chain Positioning program with electron density map constraints based on an exact optimization frameworkECCB 2022, Sep 2022, Sitges, Barcelona, Spain
Conference poster
hal-04799184v1
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Variable Neighborhood Search with Cost Function Networks to Solve Large Computational Protein Design ProblemsRencontre des Chimistes Théoriciens Francophones, Oct 2018, Toulouse, France. 2018
Conference poster
hal-02733727v1
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Cost Function Networks to Solve Large Computational Protein Design ProblemsMalek Masmoudi, Bassem Jarboui, Patrick Siarry. Operations Research and Simulation in healthcare, Springer, pp.81-102, 2021, 978-3-030-45223-0. ⟨10.1007/978-3-030-45223-0_4⟩
Book sections
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Deterministic search methods for computational protein designComputational Protein Design, Chapter 4, Editions Springer, 2017, Methods in Molecular Biology, 978-1-4939-6635-6. ⟨10.1007/978-1-4939-6637-0_4⟩
Book sections
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A panel of learning methods for the reconstruction of gene regulatory networks in a systems geneticsGene network inference, verification of methods for systems genetics data, Editions Springer, 130 p., 2013, 978-3-642-45161-4. ⟨10.1007/978-3-642-45161-4⟩
Book sections
hal-02808635v1
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BioMAJ : A workflow engine dedicated to biological bank management2007
Other publications
inria-00176506v1
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Étude du comportement de Calciprotéines à mains EF en présence de Ca2+ et Mg2+ à partir de trajectoires de dynamique moléculaire et de calculs de différences d'énergie libreSciences du Vivant [q-bio]. Université Paul Sabatier (Toulouse 3), 1997. Français. ⟨NNT : 1997TOU30301⟩
Theses
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