Johann Dreo

Expert Research Engineer, Institut Pasteur
61
Documents
Affiliation actuelle
  • Institut Pasteur [Paris] (IP)
Contact

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Publications

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Finding personalized drugs from the integration of clinical and molecular data into a semantic knowledge graph

Matthieu Najm , Marko Baric , Altti Ilari Maarala , Sebastian Lobentanzer , Jaana Oikkonen et al.

Molecular Analysis for Precision Oncology Congress, ESMO European Society For Medical Oncology, Sep 2025, Paris, France

Communication dans un congrès pasteur-05121971v1
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Analyzing Single-objective Black-box Optimization Algorithms Using the Empirical Attainment Function

Manuel López-Ibáñez , Diederick Vermetten , Johann Dreo , Carola Doerr

Genetic and Evolutionary Computation Conference, Association for Computing Machinery, Jul 2025, Malaga, Spain. ⟨10.1145/3712255.3734242⟩

Communication dans un congrès pasteur-05121863v1
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First High-Level Information Fusion Competition: Feedback and Lessons Learned

Claire Laudy , Victoria Alonso , Céline Reverdy , Johann Dreo

28th Inernational Conference on Information Fusion, International Society of Information Fusion, Jul 2025, Rio de Janeiro, Brazil

Communication dans un congrès pasteur-05121854v1
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IA métissée : quand données et symboles s’enlacent

Johann Dreo

Pint of Science, May 2025, Paris, France

Communication dans un congrès pasteur-05101533v1
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Using OntoWeaver to Integrate Heterogeneous Information in the OncodashKB Semantic Knowledge Graph for Finding Personalized Actionable Drugs in Ovarian Cancer

Matthieu Najm , Marko Baric , Taru Muranen , Ekaterina Gaydukova , Altti Ilari Maarala et al.

JOBIM, Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2025, Bordeaux, France

Communication dans un congrès pasteur-05121901v1
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Exploring Explainable Treatments Hypotheses with the Oncodash Decision Support System

Johann Dreo , Altti Ilari Maarala , Taru Muranen , Matthieu Najm , Federico Bolelli et al.

Molecular Analysis for Precision Oncology Congress, ESMO European Society For Medical Oncology, Sep 2025, Paris, France

Communication dans un congrès pasteur-05121991v1
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Engaging the public in scientific research to enhance digital twins of the ocean and their practical applications

Luigi Ceccaroni , Stephen Parkinson , Dror Angel , Johann Dreo , Dori Edelist et al.

OCEAN, IEEE Oceanic Engineering Society, Jun 2025, Brest, France

Communication dans un congrès pasteur-05121951v1
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Intégration reproductible d'informations de haut niveau dans des graphes de connaissances sémantiques avec OntoWeaver et BioCypher, application en oncologie et en écologie

Johann Dreo , Claire Laudy , Sebastian Lobentanzer , Marko Baric , Ekaterina Gaydukova et al.

Journées ouvertes en biologie, informatique et mathématiques, Société Française de BioInformatique; Institut Français de Bioinformatique (IFB); Groupement de Recherche Bioinformatique Moléculaire (GDR BIM), Jun 2024, Toulouse, France

Communication dans un congrès pasteur-05101167v1
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High-level Biomedical Data Integration in a Semantic Knowledge Graph with OncodashKB for finding Personalized Actionable Drugs in Ovarian Cancer

Johann Dreo , Sebastian Lobentanzer , Ekaterina Gaydukova , Marko Baric , Altti Ilari Maarala et al.

Cancer Genomics, Multiomics and Computational Biology, European Association for Cancer Research, Apr 2024, Bergame, Italy

Communication dans un congrès hal-04509599v1

Ealain: A Camera Simulation Tool to Generate Instances for Multiple Classes of Optimisation Problem

Quentin Renau , Johann Dreo , Emma Hart

GECCO '24 Companion: Genetic and Evolutionary Computation Conference Companion, Association for Computing Machinery, Jul 2024, Melbourne VIC Australia, France. pp.151-154, ⟨10.1145/3638530.3654299⟩

Communication dans un congrès pasteur-05122017v1
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Interplay of Human and AI Solvers on a Planning Problem

Afshin Ameri E. , Branko Miloradovic , Baran Çürüklü , Alessandro Vittorio Papadopoulos , Mikael Ekström et al.

IEEE International Conference on Systems, Man, and Cybernetics (SMC), IEEE SMC Society, Oct 2023, Maui (Hawaii), United States

Communication dans un congrès hal-04116806v1
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Consistent Symbolic Data Integration with OntoWeaver

Johann Dreo

Journée annuelle du groupe de travail sur la biologie systémique symbolique (GT BIOSS), CNRS, Nov 2023, Lille, France

Communication dans un congrès pasteur-05101157v1
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Tackling Threatening behavior through a Semantic Approach

Claire Laudy , Simon Fossier , Johann Dreo

25th International Conference on Information Fusion (FUSION), International Society of Information Fusion, Jul 2022, Linköping, Sweden. ⟨10.23919/FUSION49751.2022.9841333⟩

Communication dans un congrès hal-04128705v1
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Statistical Discovery of Transcriptomic Cancer Signatures using Multimodal Local Search

Emile Zakiev , Johann Dreo , Mara Santarelli , Benno Schwikowski

PGMO Days, Programme Gaspard Monge pour l’Optimisation, la recherche opérationnelle et leurs interactions avec les sciences des données., Nov 2022, Palaiseau, France

Communication dans un congrès hal-04110700v1
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Automated Algorithm Selection for Radar Network Configuration

Quentin Renau , Johann Dreo , Alain Peres , Yann Semet , Carola Doerr et al.

GECCO '22: Genetic and Evolutionary Computation Conference, Jul 2022, Boston, United States. ⟨10.1145/3512290.3528825⟩

Communication dans un congrès hal-03718883v1
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Paradiseo: From a Modular Framework for Evolutionary Computation to the Automated Design of Metaheuristics

Johann Dreo , Arnaud Liefooghe , Sébastien Verel , Marc Schoenauer , Juan J. Merelo et al.

GECCO 2021 - Genetic and Evolutionary Computation Conference, ACM Sigevo, Jul 2021, Lille / Virtual, France. pp.1522-1530, ⟨10.1145/3449726.3463276⟩

Communication dans un congrès pasteur-03220556v1
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Towards Explainable Exploratory Landscape Analysis: Extreme Feature Selection for Classifying BBOB Functions

Quentin Renau , Johann Dréo , Carola Doerr , Benjamin Doerr

Applications of Evolutionary Computation (EvoApplications 2021), Apr 2021, Sevilla (Virtual), Spain. pp.17-33, ⟨10.1007/978-3-030-72699-7_2⟩

Communication dans un congrès hal-03233676v1
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Towards Large Scale Automated Algorithm Design by Integrating Modular Benchmarking Frameworks

Amine Aziz-Alaoui , Carola Doerr , Johann Dreo

Genetic and Evolutionary Computation Conference (GECCO 2021), Jul 2021, Lille, France. ⟨10.1145/3449726.3463155⟩

Communication dans un congrès hal-03233932v1
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Exploratory Landscape Analysis is Strongly Sensitive to the Sampling Strategy

Quentin Renau , Carola Doerr , Johann Dreo , Benjamin Doerr

Parallel Problem Solving from Nature – PPSN XVI (PPSN 2020), Sep 2020, Leiden, Netherlands. pp.139-153, ⟨10.1007/978-3-030-58115-2_10⟩

Communication dans un congrès hal-02935385v1
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Making a case for (Hyper-)parameter tuning as benchmark problems

Carola Doerr , Johann Dréo , Pascal Kerschke

Genetic and Evolutionary Computation Conference, Companion Material, Jul 2019, Prague, Czech Republic. pp.1755-1764, ⟨10.1145/3319619.3326857⟩

Communication dans un congrès hal-02179587v1
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Netted Multi-Function Radars Positioning and Modes Selection by Non-Holonomic Fast Marching Computation of Highest Threatening Trajectories & by CMA-ES Optimization

Johann Dreo , François Desquilbet , Frederic Barbaresco , Jean-Marie Mirebeau

2019 International Radar Conference (RADAR), Sep 2019, TOULON, France. pp.1-6, ⟨10.1109/RADAR41533.2019.171285⟩

Communication dans un congrès hal-03030426v1
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Expressiveness and robustness of landscape features (student workshop paper)

Quentin Renau , Johann Dréo , Carola Doerr , Benjamin Doerr

Genetic and Evolutionary Computation Conference, Companion Material, Jul 2019, Prague, Czech Republic. pp.2048-2051, ⟨10.1145/3319619.3326913⟩

Communication dans un congrès hal-02179612v1
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Coupling the design of benchmark with algorithm in landscape-aware solver design

Johann Dréo , Carola Doerr , Yann Semet

Genetic and Evolutionary Computation Conference, Companion Material, Jul 2019, Prague, Czech Republic. pp.1419-1420, ⟨10.1145/3319619.3326821⟩

Communication dans un congrès hal-02179604v1
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Automatic differentiation of non-holonomic fast marching for computing most threatening trajectories under sensors surveillance

Jean-Marie Mirebeau , Johann Dreo

International Conference on Geometric Science of Information, Nov 2017, Paris, France. pp.791-800

Communication dans un congrès hal-01503607v1
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Per instance algorithm configuration of CMA-ES with limited budget

Nacim Belkhir , Johann Dreo , Pierre Savéant , Marc Schoenauer

GECCO 2017 - Proceedings of the Genetic and Evolutionary Computation Conference , Jul 2017, Berlin, Germany. pp. 681-688

Communication dans un congrès hal-01613753v1
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Feature Based Algorithm Configuration: A Case Study with Differential Evolution

Nacim Belkhir , Johann Dréo , Pierre Savéant , Marc Schoenauer

Parallel Problem Solving from Nature – PPSN XIV, Sep 2016, Edinburgh, United Kingdom. pp.156-165, ⟨10.1007/978-3-319-45823-6_15⟩

Communication dans un congrès hal-01359539v1
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Parameter Setting for Multicore CMA-ES with Large Populations

Nacim Belkhir , Johann Dréo , Pierre Savéant , Marc Schoenauer

Artificial Evolution (EA 2015), Oct 2015, Lyon, France. pp.109-122

Communication dans un congrès hal-01236025v1
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Surrogate Assisted Feature Computation for Continuous Problems

Nacim Belkhir , Johann Dréo , Pierre Savéant , Marc Schoenauer

LION 10 Learning and Intelligent OptimizatioN Conference, May 2016, Ischia, Italy. To appear

Communication dans un congrès hal-01303320v2
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Solving Large MultiZenoTravel Benchmarks with Divide-and-Evolve

Alexandre Quemy , Marc Schoenauer , Vincent Vidal , Johann Dréo , Pierre Savéant

Learning and Intelligent OptimizatioN - LION 9, Jan 2015, Lille, France. pp.262-267

Communication dans un congrès hal-01109776v1
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Applying MapReduce principle to High level information fusion

Claire Laudy , Johann Dreo , Christophe Gouguenheim

17th International Conference on Information Fusion, International Society on Information Fusion, Jul 2014, Salamanca, Spain. pp.1--8

Communication dans un congrès hal-04139064v1
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Multi-Objective AI Planning: Evaluating DAE-YAHSP on a Tunable Benchmark

Mostepha Redouane Khouadjia , Marc Schoenauer , Vincent Vidal , Johann Dréo , Pierre Savéant

EMO'13 - 7th International Conference on Evolutionary Multi-Criterion Optimization, Mar 2013, Sheffield, United Kingdom. pp.36-50

Communication dans un congrès hal-00750560v1
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Multi-Objective AI Planning: Comparing Aggregation and Pareto Approaches

Mostepha Redouane Khouadjia , Marc Schoenauer , Vincent Vidal , Johann Dréo , Pierre Savéant

EvoCOP -- 13th European Conference on Evolutionary Computation in Combinatorial Optimisation, Apr 2013, Vienne, Austria. pp.202-213, ⟨10.1007/978-3-642-37198-1_18⟩

Communication dans un congrès hal-00820634v1
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Quality Measures of Parameter Tuning for Aggregated Multi-Objective Temporal Planning

Mostepha Redouane Khouadjia , Marc Schoenauer , Vincent Vidal , Johann Dréo , Pierre Savéant

LION7 - Learning and Intelligent OptimizatioN Conference, Jan 2013, Catane, Italy. pp.341-356

Communication dans un congrès hal-00820617v1
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Pareto-Based Multiobjective AI Planning

Mostepha Redouane Khouadjia , Marc Schoenauer , Vincent Vidal , Johann Dréo , Pierre Savéant

IJCAI 2013, IJCAI/AAAI, Aug 2013, Beijing, China. pp.2321-2327

Communication dans un congrès hal-00835003v2
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Using the Empirical Attainment Function for Analyzing Single-objective Black-box Optimization Algorithms

Manuel López-Ibáñez , Diederick Vermetten , Johann Dreo , Carola Doerr

IEEE Transactions on Evolutionary Computation, 2025, 29 (5), pp.1774-1782. ⟨10.1109/TEVC.2024.3462758⟩

Article dans une revue hal-04759430v1
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Partial differential equations and variational methods for geometric processing of images

Blanche Buet , Jean-Marie Mirebeau , Yves van Gennip , François Desquilbet , Johann Dreo et al.

SMAI Journal of Computational Mathematics, 2019, S5, pp.109-128. ⟨10.5802/smai-jcm.55⟩

Article dans une revue hal-03030417v1

Line formation algorithm in a swarm of reactive robots constrained by underwater environment

Thomas Sousselier , Johann Dréo , Marc Sevaux

Expert Systems with Applications, 2015, 42, pp.5117-5127. ⟨10.1016/j.eswa.2015.02.040⟩

Article dans une revue istex hal-01120038v1

ADAPTIVE LEARNING SEARCH, A NEW TOOL TO HELP COMPREHENDING METAHEURISTICS

Johann Dréo , Jean-Philippe Aumasson , Walid Tfaili , Patrick Siarry

International Journal on Artificial Intelligence Tools, 2006, 16 (03), pp.483-505. ⟨10.1142/s0218213007003370⟩

Article dans une revue hal-05337341v1

Robust rigid registration of retinal angiograms through optimization.

Johann Dréo , Jean-Claude Nunes , Patrick Siarry

Computerized Medical Imaging and Graphics, 2006, 30 (8), pp.453-63. ⟨10.1016/j.compmedimag.2006.07.004⟩

Article dans une revue istex inserm-00174430v1

RETINAL ANGIOGRAM REGISTRATION BY ESTIMATION OF DISTRIBUTION ALGORITHM

Johann Dréo , Jean-Claude Nunes , Pierre Truchetet , Patrick Siarry

IFAC Proceedings Volumes, 2006, 39 (18), pp.29-34. ⟨10.3182/20060920-3-fr-2912.00010⟩

Article dans une revue hal-05336730v1
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Mathematical Optimization with Stochastic Metaheuristics

Johann Dreo

Institut Pasteur's Computational Biology Department Seminars, Mar 2024, Paris, France

Poster de conférence pasteur-05122204v1
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Randomized Optimization Framework tailored for Benchmarking & Auto-Design

Johann Dreo

Benchmarked workshop, May 2022, Leiden, France. 2022

Poster de conférence hal-04110712v1
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UNIX Shell Cheatsheet

Johann Dréo

Computational Systems Biomedicine Seminars, Nov 2022, Paris, France

Poster de conférence hal-04118265v1
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Using Irace, Paradiseo and IOHprofiler for Large-Scale Algorithm Configuration

Johann Dreo , Carola Doerr , Amine Aziz-Alaoui , Alix Zheng

8th COSEAL workshop, Sep 2021, Online, France. 2021

Poster de conférence hal-04110704v1
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Quantile-like measures on multi-dimensional distributions of closed sets

Johann Dreo

Doctoral. Innovation, Design, and Engineering, Västerås [Sweden], France. 2023

Cours hal-04110682v1
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De la planification centralisée à l’intelligence en essaim avec des drones

Johann Dreo

DEUG. Startech, Paris, France. 2022, pp.27

Cours hal-04110668v1
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Feedback on the use of PDDL solvers in an industrial R&D context

Johann Dreo

Doctoral. Innovation, Design, and Engineering, Västerås [Sweden], France. 2022

Cours hal-04110686v1
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AutoML for Bioinformatics

Johann Dréo

Doctoral. Computational Biology Seminars, France. 2022, pp.31

Cours hal-04125770v1
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Practical Tools for Improving Reproducibility (of Bioinformatics)

Johann Dreo

Doctoral. Precision Medicine at the Interface of Translational Research and Systems Medicine, Paris, France. 2021, pp.37

Cours hal-04127255v1

Les fourmis artificielles pour l'optimisation en variables continues

Patrick Siarry , Johann Dréo , Nicolas Monmarché

Nicolas Monmarché, Frédéric Guinand and Patrick Siarry. Fourmis artificielles, des bases de l'optimisation aux applications industrielles, volume 1, Hermès-Lavoisier, chap. 4, 2009

Chapitre d'ouvrage hal-01067298v1

Stochastic Metaheuristics as Sampling Techniques using Swarm Intelligence

Johann Dreo , Patrick Siarry

Swarm Intelligence, Focus on Ant and Particle Swarm Optimization, I-Tech Education and Publishing, 2007, 978-3-902613-09-7. ⟨10.5772/5105⟩

Chapitre d'ouvrage hal-05337438v1