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Damien Eveillard
Systems biology, Systems Ecology & Computational Biology
115
Documents
Presentation
I try to represent the behavior of living systems on different scales by various modeling approaches based on constraint programming. In my opinion, a living system should be formalized as an hybrid automaton under constraints.
My biological studies concern biological systems from molecular to ecological scales, with a special emphasis on marine systems.
I try to represent the behavior of living systems on different scales by various modeling approaches based on constraint programming. In my opinion, a living system should be formalized as an hybrid automaton under constraints.
My biological studies concern biological systems from molecular to ecological scales, with a special emphasis on marine systems.
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Artificial Intelligence, Machine Learning and Modeling for Understanding the Oceans and Climate ChangeNeurIPS 2020 Workshop - Tackling Climate Change with Machine Learning, Dec 2020, Santiago / Virtual, Chile
Conference papers
hal-03138712v1
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From plankton functional traits to marine ecosystem functions: Assessing functional diversity of plankton communities from high throughput -omics data and its impact on oceanic biogeochemical cyclesFunctional Ecology Conference, 2018, Nancy, France
Conference papers
hal-04024046v1
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Toward a better understanding of the plant microbiota4ème colloque de Génomique Environnementale, GDR Génomique Environnementale, Sep 2017, Marseille, France
Conference papers
hal-01576743v1
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Plankton networks correlated to the biological carbon pump in the global oceanJournée analyse des réseau, GDR génomique environnementale, 2017, Nantes, France
Conference papers
hal-04024048v1
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OPINION PAPER Evolutionary Constraint-Based Formulation Requires New Bi-level Solving Techniques13th International Conference on Computational Methods in Systems Biology CMSB 2015, Sep 2015, Nantes, France. pp.279-281, ⟨10.1007/978-3-319-23401-4_23⟩
Conference papers
hal-02464859v1
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Revealing and analyzing networks of marine microbial ecosystemsConférence Jacques Monod - Marine Ecosystems Biology, 2015, Roscoff, France
Conference papers
hal-01176727v1
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Extending the Metabolic Network of Ectocarpus Siliculosus using Answer Set ProgrammingLPNMR - 12th Conference on Logic Programming and Nonmonotonic Reasoning - 2013, Sep 2013, Corunna, Spain
Conference papers
hal-00853752v1
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Extending the Metabolic Network of Ectocarpus Siliculosus Using Answer Set ProgrammingLPNMR, 2013, ⟨10.1007/978-3-642-40564-8_25⟩
Conference papers
hal-02745669v1
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An ASP application in integrative biology: identification of functional gene unitsLPNMR - 12th Conference on Logic Programming and Nonmonotonic Reasoning - 2013, Sep 2013, Corunna, Spain
Conference papers
hal-00853762v1
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Systems biology approaches at cellular level in the model organism Ectocarpus siliculosus to better understand brown algal physiologyEsil 2012: algal post-genomics, Apr 2012, Roscoff, France
Conference papers
hal-00760640v1
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Integration of omics data to investigate common intervals1st International Conference on Bioscience, Biochemistry and Bioinformatics (ICBBB 2011), 2011, Singapore, Singapore. pp.101-105
Conference papers
hal-00606226v1
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SIPPER: A flexible method to integrate heterogeneous data into a metabolic networkComputational Advances in Bio and Medical Sciences (ICCABS), 2011 IEEE 1st International Conference on, Feb 2011, Orlando, United States. pp.40 - 45, ⟨10.1109/ICCABS.2011.5729937⟩
Conference papers
hal-00585102v1
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Including Ordinary Differential Equations Based Constraints in the Standard CP FrameworkPrinciples and Practice of Constraint Programming, CP2010, Sep 2010, St Andrews, United Kingdom. pp.221--235
Conference papers
hal-00520054v1
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Comparing Bacterial Genomes by Searching their Common Intervals1st International Conference on Bioinformatics and Computational Biology (BICoB 2009), 2009, New Orleans, United States. pp.102-113, ⟨10.1007/978-3-642-00727-9_12⟩
Conference papers
hal-00416466v1
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Constraints Programming for Unifying Gene Regulatory Networks Modeling ApproachesWorkshop on Constraint Based Methods for Bioinformatics (WCB08), 2008, Paris, France. pp.10
Conference papers
hal-00277104v1
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Building and analysing an integrative model of HIV-1 RNA alternative splicingInternational Conference on Computational Methods in Systems Biology - CMSB 2004, May 2004, Paris/France, pp.43--57, ⟨10.1007/b107287⟩
Conference papers
inria-00000917v1
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KOALAB: A new method for regulatory motif search. Illustration on alternative splicing regulation in HIV-15èmes Journées Ouvertes Biologie Informatique Mathématiques - JOBIM 2004, Jun 2004, Montréal, Canada
Conference papers
inria-00000915v1
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Hybrid concurrent constraint programming: A well-suited formalism for modelling alternative splicing regulation (Abstract)Modeling and Simulation of Biological Regulatory Processes - ECCB Satellite Meeting, 2003, Paris, France
Conference papers
inria-00099705v1
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Multiscale modeling of alternative splicing regulationInternational Workshop on Computational Methods in Systems Biology - CMSB'03, 2003, Rovereto, Italie, pp.75-87
Conference papers
inria-00099792v1
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Traitement statistique des résultats SELEXJournées Ouvertes en Biologie Informatiques et Mathématiques - JOBIM 2002, Jacques Nicolas & Claude Thermes, Jun 2002, Saint Malo - France, pp.277--283
Conference papers
inria-00000918v1
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PhotoEukStein opens doors to the metabolism of eukaryotic-algaeISME18, Aug 2022, Lausanne, Switzerland
Conference poster
hal-04384915v1
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Assessing functional diversity of plankton communities from high throughput –omics dataColloque de Bilan et de Prospective du programme LEFE, Mar 2018, Clermont-Ferrand, France. 2018
Conference poster
hal-04021818v1
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Les microbiomes de l'océan : une démarche à haut débit pour une compréhension globale et systémiqueLaurent Palka. Microbiodiversité : un nouveau regard, 161 - 185, editions matériologiques, 2018
Book sections
hal-01996304v1
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L'écologie des systèmesMokrane Bouzeghoub et Rémy Mosseri. Les Big Data à Découvert, CNRS éditions, 2017, 978-2-271-11464-8
Book sections
hal-01575603v1
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L’écologie des systèmesCNRS éditions. Les big data à découvert, Mokrane Bouzeghoub et Rémy Mosseri, 2017, 978-2-271-11464-8
Book sections
hal-02389705v1
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Modeling and predicting behaviors and dynamics of ecosystemsInsight on environmental genomics, the high-throughput sequencing revolution, 2016
Book sections
hal-03823723v1
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Modélisation et prédiction du fonctionnement et de la dynamique des écosystèmesLa génomique environnemetale : la révolution du séquençage à haut débit, 2016
Book sections
hal-01777358v1
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XII Des données haut-débit à la modélisation des écosystèmesBook sections hal-01176570v1 |
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Ecologie prédictive & changement planétaireThiébault; Stéphanie and Hadi; Halima. Prospective de l'Institut écologie & environnement du CNRS, hors s\'{e}rie, Institut écologie & environnement du CNRS, pp.9-44, 2013
Book sections
hal-01911607v1
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Probabilistic Approaches for Investigating Biological NetworksMourad Elloumi, Albert Y. Zomaya. Algorithms in Computational Molecular Biology: Techniques, Approaches and Applications, Wiley, pp.1066, 2011
Book sections
hal-00531568v1
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MeDUSA: a sage-based tool for computing the stoichiometric capacitance of a metabolic network2013
Reports
hal-00839321v1
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A Multi-Site Constraint Programming Model of Alternative Splicing Regulation[Research Report] RR-4830, INRIA. 2003
Reports
inria-00071756v1
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Modeling the effects of SR proteins on alternative splicing[Intern report] A02-R-117 || eveillard02b, 2002, 8 p
Reports
inria-00101060v1
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Modélisation statistique et formelle de la régulation de l'épissage alternatifBiologie moléculaire. Université Henri Poincaré - Nancy 1, 2004. Français. ⟨NNT : 2004NAN10037⟩
Theses
tel-01754419v1
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From Systems Biology to Systems Ecology: A Computational Journey Through Biological ScalesBioinformatics [q-bio.QM]. Université de Nantes, 2020
Habilitation à diriger des recherches
tel-04385526v1
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