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Nicolas Parisey

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  • 577435
  • 1001965
  • 1096413
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Presentation

After a PhD in systems biology, I was recruited to design and develop decision support systems for integrated crop protection. In this context, I first focused on the dynamics of crop pests and beneficials at the scale of agro-ecosystems. Quite naturally, I became interested in developing alternative control strategies. I thus worked on population models rooted in optimal foraging in order to propose plausible landscape rearrangements aiming at controling the selective value of populations of interest. After some maturation, I defended my Habilitation thesis, broaded my biological models of interest and decided to reinforce the link between my complex models and the data necessary for their applications. Since then, i worked on (i) the adaptation of statistical approaches for optimal population monitoring to maximize the information provided by each experiment and (ii) the development of quantitative imaging approaches for ecology and epidemiology to massify the available data.
Après un doctorat en biologie des systèmes, j'ai été recruté pour concevoir et développer des systèmes d'aide à la décision pour la protection intégrée des cultures. Dans ce contexte, je me suis d'abord intéressé à la dynamique des ravageurs et des auxiliaires des cultures à l'échelle des agro-écosystèmes. Tout naturellement, je me suis tourné vers le développement de stratégies de contrôle alternatives. J'ai donc travaillé sur des modèles de population ancrés dans l'écologie comportementale afin de proposer des réarrangements plausibles du paysage visant à contrôler la valeur sélective des populations d'intérêt. Par la suite, j'ai soutenu mon habilitation, élargi mes modèles biologiques d'intérêt et décidé de renforcer le lien entre mes modèles complexes et les données nécessaires à leurs applications. Depuis, j'ai travaillé sur (i) l'adaptation d'approches statistiques pour le suivi optimal de populations afin de maximiser l'information fournie par chaque expérience et (ii) le développement d'approches d'imagerie quantitative pour l'écologie et l'épidémiologie afin de massifier les données disponibles.

Skills

population dynamics quantitative ecology computer vision optimal experimental design applied mathematics

Publications

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Imaging with spatio-temporal modelling to characterize the dynamics of plant-pathogen lesions

Melen Leclerc , Stéphane Jumel , Frédéric M. Hamelin , Rémi Treilhaud , Nicolas Parisey
PLoS Computational Biology, 2023, 19 (11), pp.e1011627. ⟨10.1371/journal.pcbi.1011627⟩
Journal articles hal-04312350v1
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BioAuxNet : Reconnaissance de la faune nocturne vivant au sol à l'aide d'un réseau neuronal convolutionnel à régions masquées

Yassine Sohbi , Corentin Barbu , Antoine Gardarin , Nicolas Parisey
NOV'AE, 2023, 9, 10 p. ⟨10.1780/novae-2023-NO-art09⟩
Journal articles hal-04446651v1

A deep learning approach to detect and identify live freshwater macroinvertebrates

Sami Jaballah , Guglielmo Fernandez Garcia , François Martignac , Nicolas Parisey , Stéphane Jumel
Aquatic Ecology, 2023, 57 (4), pp.933-949. ⟨10.1007/s10452-023-10053-7⟩
Journal articles hal-04278345v1
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Optimal spatial monitoring of populations described by reaction–diffusion models

Nicolas Parisey , Melen Leclerc , Katarzyna Adamczyk-Chauvat
Journal of Theoretical Biology, 2022, 534, pp.110976. ⟨10.1016/j.jtbi.2021.110976⟩
Journal articles hal-03651840v1
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Digital revolution for the agroecological transition of food systems: a responsible research and innovation perspective

Véronique Bellon-Maurel , Evelyne Lutton , Pierre Bisquert , Ludovic Brossard , Stephanie Chambaron
Agricultural Systems, 2022, 203, pp.103524. ⟨10.1016/j.agsy.2022.103524⟩
Journal articles hal-03806807v1
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Image based species identification of Globodera quarantine nematodes using computer vision and deep learning

Romain Thevenoux , Van-Linh Le , Heloïse Villessèche , Alain Buisson , Marie Beurton-Aimar
Computers and Electronics in Agriculture, 2021, 186, ⟨10.1016/j.compag.2021.106058⟩
Journal articles hal-03319310v1
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An automatic non-invasive classification for plant phenotyping by MRI images: An application for quality control on cauliflower at primary meristem stage

Yifan Zhou , Raphaël Maître , Mélanie Hupel , Gwenn Trotoux , Damien Penguilly
Computers and Electronics in Agriculture, 2021, 187, pp.106303. ⟨10.1016/j.compag.2021.106303⟩
Journal articles hal-03347927v1
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Besides stem canker severity, oilseed rape host genotype matters for the production of Leptosphaeria maculans fruit bodies

Lydia Bousset , Patrick Vallée , Régine Delourme , Nicolas Parisey , Marcellino Palerme
Fungal Ecology, 2021, 52, pp.101076. ⟨10.1016/j.funeco.2021.101076⟩
Journal articles hal-03313558v1

Inferring insect feeding patterns from sugar profiles: a comparison of statistical methods

Martin Luquet , Nicolas Parisey , Maxime Hervé , Emmanuel Desouhant , Anne‐marie Cortesero
Ecological Entomology, 2021, 46 (1), pp.19-32. ⟨10.1111/een.12971⟩
Journal articles hal-03137771v1
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Automated landmarking for insects morphometric analysis using deep neural networks

Van-Linh Le , Marie Beurton-Aimar , Akka Zemmari , Alexia Marie , Nicolas Parisey
Ecological Informatics, 2020, 60, ⟨10.1016/j.ecoinf.2020.101175⟩
Journal articles hal-03319822v1

Spatially explicit economic effects of non-susceptible pests' invasion on Bt maize

Rui Catarino , Francisco Areal , Julian Park , Nicolas Parisey
Agricultural Systems, 2019, 175, pp.22-33. ⟨10.1016/j.agsy.2019.05.008⟩
Journal articles hal-03100033v1
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Relative importance of long‐term changes in climate and land‐use on the phenology and abundance of legume crop specialist and generalist aphids

Martin Luquet , Maurice Hullé , Jean-Christophe Simon , Nicolas Parisey , Christelle Buchard
Insect Science, 2019, 26 (5), pp.881-896. ⟨10.1111/1744-7917.12585⟩
Journal articles hal-02276276v1

Automated image processing framework for analysis of the density of fruiting bodies of Leptosphaeria maculans oilseed rape stems

Lydia Bousset , Marcellino Palerme , Melen Leclerc , Nicolas Parisey
Plant Pathology, 2019, 68 (9), pp.1749-1760. ⟨10.1111/ppa.13085⟩
Journal articles hal-02457189v1

Connectivity of cropped vs. semi-natural habitats mediates biodiversity: A case study of carabid beetles communities

Stéphanie Aviron , Etienne Lalechère , Rémi Duflot , Nicolas Parisey , Sylvain Poggi
Agriculture, Ecosystems & Environment, 2018, 268, pp.34-43. ⟨10.1016/j.agee.2018.08.025⟩
Journal articles hal-02567498v1

How effective is large landscape-scale planning for reducing local weed infestations? A landscape-scale modelling approach

Benoît Ricci , Sandrine Petit , Charlotte Allanic , Marie Langot , Nicolas Parisey
Ecological Modelling, 2018, 384, pp.221-232. ⟨10.1016/j.ecolmodel.2018.06.029⟩
Journal articles hal-02567504v1

Issues and challenges in landscape models for agriculture: from the representation of agroecosystems to the design of management strategies

Sylvain Poggi , Julien Papaix , Claire Lavigne , Frédérique Angevin , Florence Le Ber
Landscape Ecology, 2018, 33 (10), pp.1679-1690. ⟨10.1007/s10980-018-0699-8⟩
Journal articles hal-02567492v1

Inferring ecological processes from population signatures: A simulation-based heuristic for the selection of sampling strategies

Benoit Bellot , Sylvain Poggi , Jacques Baudry , Yoann Bourhis , Nicolas Parisey
Ecological Modelling, 2018, 385, pp.12-25. ⟨10.1016/j.ecolmodel.2018.06.010⟩
Journal articles hal-02567500v1

Foraging as the landscape grip for population dynamics—A mechanistic model applied to crop protection

Yoann Bourhis , Sylvain Poggi , Youcef Mammeri , Ronan Le Cointe , Anne-Marie Cortesero
Ecological Modelling, 2017, 354, pp.26-36. ⟨10.1016/j.ecolmodel.2017.03.005⟩
Journal articles hal-01595720v1

Influence of the surrounding landscape on the colonization rate of cereal aphids and phytovirus transmission in autumn

Aude Gilabert , Bertrand Gauffre , Nicolas Parisey , Jean Francois Le Gallic , Patrick Lhomme
Journal of Pest Science, 2017, 90 (2), pp.447-457. ⟨10.1007/s10340-016-0790-3⟩
Journal articles hal-01357540v1

Rearranging agricultural landscapes towards habitat quality optimisation: In silico application to pest regulation

Nicolas Parisey , Yoann Bourhis , Lionel Roques , Samuel Soubeyrand , Benoit Ricci
Ecological Complexity, 2016, 28, pp.113-122. ⟨10.1016/j.ecocom.2016.07.003⟩
Journal articles hal-01512077v1

Refined Agent Model Using Shape-Based Grained Structure: Application to Membrane Molecules

François Vallée , Marie Beurton-Aimar , Hien Tran , Nicolas Parisey
Journal of Computer and Communications, 2016, 04 (13), pp.12-22. ⟨10.4236/jcc.2016.413002⟩
Journal articles hal-03419487v1

Managing maize under pest species competition: IsBt ([i]Bacillus thuringiensis[/i]) maize the solution?

Rui Catarino , Graziano Ceddia , Francisco Areal , Nicolas Parisey , Julian Park
Ecosphere, 2016, 7 (6), pp.e01340. ⟨10.1002/ecs2.1340⟩
Journal articles hal-01355652v1
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Interpretation and approximation tools for big, dense Markov chain transition matrices in population genetics.

Katja Reichel , Valentin Bahier , Cédric Midoux , Nicolas Parisey , Jean-Pierre Masson
Algorithms for Molecular Biology, 2015, 10 (1), pp.31. ⟨10.1186/s13015-015-0061-5⟩
Journal articles hal-01286505v1

Perception-based foraging for competing resources: Assessing pest population dynamics at the landscape scale from heterogeneous resource distribution

Yoann Bourhis , Sylvain Poggi , Youcef Mammeri , Anne-Marie Cortesero , Anne Le Ralec
Ecological Modelling, 2015, 312, pp.211-221. ⟨10.1016/j.ecolmodel.2015.05.029⟩
Journal articles hal-01252655v1
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Response of insect relative growth rate to temperature and host-plant phenology: estimation and validation from field data.

Mamadou Ciss , Nicolas Parisey , Gwenaëlle Fournier , Pierre Taupin , Charles-Antoine Dedryver
PLoS ONE, 2014, 9 (1), pp.e86825. ⟨10.1371/journal.pone.0086825⟩
Journal articles hal-00976113v1

A spatiotemporal model for predicting grain aphid population dynamics and optimizing insecticide sprays at the scale of continental France

Mamadou Ciss , Nicolas Parisey , Fabrice Moreau , Charles-Antoine Dedryver , Jean-Sébastien Pierre
Environmental Science and Pollution Research, 2014, 21 (7), pp.4819-4827. ⟨10.1007/s11356-013-2245-1⟩
Journal articles hal-00999523v1

Understanding flying insect dispersion: Multiscale analyses of fragmented landscapes

Mamadou Ciss , N. Parisey , Charles-Antoine Dedryver , Jean-Sébastien Pierre
Ecological Informatics, 2013, 14 (SI), pp.59-63. ⟨10.1016/j.ecoinf.2012.11.004⟩
Journal articles hal-00818381v1

Relationship between the abundance of aphids and their natural enemies in crop fields and landscape composition.

Diab Al Hassan , N. Parisey , Françoise Burel , Manuel Plantegenest , Pavel Kindlmann
European Journal of Environmental Sciences, 2012, 2 (2), pp.89-99
Journal articles hal-00924673v1

Delayed setting of the photoperiodic response in recombinant clones of the aphid species Sitobion avenae

Charles-Antoine Dedryver , Jean Francois Le Gallic , Frédérique Maheo , Nicolas Parisey , Denis Tagu
Ecological Entomology, 2012, 37 (4), pp.293 - 299. ⟨10.1111/j.1365-2311.2012.01365.x⟩
Journal articles hal-01208658v1

Confronting a spatialy explicit population model with biased random walk to agroecosystems complexity

N. Parisey , Yann Tricault , Anne Le Ralec , A.M. Cortesero
European Journal of Agronomy, 2011, 34 (1), pp.26-34
Journal articles hal-00849131v1

Investigating Oxidoreduction Kinetics using Protein Dynamics.

N. Parisey , Marie M. Beurton-Aimar
Journal of Biological Physics and Chemistry, 2009, 9, pp.27-35
Journal articles hal-00410962v1

Formal TCA cycle description based on elementary actions.

Maziere Pierre , N. Parisey , M. Beurton-Aimar , Molina Franck
Journal of Biosciences, 2007, 32, pp.145-155
Journal articles hal-00308159v1

The MEK-1/ERKs signalling pathway is differentially involved in the self-renewal of eraly and late avian erythroid progenitor cells.

S. Dazy , F. Damiola , N. Parisey , H. Beug , O. Gandrillon
Oncogene, 2003, 22, pp.9205-9216
Journal articles hal-00124108v1

Quelle efficacité d’une gestion à une échelle paysagère large des abondances locales d’adventices? Une approche de modélisation à l’échelle du paysage

Benoit Ricci , Sandrine Petit , Charlotte Allanic , Marie Langot , Nicolas Parisey
Séminaire final du projet de recherche ANR CoSAC-Gestion des adventices dans un contexte de changement, Jan 2019, Paris, France. article issu d'un poster
Conference papers hal-02737542v1

Towards landmarks prediction with Deep Network

V.L Le , M. Beurton-Aimar , A. Zemmari , N. Parisey
9th International Conference on Pattern Recognition Systems (ICPRS 2018), May 2018, Valparaíso, Chile. 15 (6 pp.)-15 (6 pp.)
Conference papers hal-02000079v1

Landmarks Detection by Applying Deep Networks

Van-Linh Le , Marie M. Beurton-Aimar , Akka Zemmari , Nicolas Parisey
2018 1st International Conference on Multimedia Analysis and Pattern Recognition (MAPR), Apr 2018, Ho Chi Minh City, Vietnam. pp.1-6
Conference papers hal-02000068v1

Landmarks Detection by Applying Deep Networks

Van-Linh Le , Marie Beurton-Aimar , Akka Zemmari , Nicolas Parisey
1st International Conference on Multimedia Analysis and Pattern Recognition (MAPR), Apr 2018, Ho Chi Minh City, Vietnam. ⟨10.1109/MAPR.2018.8337519⟩
Conference papers hal-02737558v1

Introduction du séminaire. Le projet ANR Peerless : viabilité d’une gestion écologique renforcée de la santé des plantes dans les paysages agricoles

Pierre Franck , A. Bischoff , David Bohan , Etienne Klein , Claire Lavigne
Séminaire "Ecologisation des systèmes de productions agricoles pour renforcer le contrôle biologique des bioagresseurs", Nov 2017, Paris, France
Conference papers hal-02734496v1

Dynamiques de populations en milieu hétérogène : modèles et estimation de paramètres

Olivier Bonnefon , Lionel Roques , Y. Bourhis , Pierre Franck , Etienne Klein
Séminaire "Ecologisation des systèmes de productions agricoles pour renforcer le contrôle biologique des bioagresseurs", Nov 2017, Paris, France
Conference papers hal-02733519v1

Utilisation de la modélisation statistique pour simuler la contribution des systèmes agricoles aux organisations du paysage et à la biodiversité : Exemple des carabes forestiers et de cultures

Stéphanie Aviron , Etienne Lalechère , Rémi Duflot , Sylvain Poggi , Nicolas Parisey
Colloque PAYOTTE 2017, réseau interdisciplinaire PAYOTE., Oct 2017, Paris, France
Conference papers hal-02790265v1
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MAELab: a framework to automatize landmark estimation

van Linh Le , Marie Beurton-Aimar , Adrien Krähenbühl , Nicolas Parisey
WSCG 2017, May 2017, Plzen, Czech Republic
Conference papers hal-01571440v1
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Modélisation du mouvement des chevreuils dans un paysage bocager simulé : premiers résultats, projets

Nicolas Parisey , Marcellino Palerme , Goulard Michel , Melen Leclerc , Nicolas Morellet
Colloque PAYOTTE 2017, Oct 2017, Paris, France. 31 p
Conference papers hal-02737836v1

Agriculture et continuités écologiques

Stéphanie Aviron , Etienne Lalechère , Rémi Duflot , Hugues Boussard , Nicolas Parisey
Qu’est-ce qui se trame en Bretagne ? Journée d’information et d’échanges sur la mise en place de la trame verte et bleue, Apr 2017, Vannes, France
Conference papers hal-02788607v1
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Favoriser la dynamique d'un auxiliaire de culture Carabidae au sein d'une mosaïque agricole

Nicolas Parisey , Yoann Bourhis , Sylvain Poggi
Colloque Agroécologie & Systèmes de Culture Innovants, Jan 2015, Les Ponts-de-Cé, France
Conference papers hal-02800670v1
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Contribution of annual crops vs. semi-natural habitats to landscape connectivity for different types of carabid beetle communities

Stéphanie Aviron , Sylvain Poggi , Nicolas Parisey , Remi Duflot , Hugues Boussard
IALE World congress 2015., Jul 2015, Portland, United States. 11 p
Conference papers hal-01458650v1

Modèle Agriconnect un simulateur de paysage couplant modèle agronomique et modèle écologique

Hugues Boussard , Stéphanie Aviron , Alexandre Joannon , Gilles Martel , Bénédicte Roche
Séminaire PAYOTE, 2014, Paris, France. 1 p
Conference papers hal-01458682v1
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Comparison of statistical frameworks to study the relationship between landscape features and pest insect abundance

Jean-Baptiste Riou , Marie Gosme , Nicolas Parisey , Sylvain Poggi
Colloque PAYOTE 2014. Modélisation de paysages agricoles pour l’analyse et la simulation de processus, Sep 2014, Paris, France
Conference papers hal-02743307v1

Prédation des pucerons par un cortège d’ennemis naturels sur Brassicacées légumières : quantification et facteurs de variation à l’échelle du paysage agricole

Yann Tricault , Armin Bischoff , A.M. Cortesero , Bruno Jaloux , N. Parisey
5ème Réunion annuelle du Réseau BAPOA (Biologie Adaptative des Pucerons et Organismes Associés), Nov 2012, Lyon (FR), France
Conference papers hal-00924691v1

Structure du paysage en parcelles de Brassicacées : impact sur les insectes phytophages et leurs ennemis naturels

A.M. Cortesero , Anne Le Ralec , J. Saulais , A. Ezanic , J. Baudry
9ème Conférence Internationale sur les Ravageurs en Agriculture, Oct 2011, Montpellier (FR), France. non paginé
Conference papers hal-00849133v1

Structure du paysage et colonisation des parcelles de Brassicacées légumières par les insectes phytophages et leurs ennemis naturels

Anne Le Ralec , J. Baudry , Armin Bischoff , A.M. Coteso , Bruno Jaloux
Journées techniques "Biodiversité fonctionnelle" GIE Fleurs et Plantes du Sud- Ouest., 2011, Bordeaux (FR), France
Conference papers hal-00849134v1

Identification of functional hubs through metabolic networks

M. Beurton-Aimar , N. Parisey , Francois F. Vallée , Sophie S. Colombie
12. International conference on the synthesis and simulation of lifing systems, Aug 2010, Odense, Denmark
Conference papers hal-02754488v1

Using Multi-Agent Systems to Design Internal Movements of Proteins

Francois Vallee , Marie M. Beurton-Aimar , N. Parisey
Evry Spring School on Modelling Complex Biological Systems in the Context of Genomics, May 2010, Evry, France. pp.157
Conference papers hal-00631758v1

Elementary mode analysis of the central metabolism of plant cells

Sophie S. Colombie , Bertrand Beauvoit , Nicolas Parisey , Katia Pianelli , François Vallée
4. Journées scientifiques du Réseau Français de Métabolomique et Fluxomique, May 2010, Marseille, France
Conference papers hal-02752805v1

Elementary flux mode analysis of the central metabolism of plant cells

François Vallée , Sophie S. Colombie , Bertrand Beauvoit , Nicolas Parisey , Katia Pianelli
7. International workshop on Computational Systems Biology, Jun 2010, Luxembourg, Luxembourg
Conference papers hal-02752087v1

Simulation of Electron Transfer with a Shape-Based Grained Multi-Agent Model

Francois Vallee , Marie M. Beurton-Aimar , N. Parisey
Alife XII, Aug 2010, Odense, Denmark
Conference papers hal-00629156v1

Multi-Agent Model for Simulation at the Subcellular Level

Marie M. Beurton-Aimar , N. Parisey , Francois F. Vallée
ECAL 2009 - Darwin Meets von Neumann, Sep 2009, Budapest, Hungary
Conference papers hal-00410968v1
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TIM/WIM: A Set of Tools to Interface Modelling in Biology.

Francois Vallee , M. Beurton-Aimar , N. Parisey , Florent Collot , Sophie Colombié
European Conference on Object-Oriented Programming, Jul 2009, Genova, Italy
Conference papers hal-00629019v1

TIM, une interface de saisie pour les données du métabolisme

Nicolas Parisey , Florent Collot , Raphael Henri , Bertrand Beauvoit , Martine Dieuaide Noubhani
3. Journées scientifiques RFMF, Feb 2008, Bordeaux, France
Conference papers hal-02752505v1

Mitochondrial OxydoReduction Simulation using Multi-Agent System

N. Parisey , M. Beurton-Aimar , J.-P. Mazat
European Simulation and Modelling Conference (ESM), 2007, Malta. pp.385--390
Conference papers hal-00308020v1

Multi-Agent Design to Reduce Complexity of Biological Processes

N. Parisey , M. Beurton-Aimar , C. Lales
7th German Workshop on Artificial Life, 2006, Germany. pp.81-84
Conference papers hal-00308019v1
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Simulation of mitochondrial metabolism using multi-agents system

Charles Lales , N. Parisey , Jean-Pierre Mazat , Marie M. Beurton-Aimar
AAMAS'05 (MAS*BIOMED'05), Jul 2005, Utrecht, Netherlands. 9p
Conference papers hal-00353471v1

Modeling biologic networks to use them with heterogeneous treatments

M. Beurton-Aimar , S. Pérès , N. Parisey , P. Ballet , A. Zemmerline
Modélisation et simulation de processus biologiques dans le contexte de la génomique, May 2003, France. pp.1186/1471
Conference papers hal-00308273v1

How to lock a model from a miscomposition of objects ?

M. Beurton-Aimar , S. Pérès , N. Parisey , J.-P. Mazat
13th European Conference on Object-Oriented Programming, Jul 2003, Portugal. pp.23-28
Conference papers hal-00308274v1

Modeling biologic networks to use them with heterogeneous treatments.

M. Beurton-Aimar , S. Pérès , N. Parisey , C. Nazaret , J.-P. Mazat
Modelling and Simulation of biological processes in the context of genomics, May 2003, France. pp.1186/1471
Conference papers hal-00308272v1
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Imagerie pour la quantification de symptômes sur feuilles détachées.

Stéphane Jumel , Nicolas Parisey , Lydia Bousset , Melen Leclerc
13e Rencontre de phytopathologie-mycologie (Journées Jean Chevaugeon), Sep 2022, AUSSOIS, France
Conference poster hal-04164177v1

Estimating landmarks on 2D images of beetle mandibles

Marie Beurton-Aimar , van Linh Le , Nicolas Parisey , Jean-Pierre Salmon
24th WSCG Conference on Computer Graphics, Visualization and Computer Vision,, Jun 2016, Pilsen, Czech Republic
Conference poster hal-02000477v1