Hugues BERRY - Publications            

Journal Articles


Book Chapters

  • Berry, H. (2013). Modélisation de la diffusion-réaction dans les milieux intracellulaires encombrés. in Glade, N. and Stephanou, A. (Eds), Le vivant discret et continu, chapter 9, pages 241–266. Editions Matériologiques, Paris.

  • Berry, H. and Beslon, G. (2013). De la modélisation comme poésie. La modélisation de systèmes biologiques complexes vue par deux modélisateurs. in Varenne, F. and Silberstein, M. (Eds), Modéliser & simuler. Epistémologies et pratiques de la modélisation et de la simulation, volume 1, chapter 11, pages 327-390. Editions Matériologiques, Paris.

  • Berry, H. (2008) Nonequilibrium phase transition in scattered cell communities coupled by auto/paracrine-like signalling in Pollack, G. and Chin, W.-C. (Eds), Phase transitions in Cell Biology, Springer, pp.23-41. preprint HAL


Peer-reviewed conferences, Workshops and Abstracts


  • Cui Y., Paille V., Delord B., Genet S., Fino E., Venance L. and Berry, H. (2013). Endocannabinoids mediate spike-timing dependent potentiation and depression: a model-based experimental approach. 22nd Annual Computational Neuroscience Meeting (CNS’2013), Paris, France (BMC Neuroscience, 14(Suppl 1):O1).

  • Lallouette, J. and Berry, H. (2013). Topology drives calcium wave propagation in 3d astrocyte networks. In Proceedings of the European Conference on Complex Systems 2012, Gilbert, T., Kirkilionis, M. and Nicolis, G., eds. , Springer Proceedings in Complexity, pages 453–463.

  • De Pittà, M., Volman, V., Berry, H., Liaudet, N., Volterra, A. and Ben-Jacob, E., (2012). A compartmental approach to modeling of calcium events in astrocyte processes. (Abstract). In Society for Neuroscience Annual Meeting , New Orleans, LA. Program No. 541.07. 2012 Neuroscience Meeting Planner. Online.

  • Hashmi, A., Berry, H., Temam, O. and Lipasti, M., June (2011). Automatic abstraction and fault tolerance in cortical microachitectures. In 38th ACM/IEEE International Symposium on Computer Architecture, ISCA 2011. San Jose, CA, USA.

  • Venance, L., Cui, Y., Paille, V., Delord, B., Genet, S. and Berry, H., (2011). Sub-second induction unveils a switch from nmda- to endocannabinoid ltp. (Abstract). In Society for Neuroscience Annual Meeting , Washington, DC. Program No. 348.04. 2011 Neuroscience Meeting Planner. Online.

  • Berry, A., De Pittà, M., Volman, V. and Ben-Jacob, E., (2011). Astrocyte regulation of presynaptic plasticity. (Abstract). In Society for Neuroscience Annual Meeting , Washington, DC. Program No. 663.10. 2011 Neuroscience Meeting Planner. Online.

  • Delord, B., Naude, J., Paz, J. and Berry, H., February (2011). Modeling the effects of intrinsic plasticity on rate coding. In Computational and Systems Neuroscience (COSYNE) 2011. Abstract.

  • Goldberg, M., De Pittà, M., Volman, V., Berry, H. and Ben-Jacob, E. (2010) On the determinants of calcium wave propagation distance in astrocyte networks: nonlinear gap junctions and oscillatory modes. (Abstract). In 40th annual meeting of the Society for Neuroscience. Society for Neuroscience, San Diego, CA. Abstract No. 552.22. 2010 Neuroscience Meeting Planner. Online.

  • Auras, D., Girbal, S., Berry, H., Temam, O. and Yehia, S., Oct. (2010). Memory Interface for Multi-Purpose Multi-Stream Accelerators. In International Conference on Compilers, Architectures and Synthesis for Embedded Systems, CASES 2010, Scottsdale, AZ, USA.

  • Auras, D., Girbal, S., Berry, H., Temam, O. and Yehia, S., June (2010). CMA: Chip multi-accelerator. In 8th IEEE Symposium on Application Specific Processors, SASP 2010. Anaheim, CA, USA.

  • Vlassopoulos, N., Fates, N., Berry, H. and Girau, B., June (2010). An FPGA design for the stochastic greenberg-hastings cellular automata. In W. Smari editor, The 2010 International Conference on High Performance Computing and Simulation, HPCS 2010 Caen, France, pages 565-574, IEEE.

  • Girbal, S., Yehia, S., Berry, H., and Temam, O. January (2010). Stream and Memory Hierarchy Design for Multi-Purpose Accelerators. In 1st Workshop on SoC Architecture, Accelerators and Workloads (SAW-1). Bangalore, India.

  • Fates, N.A. and Berry, H. (2010) Critical phenomena in a discrete stochastic reaction-diffusion medium. In Peper, F., ed., Fourth International Workshop on Natural Computing, IWNC 2009, Himeji, Japan, Sep. 23-25, 2009. Proceedings in Information and Communications Technology, 2:141-148.

  • Hashmi, A., Berry, H., Temam, O. and Lipasti, M., December (2009). Leveraging progress in neurobiology for computing systems. In 1st Workshop on New Directions in Computer Architecture (NDCA-1). New-York, New-York, USA.

  • F. Jiang, H. Berry and M. Schoenauer. (2009) The impact of network topology on self-organizing maps. In Proc First ACM/SIGEVO Summit on Genetic and Evolutionary Computation, GEC-2009, Shanghai, China, June 12 -14, 2009, pp 247-254.

  • Yehia, S., Girbal, S., Berry, H. and Temam, O. (2009) Reconciling Specialization and Flexibility Through Compound Circuits. In 15th International Symposium on High-Performance Computer Architecture, HPCA, Raleigh, North Carolina, US, Feb. 14-18, 2009.

  • J. Naudé, S. Genet, H. Berry, J. Paz, and B. Delord. (2008) A formalization of the computational impact of intrinsic plasticity. In NeuroComp'08: 19-26, Marseille, France, 08-11 October 2008.

  • F. Jiang, H. Berry, and M. Schoenauer (2008) Supervised and Evolutionary Learning of Echo State Networks. Proc 10th international Conference on Parallel Problem Solving From Nature: PPSN X, Dortmund, Germany, September 13 - 17, 2008, G. Rudolph et al., Eds, Lecture Notes In Computer Science, 5199:215-224.

  • F. Jiang, H. Berry and M. Schoenauer. (2008) Unsupervised Learning of Echo State Networks: Balancing the Double Pole. Genetic and Evolutionary Computation Conference, GECCO-2008, July, Atlanta, GA, USA.

  • F. Jiang, H. Berry and M. Schoenauer. (2007) Optimizing the topology of complex neural networks. European Conference on Complex Systems (ECCS'07), October, Dresden, Germany.

  • Siri, B., Berry, H., Cessac, B., Delord, B. and Quoy, M. (2007) ) Local learning rules and bifurcations in the global dynamics of random recurrent neural networks . European Conference on Complex Systems (ECCS'07), October, Dresden, Germany.

  • Genet, S., Delord, B., Sabarly, L., Guigon, E., and Berry, H. (2006) On the propagation of Ca-dependent plateau and valley potentials in cerebellar Purkinje cells and how they drive the cell output. In NeuroComp'06:167-170, Pont-à-Mousson, France, 23-24 October 2006.

  • Siri, B., Berry, H., Cessac, B., Delord, B., Quoy, M., and Temam, O. (2006) Learning-induced topological effects on dynamics in neural networks. In NeuroComp'06:206--209, Pont-à-Mousson, France, 23-24 October 2006.

  • Siri, B., Berry, H., Cessac, B., Delord, B. and Quoy, M. (2006) Topological and dynamical structures induced by Hebbian learning in random neural networks. In International Conference on Complex Systems, ICCS 2006, Boston, MA, USA, June 2006.

  • Berry, H. and Temam, O. (2005) Characterizing self-developing biological neural networks: A first step towards their application to computing systems. Lecture Notes in Computer Science, 3512:306-317. arXiv:q-bio.NC/0505021.

  • Gracia Pérez, D., Berry, H. and Temam, O. (2005) Budgeted region sampling (BeERS): Wisely allocating simulated instructions for a better accuracy/ speed/ applicability tradeoff. In 5th IEEE International Symposium on Signal Processing and Information Technology. Athens, Greece, December 2005.

  • Berry, H. and Quoy, M. (2005) Structure and dynamics of random recurrent neural networks. In Active agents and their environments as dynamical systems, workshop held during the VIIIth European Conference on Artificial Life (ECAL). University of Kent, Canterbury, Kent (UK),05-08 September 2005.

  • Gracia Pérez, D., Berry, H. and Temam, O. (2005) EDCA: A new clustering approach for sampling. In MoBS: Workshop on Modeling, Benchmarking, and Simulation, workshop held during the the 32nd Annual International Symposium on Computer Architecture (ISCA), Madison, Wisconsin, USA, June 04, 2005


Others


By Year

2014

2013

2012

  • De Pittà, M., Volman, V., Berry, H., Parpura V, Volterra, A. and Ben-Jacob, E. (2012). Computational quest for understanding the role of astrocyte signaling in synaptic transmission and plasticity. Frontiers in Computational Neuroscience, 6:98.

  • Vlassopoulos, N., Fatès, N., Berry, H. and Girau, B., (2012). Large-scale Simulations on FPGAs: Finding the Asymptotic Critical Threshold of the Greenberg-Hastings Cellular Automata. Journal of Cellular Automata, 7(1):5–29.

  • Naudé, J., Paz, J., Berry, H. and Delord, B., (2012) A theory of rate coding control by intrinsic plasticity effects. PLoS Computational Biology, 8:e1002349.

  • De Pittà, M., Volman, V., Berry, H., Liaudet, N., Volterra, A. and Ben-Jacob, E., (2012). A compartmental approach to modeling of calcium events in astrocyte processes. (Abstract). In Society for Neuroscience Annual Meeting , New Orleans, LA. Program No. 541.07. 2012 Neuroscience Meeting Planner. Online.

2011

  • De Pittà, M., Volman, V., Berry, H. and Ben-Jacob, E. (2011) A tale of two stories: astrocyte regulation of synaptic depression and facilitation. PLoS Computational Biology, 7: e1002293.

    Supplementary Materials availble here
    This article has been selected for the Faculty of 1000 Cell Biology. Read the review here.

  • Hashmi, A., Berry, H., Temam, O. and Lipasti, M., June (2011). Automatic abstraction and fault tolerance in cortical microachitectures. In 38th ACM/IEEE International Symposium on Computer Architecture, ISCA 2011. San Jose, CA, USA.

  • Venance, L., Cui, Y., Paille, V., Delord, B., Genet, S. and Berry, H., (2011). Sub-second induction unveils a switch from nmda- to endocannabinoid ltp. (Abstract). In Society for Neuroscience Annual Meeting , Washington, DC. Program No. 348.04. 2011 Neuroscience Meeting Planner. Online.

  • De Pittà, M., Volman, V., Berry, H. and Ben-Jacob, E., (2011). Astrocyte regulation of long-term synaptic plasticity. (Abstract). In Society for Neuroscience Annual Meeting , Washington, DC. Program No. 663.20. 2011 Neuroscience Meeting Planner. Online.

  • Berry, A., De Pittà, M., Volman, V. and Ben-Jacob, E., (2011). Astrocyte regulation of presynaptic plasticity. (Abstract). In Society for Neuroscience Annual Meeting , Washington, DC. Program No. 663.10. 2011 Neuroscience Meeting Planner. Online.

  • Berry, H. and Fates, N. (2011) Robustness of the critical behavior in the stochastic Greenberg-Hastings cellular automaton model. Int. J. Unconventional Computing, 7:65-85.

2010

2009

2008

2007

2006

2005

2003

2002

2000

1999

1998

1997

1996


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