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SWIM — A Simulation Environment for Realistic Neural Network Modeling

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Neural Network Simulation Environments

Abstract

When simulating networks of several hundred interconnected neurons using realistic neuron models, tools are needed for handling the specification of all parameters involved. We have designed a specification language for this purpose. A simulation environment based on this language has been implemented, including tools for running the actual simulations on either a Unix workstation, a CRAY supercomputer, or a Connection Machine (CM, a massively parallel supercomputer). On a CM with 8192 processors the program is typically capable of handling some tens of thousands of neurons and millions of synapses. The SWIM simulation environment has been used to simulate experimentally verified networks (CPG in lamprey spinal cord) as well as for explorative experiments relating to attractor models of cortical associative memory.

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References

  1. MacGregor, R. J. and Lewis, E. R., Neural Modeling. Electrical signal processing in the nervous system. New York: Plenum Press, 1977.

    Google Scholar 

  2. Jack, J. J. B., Noble, D., and Tsien, R. W., Electric current flow in excitable cells. Oxford: Oxford University Press, 1983.

    Google Scholar 

  3. Hille, B., Ionic Channels of Excitable Membranes. Sunderland, MA: Sinauer Associates Inc., 1984.

    Google Scholar 

  4. Sejnowski, T. J., Koch, C., and Churchland, P. S., “Computational neuroscience,” Science, vol. 241, 1988, pp. 1299–1305.

    Article  ADS  Google Scholar 

  5. Koch, C. and Segev, I., Methods in neuronal modeling, from synapses to networks. Cambridge, MA: MIT Press, 1989.

    Google Scholar 

  6. Grillner, S., Wallén, P., Dale, N., Brodin, L., Buchanan, J., and Hill, R., “Transmitters, membrane properties and network circuitry in the control of locomotion in lamprey,” Trends in Neurosci., vol. 10, 1987, pp. 34–41.

    Article  Google Scholar 

  7. Grillner, S., Buchanan, J., and Lansner, A., “Simulations of the segmental burst generating network for locomotion in lamprey,” Neuroscience Letters, vol. 89, 1988, pp. 31–35.

    Article  Google Scholar 

  8. Grillner, S., Christenson, J., Brodin, L., Wallén, P., Hill, R., Lansner, A., and Ekeberg, O. “Locomotor system in lamprey: Neuronal mechanisms controlling spinal rhythm generation.” In: Neuronal and Cellular Oscillators (Jacklet, J. J., ed.). New York: Marcel Dekker, Inc., 1989, pp. 407–434.

    Google Scholar 

  9. Ekeberg, O., Wallén, P., Lansner, A., Travén, H., Brodin, L., and Grillner, S., “A computer based model for realistic simulations of neural networks. I: The single neuron and synaptic interaction,” Biol. Cybern., vol. 65, 1991, pp. 81–90.

    Article  Google Scholar 

  10. [] TMC—Thinking Machines Corporation. Connection Machine Model CM-2 Technical Summary, 1989.

    Google Scholar 

  11. Ekeberg, O., Stensmo, M., and Lansner, A., “SWIM — A simulator for real neural networks,” Tech. Rep. TRITA-NA-P9014, Dept. of Numerical Analysis and Computing Science, Royal Institute of Technology, Stockholm, Sweden, 1990.

    Google Scholar 

  12. Levin, B., Hammarlund, P., and Lansner, A., “BIOSIM — A program for biologically realistic neural network simulations on the Connection Machine,” Tech. Rep. TRITA-NA-9021, Dept. of Numerical Analysis and Computing Science, Royal Institute of Technology, Stockholm, Sweden, 1990.

    Google Scholar 

  13. [] Hammarlund, P., Levin, B., and Lansner, A. “BIOSIM — A program for biologically realistic neural network simulations on the Connection Machine.” In: Artificial Neural Networks (Kohonen, T., Mäkisara, K., Simula, O., and Kangas, J., eds.), Elsevier, pp. 1477–1480.

    Google Scholar 

  14. Rall, W. “Core conductor theory and cable properties of neurons.” In: Handbook of Physiology (Sect. 1). The Nervous System. I. Cellular Biology of Neurons (Brookhart, M., Mountcastle, V., and Kandel, E., eds.). Bethesda, MD: American Physiological Society, 1977, pp. 39–97.

    Google Scholar 

  15. Hodgkin, A. L. and Huxley, A. F., “A quantitative description of membrane current and its application to conduction and excitation in nerve,”J.Physiol., vol. 117, 1952, pp. 500–544.

    Google Scholar 

  16. Ascher, P. and Nowak, L., “The role of divalent cations in the N-methylD-aspartate responses of mouse central neurons in culture,” J. Physiol., vol. 399, 1988, pp. 247–266.

    Google Scholar 

  17. Brodin, L., Trávén, H., Lansner, A., Wallén, P., Ekeberg, O., and Grillner, S., “Computer simulations of N-methyl-D-aspartate (NMDA) receptor induced membrane properties in a neuron model,” J. Neurophysiol., vol. 66, 1991, pp. 473–484.

    Google Scholar 

  18. Lesk, M. E. and Schmidt, E., Lex — A Lexical Analyzer Generator. Murray Hill, NJ: Bell Laboratories, 1975.

    Google Scholar 

  19. Johnson, S. C., Yacc: Yet Another Compiler Compiler. Murray Hill, NJ: Bell Laboratories, 1975.

    Google Scholar 

  20. Dahlquist, G. and Björck, A., Numerical Methods. Englewood Cliffs, NJ: Prentice Hall, 1974.

    Google Scholar 

  21. Hines, M. , “Efficient computation of branched nerve equations,” Int. J. Bio-Medical Computing, vol. 15, 1984, pp. 69–76.

    Article  Google Scholar 

  22. Wallén, P., Ekeberg, O., Lansner, A., Brodin, L., Trávén, H., and Grillner , S. , “A computer-based model for realistic simulations of neural networks.II:Simulation of the segmental network generating locomotor rhythmicity in the lamprey,” J. Neurophysiol., vol. 68, 1992, pp. 1939–1950.

    Google Scholar 

  23. Hellgren, J., Grillner, S., and Lansner, A., “Computer simulation of the segmental neural network generating locomotion in lamprey by using populations of network interneurons,” Biol. Cybern., vol. 68, 1992, pp. 1–13.

    Article  Google Scholar 

  24. Wadden, T., Grillner, S., Matsushima, T., and Lansner, A., “Undulatory locomotion — simulations with realistic segmental oscillators.” To appear in Proc. Computation in Neural Systems 1992, Kluwer.

    Google Scholar 

  25. Trávén, H., Brodin, L., Lansner, A., Ekeberg, O., Wallén, P., and Grillner, S., “Computer simulations of NMDA and non-NMDA receptor-mediated synaptic drive — sensory and supraspinal modulation of neurons and small networks,” J. Neurophysiol., (Accepted, subject to revision), 1993.

    Google Scholar 

  26. Lansner, A. and Fransén, E., “Modeling Hebbian cell assemblies comprised of cortical neurons,” Network: Computation in Neural Systems, vol. 3, 1992, pp. 105–119.

    Article  Google Scholar 

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© 1994 Springer Science+Business Media New York

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Ekeberg, Ö., Hammarlund, P., Levin, B., Lansner, A. (1994). SWIM — A Simulation Environment for Realistic Neural Network Modeling. In: Skrzypek, J. (eds) Neural Network Simulation Environments. The Kluwer International Series in Engineering and Computer Science, vol 254. Springer, Boston, MA. https://doi.org/10.1007/978-1-4615-2736-7_3

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  • DOI: https://doi.org/10.1007/978-1-4615-2736-7_3

  • Publisher Name: Springer, Boston, MA

  • Print ISBN: 978-1-4613-6180-0

  • Online ISBN: 978-1-4615-2736-7

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