Fast numerical methods for simulating large-scale integrate-and-fire neuronal networks

Journal of Computational Neuroscience

Volumn 22, Issue 1, 2007, Pages 81-100

  Rangan, Aaditya V ^a   Cai, David ^a  

^a NEW YORK UNIVERSITY   (United States)

Author keywords

Network architecture; Numerical algorithm

Indexed keywords

COMPUTATION THEORY; INTEGRAL EQUATIONS; NETWORK ARCHITECTURE; NEURAL NETWORKS; NEURONS; RUNGE KUTTA METHODS; TRAJECTORIES;

COMPUTATIONAL MODELLING; HIGH CONDUCTANCE STATE; INTEGRATE AND FIRES; INTEGRATING FACTOR; LARGE-SCALES; LOCAL INTERACTIONS; NEURONAL NETWORKS; NUMERICAL ALGORITHMS; NUMERICALLY TRACTABLE; TIME STEP;

NUMERICAL METHODS;

ACCURACY; ALGORITHM; ANALYTICAL ERROR; ARTICLE; ARTIFICIAL NEURAL NETWORK; CELL INTERACTION; MATHEMATICAL MODEL; NERVE CELL NETWORK; NERVE CONDUCTION; NEUROPHYSIOLOGY; PRIORITY JOURNAL; SIMULATION; STATISTICAL ANALYSIS; VISUAL CORTEX;

EID: 33845912111     PISSN: 09295313     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10827-006-8526-7     Document Type: Article

References (47)

1. Anderson J, Lampl I, Gillespie D, Ferster D (2000) The contribution of noise to contrast invariance of orientation tuning in cat visual cortex. Science, 290: 1968-1972
2. Angelucci A, Levitt JB, Walton EJ, Hupe JM, Bullier J, Lund JS (2002) Circuits for local and global signal integration in primary visual cortex. J. Neurosci., 22: 8633-8646
3. Borg-Graham L, Monier C, Fregnac Y (1996) Voltage-clamp measurement of visually-evoked conductances with whole-cell patch recordings in primary visual cortex. J Physiol Paris, 90(3-4): 185-188
4. Borg-Graham LJ, Monier C, Fregnac Y (1998) Visual input evokes transient and strong shunting inhibition in visual cortical neurons. Nature, 393(6683): 369-373
5. Bosking WH, Zhang Y, Schofield B, Fitzpatrick D (1997) Orientation selectivity and the arrangement of horizontal connections in tree shrew striate cortex. J. Neurosci., 17: 2112-2127
6. Brette R (to appear) Exact simulation of integrate-and-fire models with synaptic conductances. Neural Comput
7. Cai D, Rangan AV, McLaughlin DW (2005) Architectural and synaptic mechanisms underlying coherent spontaneous activity in v1. Proc. Nat'l Acad. Sci (USA), 102: 5868-5873
8. Cai D, Tao L, Shelley M, Mclaughlin DW (2004) An effective representation of fluctuation-driven neuronal networks with application to simple & complex cells in visual cortex. Pro. Nat. Acad. Sci. (USA), 101: 7757-7762
9. Callaway E (1998) Local circuits in primary visual cortex of the macaque monkey. Ann. Rev. Neurosci., 21: 47-74
10. Callaway E, Wiser A (1996) Contributions of individual layer 2 to 5 spiny neurons to local circuits in macaque primary visual cortex. Visual Neuroscience, 13: 907-922
11. Compte A, Sanchez-Vives MV, McCormick DA, Wang X-J (2003) Cellular and network mechanisms of slow oscillatory activity (< 1hz) and wave propagations in a cortical network model. J Neurophysiol., 89: 2707-2725
12. Destexhe A, Rudolph M, Pare D (2003) The high-conductance state of neocortical nurons in vivo. Nat. Rev., Neurosci, 4: 730-751
13. Fitzpatrick D, Lund J, Blasdel G (1985) Intrinsic connections of macaque striate cortex Afferent and efferent connections of lamina 4C. Journal of Neuroscience, 5: 3329-3349
14. Fornberg B (1998) A Practical Guide to Pseudospectral Methods. Cambridge University Press, New York.
15. Fourcaud-Trocme N, Hansel D, van Vreeswijk C, Brunel N (2003) How spike generation mechanisms determine the neuronal response to fluctuating inputs. J. Neurosci., 23
16. Frenkel D, Smit B (1996) Understanding Molecular Simulation. Academic Press, New York.
17. Gear CW (1971) Numerical Initial Value Problems in Ordinary Differential Equations. Prentice Hall, Englewood Cliffs, NJ.
18. Geisler C, Brunel N, Wang X-J (2005) Contributions of intrinsic membrane dynamics to fast network oscillations with irregular neuronal discharges. J. Neurophysiol., page in press.
19. Gilbert CD, Wiesel TN (1983) Clustered intrinsic connections in cat visual cortex. J. Neurosci., 3: 1116-1133
20. Grinvald A, Heildesheim R (2004) VSDI: A new era in functional imaging of cortical dynamics. Nat. Rev. Neurosci., 5: 874-885
21. Hansel D, Mato G, Meunier C, Neltner L (1998) On numerical simulations of integrate-and-fire neural networks. Neural Comput., 10
22. Jancke D, Chavance F, Naaman S, Grinvald A (2004) Imaging cortical correlates of illusion in early visual cortex. Nature, 428: 423-426
23. Kenet T, Bibitchkov D, Tsodyks M, Grinvald A, Arieli A (2003) spontaneously emerging cortical representations of visual attributes. Nature, 425: 954-956
24. Koch C (1999) Biophysics of Computation. Oxford University Press, Oxford.
25. Lytton W, Hines ML (2005) Independent variable time-step integration of individual neurons for network simulations. Neural Comput, 17: 903-921
26. Lund JS (1987) Local circuit neurons of macaque monkey striate cortex: Neurons of laminae 4C and 5A. Journal of Comparative Neurology, 257: 60-92
27. Makino T (2003) A discrete-even neural network simulator for general neuron models. Neural Comput. and Appl., 11: 210-223
28. Marino J, Schummers J, Lyon DC, Schwabe L, Beck O, Wiesing P, Obermayer K, Sur M (2005) Invariant computations in local cortical networks with balanced excitation and inhibition. Nat. Neurosci., 8
29. McLaughlin D, Shapley R, Shelley M, Wielaard J (2000) A neuronal network model of macaque primary visual cortex (V1): Orientation selectivity and dynamics in the input layer 4Cα. Proc. Natl. Acad. Sci. USA, 97: 8087-8092
30. Morrison A, Mehring C, Geisel T, Aertsen A, Diesmann M (2005) Advancing the boundaries of high-connectivity network simulation with distributed computing. Neural Comput, 17: 1776-1801
31. Pare D, Shink E, Gaudreau H, Destexhe A, Lang EJ (1998) Impact of spontaneous synaptic activity on the resting properties of cat neocortical pyramidal neurons in vivo. J Neurophysiol, 79: 1450-1460
32. Rangan AV, Cai D, McLaughlin DW (2005) Modeling the spatiotemporal cortical activity associated with the line-motion illusion in primary visual cortex. Proc. Nat'l Acad. Sci (USA), 102(52): 18793-18800
33. Rauch A, LaCamera G, Luscher HR, Senn W, Fusi S (2003) Neocortical pyramidal cells respond as integrate-and-fire neurons to in vivo-like input currents. J. Neurophysiol., 90
34. Rochel O, Martinez D (2003) An event-driven framework for the simulation of networks of spiking neurons. In Proc. 11th European Symposium on Artificial Neural Networks d-side publications, 295-300
35. Rudolph M, Destexhe A. (2003a) A fast-conducting, stochastic integrative mode for neocortical neurons in vivo. J Neurosci, 23(6): 2466-2476
36. Rudolph M, Destexhe A (2003b) Characterization of subthreshold voltage fluctuations in neuronal membranes. Neural Comput, 15(11): 2577-2618
37. Rudolph M, Destexhe A (2003c) The discharge variability of neocortical neurons during high-conductance states. Neuroscience, 119(3): 855-873
38. Rudolph M, Destexhe A (2003d) Tuning neocortical pyramidal neurons between integrators and coincidence detectors. J Comput Neurosci, 14(3): 239-251
39. Shadlen MN, Newsome WT (1998) The variable discharge of cortical neurons: Implications for connectivity, computation and information coding. J Neurosci, 18: 3870-3896
40. Shelley MJ, Tao L (2001) Efficient and accurate time-stepping schemes for integrate-and-fire neuronal networks. J. Comput. Neurosci., 11
41. Sincich L, Blasdel G (2001) Oriented axon projections in primary visual cortex of the monkey. J. Neurosci., 21: 4416-4426
42. Somers D, Nelson S, Sur M (1995) An emergent model of orientation selectivity in cat visual cortical simple cells. J. of Neurosci., 15: 5448-5465
43. Stern EA, Kincaid AE, Wilson CJ (1997) Spontaneous subthreshold membrane potential fluctuations and action potential variability of rat corticostriatal and striatal neurons in vivo. J. Neurophysiol., 77: 1697-1715
44. Tao L, Shelley M, McLaughlin D, Shapley R (2003) An egalitarian network model for the emergence of simple and complex cells in visual cortex. PNAS.
45. Troyer T, Krukowski A, Priebe N, Miller K (1998) Contrast invariant orientation tuning in cat visual cortex with feedforward tuning and correlation based intracortical connectivity. J. Neurosci., 18: 5908-5927
46. Tsodyks M,Kenet T, Grinvald A, Arieli A (1999) Linking spontaneous activity of single cortical neurons and the underlying functional architecture. Science, 286: 1943-1946
47. Wang X-J (1999) Synaptic basis of cortical persistent activity: The importance of NMDA receptors to working memory. J Neurosci., 19: 9587-9603