Literature DB >> 15829094

Independent variable time-step integration of individual neurons for network simulations.

William W Lytton1, Michael L Hines.   

Abstract

Realistic neural networks involve the coexistence of stiff, coupled, continuous differential equations arising from the integrations of individual neurons, with the discrete events with delays used for modeling synaptic connections. We present here an integration method, the local variable time-step method (lvardt), that uses separate variable-step integrators for individual neurons in the network. Cells that are undergoing excitation tend to have small time steps, and cells that are at rest with little synaptic input tend to have large time steps. A synaptic input to a cell causes reinitialization of only that cell's integrator without affecting the integration of other cells. We illustrated the use of lvardt on three models: a worst-case synchronizing mutual-inhibition model, a best-case synfire chain model, and a more realistic thalamocortical network model.

Mesh:

Year:  2005        PMID: 15829094      PMCID: PMC2712447          DOI: 10.1162/0899766053429453

Source DB:  PubMed          Journal:  Neural Comput        ISSN: 0899-7667            Impact factor:   2.026


  9 in total

1.  Efficient event-driven simulation of large networks of spiking neurons and dynamical synapses.

Authors:  M Mattia; P Del Giudice
Journal:  Neural Comput       Date:  2000-10       Impact factor: 2.026

Review 2.  NEURON: a tool for neuroscientists.

Authors:  M L Hines; N T Carnevale
Journal:  Neuroscientist       Date:  2001-04       Impact factor: 7.519

3.  On embedding synfire chains in a balanced network.

Authors:  Y Aviel; C Mehring; M Abeles; D Horn
Journal:  Neural Comput       Date:  2003-06       Impact factor: 2.026

4.  ModelDB: A Database to Support Computational Neuroscience.

Authors:  Michael L Hines; Thomas Morse; Michele Migliore; Nicholas T Carnevale; Gordon M Shepherd
Journal:  J Comput Neurosci       Date:  2004 Jul-Aug       Impact factor: 1.621

Review 5.  Synthesis of models for excitable membranes, synaptic transmission and neuromodulation using a common kinetic formalism.

Authors:  A Destexhe; Z F Mainen; T J Sejnowski
Journal:  J Comput Neurosci       Date:  1994-08       Impact factor: 1.621

6.  Gamma oscillation by synaptic inhibition in a hippocampal interneuronal network model.

Authors:  X J Wang; G Buzsáki
Journal:  J Neurosci       Date:  1996-10-15       Impact factor: 6.167

7.  Computational models of thalamocortical augmenting responses.

Authors:  M Bazhenov; I Timofeev; M Steriade; T J Sejnowski
Journal:  J Neurosci       Date:  1998-08-15       Impact factor: 6.167

8.  Nature and precision of temporal coding in visual cortex: a metric-space analysis.

Authors:  J D Victor; K P Purpura
Journal:  J Neurophysiol       Date:  1996-08       Impact factor: 2.714

9.  Optimizing synaptic conductance calculation for network simulations.

Authors:  W W Lytton
Journal:  Neural Comput       Date:  1996-04-01       Impact factor: 2.026

  9 in total
  15 in total

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

Authors:  Aaditya V Rangan; David Cai
Journal:  J Comput Neurosci       Date:  2006-07-28       Impact factor: 1.621

2.  Parallel network simulations with NEURON.

Authors:  M Migliore; C Cannia; W W Lytton; Henry Markram; M L Hines
Journal:  J Comput Neurosci       Date:  2006-05-26       Impact factor: 1.621

Review 3.  Simulation of networks of spiking neurons: a review of tools and strategies.

Authors:  Romain Brette; Michelle Rudolph; Ted Carnevale; Michael Hines; David Beeman; James M Bower; Markus Diesmann; Abigail Morrison; Philip H Goodman; Frederick C Harris; Milind Zirpe; Thomas Natschläger; Dejan Pecevski; Bard Ermentrout; Mikael Djurfeldt; Anders Lansner; Olivier Rochel; Thierry Vieville; Eilif Muller; Andrew P Davison; Sami El Boustani; Alain Destexhe
Journal:  J Comput Neurosci       Date:  2007-07-12       Impact factor: 1.621

4.  Voltage-stepping schemes for the simulation of spiking neural networks.

Authors:  G Zheng; A Tonnelier; D Martinez
Journal:  J Comput Neurosci       Date:  2008-11-26       Impact factor: 1.621

5.  Fully implicit parallel simulation of single neurons.

Authors:  Michael L Hines; Henry Markram; Felix Schürmann
Journal:  J Comput Neurosci       Date:  2008-04-01       Impact factor: 1.621

6.  Simulation Neurotechnologies for Advancing Brain Research: Parallelizing Large Networks in NEURON.

Authors:  William W Lytton; Alexandra H Seidenstein; Salvador Dura-Bernal; Robert A McDougal; Felix Schürmann; Michael L Hines
Journal:  Neural Comput       Date:  2016-08-24       Impact factor: 2.026

7.  A general and efficient method for incorporating precise spike times in globally time-driven simulations.

Authors:  Alexander Hanuschkin; Susanne Kunkel; Moritz Helias; Abigail Morrison; Markus Diesmann
Journal:  Front Neuroinform       Date:  2010-10-05       Impact factor: 4.081

8.  Just-in-time connectivity for large spiking networks.

Authors:  William W Lytton; Ahmet Omurtag; Samuel A Neymotin; Michael L Hines
Journal:  Neural Comput       Date:  2008-11       Impact factor: 2.026

Review 9.  Credibility, Replicability, and Reproducibility in Simulation for Biomedicine and Clinical Applications in Neuroscience.

Authors:  Lealem Mulugeta; Andrew Drach; Ahmet Erdemir; C A Hunt; Marc Horner; Joy P Ku; Jerry G Myers; Rajanikanth Vadigepalli; William W Lytton
Journal:  Front Neuroinform       Date:  2018-04-16       Impact factor: 4.081

10.  Meeting the memory challenges of brain-scale network simulation.

Authors:  Susanne Kunkel; Tobias C Potjans; Jochen M Eppler; Hans Ekkehard Plesser; Abigail Morrison; Markus Diesmann
Journal:  Front Neuroinform       Date:  2012-01-24       Impact factor: 4.081

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