Citation Relationships



Lytton WW, Seidenstein AH, Dura-Bernal S, McDougal RA, Schürmann F, Hines ML (2016) Simulation Neurotechnologies for Advancing Brain Research: Parallelizing Large Networks in NEURON. Neural Comput 28:2063-90 [PubMed]

   Parallelizing large networks in NEURON (Lytton et al. 2016)

References and models cited by this paper

References and models that cite this paper

Bezaire MJ, Soltesz I (2013) Quantitative assessment of CA1 local circuits: knowledge base for interneuron-pyramidal cell connectivity. Hippocampus 23:751-85 [Journal] [PubMed]

Brette R, Rudolph M, Carnevale T, Hines M, Beeman D, Bower JM, Diesmann M, Morrison A, Goodman PH, Harris FC, Zirpe M, Natschläger T, Pecevski D, Ermentrout B, Djurfeldt M, Lansner A, Rochel O, Vieville T, Muller E, Davison AP, El Boustani S, Destexhe A (2007) Simulation of networks of spiking neurons: a review of tools and strategies. J Comput Neurosci 23:349-98 [Journal] [PubMed]

   Networks of spiking neurons: a review of tools and strategies (Brette et al. 2007) [Model]
   Thalamocortical Relay cell under current clamp in high-conductance state (Zeldenrust et al 2018) [Model]

Carnevale NT, Hines ML (2006) The NEURON Book [Journal]

Cornelis H, Rodriguez AL, Coop AD, Bower JM (2012) Python as a federation tool for GENESIS 3.0. PLoS One 7:e29018 [Journal] [PubMed]

Davison AP, Brüderle D, Eppler J, Kremkow J, Muller E, Pecevski D, Perrinet L, Yger P (2008) PyNN: A Common Interface for Neuronal Network Simulators. Front Neuroinform 2:11 [Journal] [PubMed]

Davison AP, Hines ML, Muller E (2009) Trends in programming languages for neuroscience simulations. Front Neurosci 3:374-80 [Journal] [PubMed]

Djurfeldt M, Davison AP, Eppler JM (2014) Efficient generation of connectivity in neuronal networks from simulator-independent descriptions. Front Neuroinform 8:43 [Journal] [PubMed]

Djurfeldt M, Hjorth J, Eppler JM, Dudani N, Helias M, Potjans TC, Bhalla US, Diesmann M, Kotaleski JH, Ekeberg O (2010) Run-time interoperability between neuronal network simulators based on the MUSIC framework. Neuroinformatics 8:43-60 [Journal] [PubMed]

Eppler JM, Helias M, Muller E, Diesmann M, Gewaltig MO (2008) PyNEST: A Convenient Interface to the NEST Simulator. Front Neuroinform 2:12 [Journal] [PubMed]

Gardner D, Toga AW, Ascoli GA, Beatty JT, Brinkley JF, Dale AM, Fox PT, Gardner EP, George JS, Goddard N, Harris KM, Herskovits EH, Hines ML, Jacobs GA, Jacobs RE, Jones EG, Kennedy DN, Kimberg DY, Mazziotta JC, Miller PL, Mori S, Mountain DC, Reiss AL, Rosen GD, Rottenberg DA, Shepherd GM, Smalheiser NR, Smith KP, Strachan T, Van Essen DC, Williams RW, Wong ST (2003) Towards effective and rewarding data sharing. Neuroinformatics 1:289-95 [Journal] [PubMed]

Gewaltig M-O, Diesmann M (2007) NEST (Neural Simulation Tool) Scholarpedia 2:1430

Goodman DF, Brette R (2009) The brian simulator. Front Neurosci 3:192-7 [Journal] [PubMed]

Helias M, Kunkel S, Masumoto G, Igarashi J, Eppler JM, Ishii S, Fukai T, Morrison A, Diesmann M (2012) Supercomputers ready for use as discovery machines for neuroscience. Front Neuroinform 6:26 [Journal] [PubMed]

Hines M, Kumar S, Schürmann F (2011) Comparison of neuronal spike exchange methods on a Blue Gene/P supercomputer. Front Comput Neurosci 5:49 [Journal] [PubMed]

   Spike exchange methods for a Blue Gene/P supercomputer (Hines et al., 2011) [Model]

Hines ML, Carnevale NT (2001) NEURON: a tool for neuroscientists. Neuroscientist 7:123-35 [Journal] [PubMed]

   Spatial gridding and temporal accuracy in NEURON (Hines and Carnevale 2001) [Model]

Hines ML, Carnevale NT (2004) Discrete event simulation in the NEURON environment. Neurocomputing 58-60:1117-1122 [Journal]

   Discrete event simulation in the NEURON environment (Hines and Carnevale 2004) [Model]

Hines ML, Carnevale NT (2008) Translating network models to parallel hardware in NEURON. J Neurosci Methods 169:425-55 [Journal] [PubMed]

   Translating network models to parallel hardware in NEURON (Hines and Carnevale 2008) [Model]

Hines ML, Davison AP, Muller E (2009) NEURON and Python. Front Neuroinform 3:1 [Journal] [PubMed]

   NEURON + Python (Hines et al. 2009) [Model]

Hines ML, Eichner H, Schürmann F (2008) Neuron splitting in compute-bound parallel network simulations enables runtime scaling with twice as many processors. J Comput Neurosci 25:203-10 [Journal] [PubMed]

   Cell splitting in neural networks extends strong scaling (Hines et al. 2008) [Model]

Hines ML, Morse TM, Carnevale NT (2007) Model structure analysis in NEURON : toward interoperability among neural simulators. Methods Mol Biol 401:91-102 [Journal] [PubMed]

HODGKIN AL, HUXLEY AF (1952) A quantitative description of membrane current and its application to conduction and excitation in nerve. J Physiol 117:500-44 [Journal] [PubMed]

   Squid axon (Hodgkin, Huxley 1952) (LabAXON) [Model]
   Squid axon (Hodgkin, Huxley 1952) (NEURON) [Model]
   Squid axon (Hodgkin, Huxley 1952) (SNNAP) [Model]
   Squid axon (Hodgkin, Huxley 1952) used in (Chen et al 2010) (R language) [Model]
   Squid axon (Hodgkin, Huxley 1952) (SBML, XPP, other) [Model]

Izhikevich EM (2007) Dynamical Systems in Neuroscience: The Geometry of Excitability and Bursting [Journal]

   Artificial neuron model (Izhikevich 2003, 2004, 2007) [Model]

Linton MA,Vissides JM,Calder PR (1989) Composing user interfaces with interviews Computer 22:8-22

Lytton WW (2006) Neural Query System: Data-mining from within the NEURON simulator. Neuroinformatics 4:163-76 [Journal] [PubMed]

   Neural Query System NQS Data-Mining From Within the NEURON Simulator (Lytton 2006) [Model]

Lytton WW, Contreras D, Destexhe A, Steriade M (1997) Dynamic interactions determine partial thalamic quiescence in a computer network model of spike-and-wave seizures. J Neurophysiol 77:1679-96 [Journal] [PubMed]

   Thalamic quiescence of spike and wave seizures (Lytton et al 1997) [Model]

Lytton WW, Hines M (2004) Hybrid neural networks--combining abstract and realistic neural units. Conf Proc IEEE Eng Med Biol Soc 6:3996-8 [Journal] [PubMed]

Lytton WW, Hines ML (2005) Independent variable time-step integration of individual neurons for network simulations. Neural Comput 17:903-21 [Journal] [PubMed]

   Local variable time step method (Lytton, Hines 2005) [Model]

Lytton WW, Neymotin SA, Hines ML (2008) The virtual slice setup. J Neurosci Methods 171:309-15 [Journal] [PubMed]

   The virtual slice setup (Lytton et al. 2008) [Model]

Lytton WW, Stewart M (2007) Data mining through simulation. Methods Mol Biol 401:155-66 [Journal] [PubMed]

McDougal RA, Bulanova AS, Lytton WW (2016) Reproducibility in Computational Neuroscience Models and Simulations. IEEE Trans Biomed Eng 63:2021-35 [Journal] [PubMed]

McDougal RA, Hines ML, Lytton WW (2013) Reaction-diffusion in the NEURON simulator. Front Neuroinform 7:28 [Journal] [PubMed]

   Reaction-diffusion in the NEURON simulator (McDougal et al 2013) [Model]

Migliore M, Cannia C, Lytton WW, Markram H, Hines ML (2006) Parallel network simulations with NEURON. J Comput Neurosci 21:119-29 [Journal] [PubMed]

   Parallel network simulations with NEURON (Migliore et al 2006) [Model]

Ray S, Bhalla US (2008) PyMOOSE: Interoperable Scripting in Python for MOOSE. Front Neuroinform 2:6 [Journal] [PubMed]

   Moose/PyMOOSE: interoperable scripting in Python for MOOSE (Ray and Bhalla 2008) [Model]

Salmon J,Moraes M,Dror R, Shaw D (2011) Parallel random numbers: As easy as 1,2,3. Proceedings of 2011 International Conference for High Performance Computing, Networking, Storage and Analysis

Schmitt O, Eipert P (2012) neuroVIISAS: approaching multiscale simulation of the rat connectome. Neuroinformatics 10:243-67 [Journal] [PubMed]

Sivagnanam S, Majumdar A, Yoshimoto K, Astakhov V, Bandrowski A, Martone M, Carnevale NT (2015) Early experiences in developing and managing the neuroscience gateway. Concurr Comput 27:473-488 [Journal] [PubMed]

Sneddon MW, Faeder JR, Emonet T (2011) Efficient modeling, simulation and coarse-graining of biological complexity with NFsim. Nat Methods 8:177-83 [Journal] [PubMed]

Yamazaki T, Ikeno H, Okumura Y, Satoh S, Kamiyama Y, Hirata Y, Inagaki K, Ishihara A, Kannon T, Usui S (2011) Simulation Platform: a cloud-based online simulation environment. Neural Netw 24:693-8 [Journal] [PubMed]

Zenke F, Gerstner W (2014) Limits to high-speed simulations of spiking neural networks using general-purpose computers. Front Neuroinform 8:76 [Journal] [PubMed]

Dura-Bernal S, Neymotin SA, Kerr CC, Sivagnanam S, Majumdar A, Francis JT, Lytton WW (2017) Evolutionary algorithm optimization of biological learning parameters in a biomimetic neuroprosthesis. IBM Journal of Research and Development (Computational Neuroscience special issue) 61(2/3):6:1-6:14 [Journal]

   Motor system model with reinforcement learning drives virtual arm (Dura-Bernal et al 2017) [Model]

(40 refs)