 Models 
1. 
3Dprinter visualization of NEURON models (McDougal and Shepherd, 2015)

2. 
A comparative computer simulation of dendritic morphology (Donohue and Ascoli 2008)

3. 
A CORF computational model of a simple cell that relies on LGN input (Azzopardi & Petkov 2012)

4. 
A detailed datadriven network model of prefrontal cortex (Hass et al 2016)

5. 
A fast model of voltagedependent NMDA Receptors (Moradi et al. 2013)

6. 
A finite volume method for stochastic integrateandfire models (Marpeau et al. 2009)

7. 
A generic MAPK cascade model for random parameter sampling analysis (Mai and Liu 2013)

8. 
A set of reduced models of layer 5 pyramidal neurons (Bahl et al. 2012)

9. 
A simplified cerebellar Purkinje neuron (the PPR model) (Brown et al. 2011)

10. 
Accurate and fast simulation of channel noise in conductancebased model neurons (Linaro et al 2011)

11. 
Activity constraints on stable neuronal or network parameters (Olypher and Calabrese 2007)

12. 
Allosteric gating of K channels (Horrigan et al 1999)

13. 
Analytical modelling of temperature effects on an AMPAtype synapse (Kufel & Wojcik 2018)

14. 
Analyzing neural time series data theory and practice (Cohen 2014)

15. 
AP shape and parameter constraints in optimization of compartment models (Weaver and Wearne 2006)

16. 
Automated metadata suggester (McDougal et al 2018)

17. 
Boolean networkbased analysis of the apoptosis network (Mai and Liu 2009)

18. 
Brain Dynamics Toolbox (Heitmann & Breakspear 2016, 2017, 2018)

19. 
Brain networks simulators  a comparative study (TikidjiHamburyan et al 2017)

20. 
Cell splitting in neural networks extends strong scaling (Hines et al. 2008)

21. 
Channel density variability among CA1 neurons (Migliore et al. 2018)

22. 
Channel parameter estimation from current clamp and neuronal properties (Toth, Crunelli 2001)

23. 
Code to calc. spiketrig. ave (STA) conduct. from Vm (Pospischil et al. 2007, Rudolph et al. 2007)

24. 
Collection of simulated data from a thalamocortical network model (Glabska, Chintaluri, Wojcik 2017)

25. 
Comparison of full and reduced globus pallidus models (Hendrickson 2010)

26. 
Composite spiking network/neural field model of Parkinsons (Kerr et al 2013)

27. 
Connectionset Algebra (CSA) for the representation of connectivity in NN models (Djurfeldt 2012)

28. 
Constructed Tessellated Neuronal Geometries (CTNG) (McDougal et al. 2013)

29. 
Datadriven, HHtype model of the lateral pyloric (LP) cell in the STG (Nowotny et al. 2008)

30. 
Detailed analysis of trajectories in the Morris water maze (Gehring et al. 2015)

31. 
Dipole Localization Kit (Mechler & Victor, 2012)

32. 
Discrete event simulation in the NEURON environment (Hines and Carnevale 2004)

33. 
Distinct current modules shape cellular dynamics in model neurons (Alturki et al 2016)

34. 
Distributed computing tool for NEURON, NEURONPM (screensaver) (CalinJageman and Katz 2006)

35. 
DynaSim: a MATLAB toolbox for neural modeling and simulation (Sherfey et al 2018)

36. 
Efficient estimation of detailed singleneuron models (Huys et al. 2006)

37. 
Efficient simulation environment for modeling largescale cortical processing (Richert et al. 2011)

38. 
Electrodiffusive astrocytic and extracellular ion concentration dynamics model (Halnes et al. 2013)

39. 
Evaluation of stochastic diff. eq. approximation of ion channel gating models (Bruce 2009)

40. 
Extracellular fields for a threedimensional network of cells using NEURON (Appukuttan et al 2017)

41. 
Fast population coding (Huys et al. 2007)

42. 
Fully Implicit Parallel Simulation of Single Neurons (Hines et al. 2008)

43. 
Gap junction subtypes (Appukuttan et al 2016)

44. 
GC model (Beining et al 2017)

45. 
Generating neuron geometries for detailed 3D simulations using AnaMorph (Morschel et al 2017)

46. 
Generic Bidirectional Realtime Neural Interface (Zrenner et al. 2010)

47. 
GLMCC validation neural network model (Kobayashi et al. 2019)

48. 
Globus pallidus multicompartmental model neuron with realistic morphology (Gunay et al. 2008)

49. 
Graphtheoretical Derivation of Brain Structural Connectivity (Giacopelli et al 2020)

50. 
HighRes. Recordings Using a RealTime Computational Model of the Electrode (Brette et al. 2008)

51. 
Hippocampal CA1 NN with spontaneous theta, gamma: full scale & network clamp (Bezaire et al 2016)

52. 
Impact of dendritic size and topology on pyramidal cell burst firing (van Elburg and van Ooyen 2010)

53. 
Impedance spectrum in cortical tissue: implications for LFP signal propagation (Miceli et al. 2017)

54. 
Implementation issues in approximate methods for stochastic HodgkinHuxley models (Bruce 2007)

55. 
Increased computational accuracy in multicompartmental cable models (Lindsay et al. 2005)

56. 
Inferring connection proximity in electrically coupled networks (Cali et al. 2007)

57. 
Ion channel modeling with whole cell and a genetic algorithm (Gurkiewicz and Korngreen 2007)

58. 
KInNeSS : a modular framework for computational neuroscience (Versace et al. 2008)

59. 
Large scale neocortical model for PGENESIS (Crone et al 2019)

60. 
Local variable time step method (Lytton, Hines 2005)

61. 
Mapping function onto neuronal morphology (Stiefel and Sejnowski 2007)

62. 
Markov Chainbased Stochastic Shielding Hodgkin Huxley Model (Schmandt, Galan 2012)

63. 
MATLAB for brain and cognitive scientists (Cohen 2017)

64. 
Mature and young adultborn dentate granule cell models (T2N interface) (Beining et al. 2017)

65. 
Mean Field Equations for TwoDimensional Integrate and Fire Models (Nicola and Campbell, 2013)

66. 
Measuring neuronal identification quality in ensemble recordings (isoitools) (Neymotin et al. 2011)

67. 
Method for counting motor units in mice (Major et al 2007)

68. 
Method for deriving general HH neuron model`s spiking inputoutput relation (Soudry & Meir 2014)

69. 
Method of probabilistic principle surfaces (PPS) (Chang and Ghosh 2001)

70. 
Model predictive control model for an isometric motor task (Ueyama 2017)

71. 
Modeling single neuron LFPs and extracellular potentials with LFPsim (Parasuram et al. 2016)

72. 
Modelling large scale electrodiffusion near morphologically detailed neurons (Solbra et al 2018)

73. 
ModelView: online structural analysis of computational models (McDougal et al. 2015)

74. 
ModFossa: a library for modeling ion channels using Python (Ferneyhough et al 2016)

75. 
Moose/PyMOOSE: interoperable scripting in Python for MOOSE (Ray and Bhalla 2008)

76. 
Motion Clouds: Synthesis of random textures for motion perception (Leon et al. 2012)

77. 
Motoneuron simulations for counting motor units (Major and Jones 2005)

78. 
NETMORPH: creates NNs with realistic neuron morphologies (Koene et al. 2009, van Ooyen et al. 2014)

79. 
Networks of spiking neurons: a review of tools and strategies (Brette et al. 2007)

80. 
Neural Interactome: interactive simulation of a neuronal system (Kim et al 2019)

81. 
Neural mass model based on single cell dynamics to model pathophysiology (Zandt et al 2014)

82. 
Neural Query System NQS DataMining From Within the NEURON Simulator (Lytton 2006)

83. 
NEUROFIT: fitting HH models to voltage clamp data (Willms 2002)

84. 
NeuroManager: a workflow analysis based simulation management engine (Stockton & Santamaria 2015)

85. 
NEURON + Python (Hines et al. 2009)

86. 
NEURON interfaces to MySQL and the SPUD feature extraction algorithm (Neymotin et al. 2008)

87. 
Neuronbased control mechanisms for a robotic arm and hand (Singh et al 2017)

88. 
Neuronvisio: a gui with 3D capabilities for NEURON (Mattioni et al. 2012)

89. 
Norns  Neural Network Studio (Visser & Van Gils 2014)

90. 
Numerical Integration of Izhikevich and HH model neurons (Stewart and Bair 2009)

91. 
On stochastic diff. eq. models for ion channel noise in HodgkinHuxley neurons (Goldwyn et al. 2010)

92. 
Oversampling method to extract excitatory and inhibitory conductances (Bedard et al. 2012)

93. 
Parallel network simulations with NEURON (Migliore et al 2006)

94. 
Parallel STEPS: Large scale stochastic spatial reactiondiffusion simulat. (Chen & De Schutter 2017)

95. 
Parallelizing large networks in NEURON (Lytton et al. 2016)

96. 
Parameter optimization using CMAES (JedrzejewskiSzmek et al 2018)

97. 
Phaselocking analysis with transcranial magnetoacoustical stimulation (Yuan et al 2017)

98. 
Properties of aconitineinduced block of KDR current in NG10815 neurons (Lin et al. 2008)

99. 
PyRhO: A multiscale optogenetics simulation platform (Evans et al 2016)

100. 
Python demo of the VmT method to extract conductances from single Vm traces (Pospischil et al. 2009)

101. 
Quantitative assessment of computational models for retinotopic map formation (Hjorth et al. 2015)

102. 
Recording from rod bipolar axon terminals in situ (Oltedal et al 2007)

103. 
Reduction of nonlinear ODE systems possessing multiple scales (Clewley et al. 2005)

104. 
Response properties of neocort. neurons to temporally modulated noisy inputs (Koendgen et al. 2008)

105. 
Reversetime correlation analysis for idealized orientation tuning dynamics (Kovacic et al. 2008)

106. 
ROOTS: An Algorithm to Generate Biologically Realistic Cortical Axons (Bingham et al 2020)

107. 
Simulating ion channel noise in an auditory brainstem neuron model (Schmerl & McDonnell 2013)

108. 
Sloppy morphological tuning in identified neurons of the crustacean STG (Otopalik et al 2017)

109. 
Smoothing of, and parameter estimation from, noisy biophysical recordings (Huys & Paninski 2009)

110. 
Software (called Optimizer) for fitting neuronal models (Friedrich et al. 2014)

111. 
Spatial gridding and temporal accuracy in NEURON (Hines and Carnevale 2001)

112. 
Spectral method and highorder finite differences for nonlinear cable (Omurtag and Lytton 2010)

113. 
Spike exchange methods for a Blue Gene/P supercomputer (Hines et al., 2011)

114. 
Structuredynamics relationships in bursting neuronal networks revealed (MäkiMarttunen et al. 2013)

115. 
The cannula artifact (Chandler & Hodgkin 1965)

116. 
The neuroelectronic junction (planar and engulfed electrodes) (Massobrio et al 2018)

117. 
Theta phase precession in a model CA3 place cell (Baker and Olds 2007)

118. 
Translating network models to parallel hardware in NEURON (Hines and Carnevale 2008)

119. 
Vectorized algorithms for spiking neural network simulation (Brette and Goodman 2011)

120. 
Voltage and lightsensitive Channelrhodopsin2 model (ChR2) (Williams et al. 2013)

121. 
Voltage imaging calibration in tuft dendrites of mitral cells (Djurisic et al 2004)
