Abeles M. (1991). Corticonics: Neural Circuits of the Cerebral Cortex..

Achard P, De Schutter E. (2006). Complex parameter landscape for a complex neuron model. PLoS computational biology. 2 [PubMed]

Azouz R, Gray CM. (2000). Dynamic spike threshold reveals a mechanism for synaptic coincidence detection in cortical neurons in vivo. Proceedings of the National Academy of Sciences of the United States of America. 97 [PubMed]

Badel L et al. (2008). Dynamic I-V curves are reliable predictors of naturalistic pyramidal-neuron voltage traces. Journal of neurophysiology. 99 [PubMed]

Beggs JM, Plenz D. (2003). Neuronal avalanches in neocortical circuits. The Journal of neuroscience : the official journal of the Society for Neuroscience. 23 [PubMed]

Bower JM, Beeman D. (1995). The Book of GENESIS: Exploring Realistic Neural Models with the GEneral NEural SImulation System..

Brandman R, Nelson ME. (2002). A simple model of long-term spike train regularization. Neural computation. 14 [PubMed]

Brette R, Gerstner W. (2005). Adaptive exponential integrate-and-fire model as an effective description of neuronal activity. Journal of neurophysiology. 94 [PubMed]

• Adaptive exponential integrate-and-fire model (Brette & Gerstner 2005) [Model]

Brette R et al. (2007). Simulation of networks of spiking neurons: a review of tools and strategies. Journal of computational neuroscience. 23 [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]

Bryant HL, Segundo JP. (1976). Spike initiation by transmembrane current: a white-noise analysis. The Journal of physiology. 260 [PubMed]

Bugmann G, Taylor JG, Christodoulou C. (1997). Role of temporal integration and fluctuation detection in the highly irregular firing of a leaky integrator neuron model with partial reset. Neural Comp. 9

Chacron MJ, Pakdaman K, Longtin A. (2003). Interspike interval correlations, memory, adaptation, and refractoriness in a leaky integrate-and-fire model with threshold fatigue. Neural computation. 15 [PubMed]

Destexhe A, Paré D. (1999). Impact of network activity on the integrative properties of neocortical pyramidal neurons in vivo. Journal of neurophysiology. 81 [PubMed]

• NN activity impact on neocortical pyr. neurons integrative properties in vivo (Destexhe & Pare 1999) [Model]

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

Diesmann M, Gewaltig MO, Aertsen A. (1999). Stable propagation of synchronous spiking in cortical neural networks. Nature. 402 [PubMed]

• Stable propagation of synchronous spiking in cortical neural networks (Diesmann et al 1999) [Model]

Fourcaud-Trocmé N, Hansel D, van Vreeswijk C, Brunel N. (2003). How spike generation mechanisms determine the neuronal response to fluctuating inputs. The Journal of neuroscience : the official journal of the Society for Neuroscience. 23 [PubMed]

Geisler CD, Goldberg JM. (1966). A stochastic model of the repetitive activity of neurons. Biophysical journal. 6 [PubMed]

Goldman MS, Golowasch J, Marder E, Abbott LF. (2001). Global structure, robustness, and modulation of neuronal models. The Journal of neuroscience : the official journal of the Society for Neuroscience. 21 [PubMed]

• Global structure, robustness, and modulation of neuronal models (Goldman et al. 2001) [Model]

Gray CM, McCormick DA. (1996). Chattering cells: superficial pyramidal neurons contributing to the generation of synchronous oscillations in the visual cortex. Science (New York, N.Y.). 274 [PubMed]

HODGKIN AL, HUXLEY AF. (1952). A quantitative description of membrane current and its application to conduction and excitation in nerve. The Journal of physiology. 117 [PubMed]

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

Hansel D, Sompolinsky H. (1998). Modeling feature selectivity in local cortical circuits. Methods in neuronal modeling..

Hille B. (2001). Ionic Channels of Excitable Membranes.

Hines ML, Carnevale NT. (1997). The NEURON simulation environment. Neural computation. 9 [PubMed]

Huys QJ, Ahrens MB, Paninski L. (2006). Efficient estimation of detailed single-neuron models. Journal of neurophysiology. 96 [PubMed]

• Efficient estimation of detailed single-neuron models (Huys et al. 2006) [Model]

Ikegaya Y et al. (2004). Synfire chains and cortical songs: temporal modules of cortical activity. Science (New York, N.Y.). 304 [PubMed]

Inoue J, Sato S, Ricciardi LM. (1995). On the parameter estimation for diffusion models of single neuron's activities. I. Application to spontaneous activities of mesencephalic reticular formation cells in sleep and waking states. Biological cybernetics. 73 [PubMed]

Izhikevich EM. (2004). Which model to use for cortical spiking neurons? IEEE transactions on neural networks. 15 [PubMed]

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

Izhikevich EM, Edelman GM. (2008). Large-scale model of mammalian thalamocortical systems. Proceedings of the National Academy of Sciences of the United States of America. 105 [PubMed]

Jolivet R et al. (2008). A benchmark test for a quantitative assessment of simple neuron models. Journal of neuroscience methods. 169 [PubMed]

• Spike Response Model simulator (Jolivet et al. 2004, 2006, 2008) [Model]

Jolivet R, Lewis TJ, Gerstner W. (2004). Generalized integrate-and-fire models of neuronal activity approximate spike trains of a detailed model to a high degree of accuracy. Journal of neurophysiology. 92 [PubMed]

• Spike Response Model simulator (Jolivet et al. 2004, 2006, 2008) [Model]

Jolivet R, Rauch A, Lüscher HR, Gerstner W. (2006). Predicting spike timing of neocortical pyramidal neurons by simple threshold models. Journal of computational neuroscience. 21 [PubMed]

• Spike Response Model simulator (Jolivet et al. 2004, 2006, 2008) [Model]

Jolivet R et al. (2008). The quantitative single-neuron modeling competition. Biological cybernetics. 99 [PubMed]

Kistler WM, Gerstner W. (2002). Spiking neuron models.

Kobayashi R, Shinomoto S. (2007). State space method for predicting the spike times of a neuron. Physical review. E, Statistical, nonlinear, and soft matter physics. 75 [PubMed]

Koch C. (1999). Biophysics Of Computation: Information Processing in Single Neurons.

Lansky P, Ditlevsen S. (2008). A review of the methods for signal estimation in stochastic diffusion leaky integrate-and-fire neuronal models. Biological cybernetics. 99 [PubMed]

Lansky P, Sanda P, He J. (2006). The parameters of the stochastic leaky integrate-and-fire neuronal model. Journal of computational neuroscience. 21 [PubMed]

Larkum ME, Senn W, Lüscher HR. (2004). Top-down dendritic input increases the gain of layer 5 pyramidal neurons. Cerebral cortex (New York, N.Y. : 1991). 14 [PubMed]

Mainen ZF, Sejnowski TJ. (1995). Reliability of spike timing in neocortical neurons. Science (New York, N.Y.). 268 [PubMed]

Markram H. (2006). The blue brain project. Nature reviews. Neuroscience. 7 [PubMed]

McCormick DA, Connors BW, Lighthall JW, Prince DA. (1985). Comparative electrophysiology of pyramidal and sparsely spiny stellate neurons of the neocortex. Journal of neurophysiology. 54 [PubMed]

McIntyre CC, Grill WM, Sherman DL, Thakor NV. (2004). Cellular effects of deep brain stimulation: model-based analysis of activation and inhibition. Journal of neurophysiology. 91 [PubMed]

Mihalaş S, Niebur E. (2009). A generalized linear integrate-and-fire neural model produces diverse spiking behaviors. Neural computation. 21 [PubMed]

Miura K, Tsubo Y, Okada M, Fukai T. (2007). Balanced excitatory and inhibitory inputs to cortical neurons decouple firing irregularity from rate modulations. The Journal of neuroscience : the official journal of the Society for Neuroscience. 27 [PubMed]

Nelder JA, Mead J. (1965). A simplex algorithm for function minimization Computer J. 7

Nowak LG, Azouz R, Sanchez-Vives MV, Gray CM, McCormick DA. (2003). Electrophysiological classes of cat primary visual cortical neurons in vivo as revealed by quantitative analyses. Journal of neurophysiology. 89 [PubMed]

Pinsky PF, Rinzel J. (1994). Intrinsic and network rhythmogenesis in a reduced Traub model for CA3 neurons. Journal of computational neuroscience. 1 [PubMed]

• CA3 pyramidal cell: rhythmogenesis in a reduced Traub model (Pinsky, Rinzel 1994) [Model]

Plesser HE, Diesmann M. (2009). Simplicity and efficiency of integrate-and-fire neuron models. Neural computation. 21 [PubMed]

Robinson HP, Kawai N. (1993). Injection of digitally synthesized synaptic conductance transients to measure the integrative properties of neurons. Journal of neuroscience methods. 49 [PubMed]

STEIN RB. (1965). A THEORETICAL ANALYSIS OF NEURONAL VARIABILITY. Biophysical journal. 5 [PubMed]

Sharp AA, O'Neil MB, Abbott LF, Marder E. (1993). The dynamic clamp: artificial conductances in biological neurons. Trends in neurosciences. 16 [PubMed]

Shinomoto S et al. (2009). Relating neuronal firing patterns to functional differentiation of cerebral cortex. PLoS computational biology. 5 [PubMed]

Shinomoto S, Sakai Y, Funahashi S. (1999). The Ornstein-Uhlenbeck process does not reproduce spiking statistics of neurons in prefrontal cortex. Neural computation. 11 [PubMed]

Stevens CF, Zador AM. (1998). Input synchrony and the irregular firing of cortical neurons. Nature neuroscience. 1 [PubMed]

Traub RD et al. (2005). Single-column thalamocortical network model exhibiting gamma oscillations, sleep spindles, and epileptogenic bursts. Journal of neurophysiology. 93 [PubMed]

• A single column thalamocortical network model (Traub et al 2005) [Model]
• Collection of simulated data from a thalamocortical network model (Glabska, Chintaluri, Wojcik 2017) [Model]

Troyer TW, Miller KD. (1997). Physiological gain leads to high ISI variability in a simple model of a cortical regular spiking cell. Neural computation. 9 [PubMed]

Tsubo Y, Kaneko T, Shinomoto S. (2004). Predicting spike timings of current-injected neurons. Neural networks : the official journal of the International Neural Network Society. 17 [PubMed]

Tsubo Y, Takada M, Reyes AD, Fukai T. (2007). Layer and frequency dependencies of phase response properties of pyramidal neurons in rat motor cortex. The European journal of neuroscience. 25 [PubMed]

Tuckwell HC, Richter W. (1978). Neuronal interspike time distributions and the estimation of neurophysiological and neuroanatomical parameters. Journal of theoretical biology. 71 [PubMed]

Uhlenbeck GE, Ornstein LS. (1930). On the theory of Brownian motion Phys Rev. 36

Victor JD, Purpura KP. (1996). Nature and precision of temporal coding in visual cortex: a metric-space analysis. Journal of neurophysiology. 76 [PubMed]

Yang CR, Seamans JK, Gorelova N. (1996). Electrophysiological and morphological properties of layers V-VI principal pyramidal cells in rat prefrontal cortex in vitro. The Journal of neuroscience : the official journal of the Society for Neuroscience. 16 [PubMed]

Huang C, Zeldenrust F, Celikel T. (2022). Cortical Representation of Touch in Silico Neuroinformatics. 20 [PubMed]

• Realistic barrel cortical column - Matlab (Huang et al., 2022) [Model]
• Realistic barrel cortical column - NetPyNE (Huang et al., 2022) [Model]

Marasco A et al. (2023). An Adaptive Generalized Leaky Integrate-and-Fire Model for Hippocampal CA1 Pyramidal Neurons and Interneurons. Bulletin of mathematical biology. 85 [PubMed]

• Adaptive Generalized Leaky Integrate-and-Fire Model (AGLIF) (Marasco et al., 2023) [Model]

Masquelier T, Saeed Reza. (2018). Optimal localist and distributed coding of spatiotemporal spike patterns through STDP and coincidence detection Front. Comput. Neurosci..

• Optimal Localist and Distributed Coding Through STDP (Masquelier & Kheradpisheh 2018) [Model]

Mensi S et al. (2012). Parameter extraction and classification of three cortical neuron types reveals two distinct adaptation mechanisms. Journal of neurophysiology. 107 [PubMed]

• Extraction and classification of three cortical neuron types (Mensi et al. 2012) [Model]

Richert M, Nageswaran JM, Dutt N, Krichmar JL. (2011). An efficient simulation environment for modeling large-scale cortical processing. Frontiers in neuroinformatics. 5 [PubMed]

• Efficient simulation environment for modeling large-scale cortical processing (Richert et al. 2011) [Model]

Vich C, Berg RW, Guillamon A, Ditlevsen S. (2017). Estimation of Synaptic Conductances in Presence of Nonlinear Effects Caused by Subthreshold Ionic Currents. Frontiers in computational neuroscience. 11 [PubMed]

• QIF method to estimate synaptic conductances (Vich et al 2017) [Model]