Antunes G, De Schutter E. (2012). A stochastic signaling network mediates the probabilistic induction of cerebellar long-term depression. The Journal of neuroscience : the official journal of the Society for Neuroscience. 32 [PubMed]

• Cerebellar long-term depression (LTD) (Antunes and De Schutter 2012) [Model]

Anwar H, Hepburn I, Nedelescu H, Chen W, De Schutter E. (2013). Stochastic calcium mechanisms cause dendritic calcium spike variability. The Journal of neuroscience : the official journal of the Society for Neuroscience. 33 [PubMed]

• Stochastic calcium mechanisms cause dendritic calcium spike variability (Anwar et al. 2013) [Model]

Anwar H, Hong S, De Schutter E. (2012). Controlling Ca2+-activated K+ channels with models of Ca2+ buffering in Purkinje cells. Cerebellum (London, England). 11 [PubMed]

• Controlling KCa channels with different Ca2+ buffering models in Purkinje cell (Anwar et al. 2012) [Model]

Augustine GJ, Santamaria F, Tanaka K. (2003). Local calcium signaling in neurons. Neuron. 40 [PubMed]

Berridge MJ. (1998). Neuronal calcium signaling. Neuron. 21 [PubMed]

Canepari M, Vogt KE. (2008). Dendritic spike saturation of endogenous calcium buffer and induction of postsynaptic cerebellar LTP. PloS one. 3 [PubMed]

Cannon RC, Turner DA, Pyapali GK, Wheal HV. (1998). An on-line archive of reconstructed hippocampal neurons. Journal of neuroscience methods. 84 [PubMed]

Cox DH, Cui J, Aldrich RW. (1997). Allosteric gating of a large conductance Ca-activated K+ channel. The Journal of general physiology. 110 [PubMed]

De Schutter E. (2010). Data publishing and scientific journals: the future of the scientific paper in a world of shared data. Neuroinformatics. 8 [PubMed]

De Schutter E, Bower JM. (1994). An active membrane model of the cerebellar Purkinje cell. I. Simulation of current clamps in slice. Journal of neurophysiology. 71 [PubMed]

• Cerebellar purkinje cell (De Schutter and Bower 1994) [Model]

Destexhe A, Mainen ZF, Sejnowski TJ. (1994). Synthesis of models for excitable membranes, synaptic transmission and neuromodulation using a common kinetic formalism. Journal of computational neuroscience. 1 [PubMed]

• Application of a common kinetic formalism for synaptic models (Destexhe et al 1994) [Model]
• Kinetic synaptic models applicable to building networks (Destexhe et al 1998) [Model]

Fakler B, Adelman JP. (2008). Control of K(Ca) channels by calcium nano/microdomains. Neuron. 59 [PubMed]

Gold C, Henze DA, Koch C. (2007). Using extracellular action potential recordings to constrain compartmental models. Journal of computational neuroscience. 23 [PubMed]

• Extracellular Action Potential Simulations (Gold et al 2007) [Model]

Goldberg JH, Lacefield CO, Yuste R. (2004). Global dendritic calcium spikes in mouse layer 5 low threshold spiking interneurones: implications for control of pyramidal cell bursting. The Journal of physiology. 558 [PubMed]

Golding NL, Jung HY, Mickus T, Spruston N. (1999). Dendritic calcium spike initiation and repolarization are controlled by distinct potassium channel subtypes in CA1 pyramidal neurons. The Journal of neuroscience : the official journal of the Society for Neuroscience. 19 [PubMed]

Harris KM, Claiborne B, Jacobs G. (2010). Reconstruction of neuronal morphology Computational Modeling Methods for Neuroscientists.

Hartmann J, Konnerth A. (2005). Determinants of postsynaptic Ca2+ signaling in Purkinje neurons. Cell calcium. 37 [PubMed]

Hay E, Hill S, Schürmann F, Markram H, Segev I. (2011). Models of neocortical layer 5b pyramidal cells capturing a wide range of dendritic and perisomatic active properties. PLoS computational biology. 7 [PubMed]

• L5b PC model constrained for BAC firing and perisomatic current step firing (Hay et al., 2011) [Model]
• Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018) [Model]
• Cortical Layer 5b pyr. cell with [Na+]i mechanisms, from Hay et al 2011 (Zylbertal et al 2017) [Model]

Hemond P et al. (2008). Distinct classes of pyramidal cells exhibit mutually exclusive firing patterns in hippocampal area CA3b. Hippocampus. 18 [PubMed]

• CA3 pyramidal neuron: firing properties (Hemond et al. 2008) [Model]

Hepburn I, Chen W, Wils S, De Schutter E. (2012). STEPS: efficient simulation of stochastic reaction-diffusion models in realistic morphologies. BMC systems biology. 6 [PubMed]

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

Hines ML, Carnevale NT. (2006). The NEURON Book.

Hirschberg B, Maylie J, Adelman JP, Marrion NV. (1998). Gating of recombinant small-conductance Ca-activated K+ channels by calcium. The Journal of general physiology. 111 [PubMed]

Holmes WR, Ambros-Ingerson J, Grover LM. (2006). Fitting experimental data to models that use morphological data from public databases. Journal of computational neuroscience. 20 [PubMed]

Holthoff K, Tsay D, Yuste R. (2002). Calcium dynamics of spines depend on their dendritic location. Neuron. 33 [PubMed]

Iftinca M et al. (2006). Temperature dependence of T-type calcium channel gating. Neuroscience. 142 [PubMed]

Johnston D, Magee JC, Colbert CM, Cristie BR. (1996). Active properties of neuronal dendrites. Annual review of neuroscience. 19 [PubMed]

Kampa BM, Letzkus JJ, Stuart GJ. (2006). Requirement of dendritic calcium spikes for induction of spike-timing-dependent synaptic plasticity. The Journal of physiology. 574 [PubMed]

Kampa BM, Stuart GJ. (2006). Calcium spikes in basal dendrites of layer 5 pyramidal neurons during action potential bursts. The Journal of neuroscience : the official journal of the Society for Neuroscience. 26 [PubMed]

• Calcium spikes in basal dendrites (Kampa and Stuart 2006) [Model]

Konnerth A, Dreessen J, Augustine GJ. (1992). Brief dendritic calcium signals initiate long-lasting synaptic depression in cerebellar Purkinje cells. Proceedings of the National Academy of Sciences of the United States of America. 89 [PubMed]

Lavzin M, Rapoport S, Polsky A, Garion L, Schiller J. (2012). Nonlinear dendritic processing determines angular tuning of barrel cortex neurons in vivo. Nature. 490 [PubMed]

• Nonlinear dendritic processing in barrel cortex spiny stellate neurons (Lavzin et al. 2012) [Model]

Lazarewicz MT, Migliore M, Ascoli GA. (2002). A new bursting model of CA3 pyramidal cell physiology suggests multiple locations for spike initiation. Bio Systems. 67 [PubMed]

• CA3 pyramidal neuron (Lazarewicz et al 2002) [Model]

Lev-Ram V, Miyakawa H, Lasser-Ross N, Ross WN. (1992). Calcium transients in cerebellar Purkinje neurons evoked by intracellular stimulation. Journal of neurophysiology. 68 [PubMed]

Llinás R, Sugimori M, Hillman DE, Cherksey B. (1992). Distribution and functional significance of the P-type, voltage-dependent Ca2+ channels in the mammalian central nervous system. Trends in neurosciences. 15 [PubMed]

Lorincz A, Nusser Z. (2010). Molecular identity of dendritic voltage-gated sodium channels. Science (New York, N.Y.). 328 [PubMed]

Losonczy A, Makara JK, Magee JC. (2008). Compartmentalized dendritic plasticity and input feature storage in neurons. Nature. 452 [PubMed]

Magee JC, Carruth M. (1999). Dendritic voltage-gated ion channels regulate the action potential firing mode of hippocampal CA1 pyramidal neurons. Journal of neurophysiology. 82 [PubMed]

Magee JC, Johnston D. (1995). Characterization of single voltage-gated Na+ and Ca2+ channels in apical dendrites of rat CA1 pyramidal neurons. The Journal of physiology. 487 [PubMed]

Mainen ZF, Sejnowski TJ. (1996). Influence of dendritic structure on firing pattern in model neocortical neurons. Nature. 382 [PubMed]

• Influence of dendritic structure on neocortical neuron firing patterns (Mainen and Sejnowski 1996) [Model]

Major G, Larkum ME, Schiller J. (2013). Active properties of neocortical pyramidal neuron dendrites. Annual review of neuroscience. 36 [PubMed]

Markram H, Roth A, Helmchen F. (1998). Competitive calcium binding: implications for dendritic calcium signaling. Journal of computational neuroscience. 5 [PubMed]

Markram H, Sakmann B. (1994). Calcium transients in dendrites of neocortical neurons evoked by single subthreshold excitatory postsynaptic potentials via low-voltage-activated calcium channels. Proceedings of the National Academy of Sciences of the United States of America. 91 [PubMed]

Migliore M, Cook EP, Jaffe DB, Turner DA, Johnston D. (1995). Computer simulations of morphologically reconstructed CA3 hippocampal neurons. Journal of neurophysiology. 73 [PubMed]

• CA3 Pyramidal Neuron (Migliore et al 1995) [Model]

Migliore M, Shepherd GM. (2002). Emerging rules for the distributions of active dendritic conductances. Nature reviews. Neuroscience. 3 [PubMed]

• Modulation of temporal integration window (Migliore, Shepherd 2002) [Model]

Miyasho T et al. (2001). Low-threshold potassium channels and a low-threshold calcium channel regulate Ca2+ spike firing in the dendrites of cerebellar Purkinje neurons: a modeling study. Brain research. 891 [PubMed]

• Cerebellar purkinje cell: K and Ca channels regulate APs (Miyasho et al 2001) [Model]

Poirazi P, Brannon T, Mel BW. (2003). Pyramidal neuron as two-layer neural network. Neuron. 37 [PubMed]

• CA1 pyramidal neuron: as a 2-layer NN and subthreshold synaptic summation (Poirazi et al 2003) [Model]

Polsky A, Mel B, Schiller J. (2009). Encoding and decoding bursts by NMDA spikes in basal dendrites of layer 5 pyramidal neurons. The Journal of neuroscience : the official journal of the Society for Neuroscience. 29 [PubMed]

• NMDA spikes in basal dendrites of L5 pyramidal neurons (Polsky et al. 2009) [Model]

Raikov I, De Schutter E. (2012). The layer-oriented approach to declarative languages for biological modeling. PLoS computational biology. 8 [PubMed]

Rancz EA, Häusser M. (2006). Dendritic calcium spikes are tunable triggers of cannabinoid release and short-term synaptic plasticity in cerebellar Purkinje neurons. The Journal of neuroscience : the official journal of the Society for Neuroscience. 26 [PubMed]

Regehr WG, Tank DW. (1994). Dendritic calcium dynamics. Current opinion in neurobiology. 4 [PubMed]

Rozsa B, Zelles T, Vizi ES, Lendvai B. (2004). Distance-dependent scaling of calcium transients evoked by backpropagating spikes and synaptic activity in dendrites of hippocampal interneurons. The Journal of neuroscience : the official journal of the Society for Neuroscience. 24 [PubMed]

Sala F, Hernández-Cruz A. (1990). Calcium diffusion modeling in a spherical neuron. Relevance of buffering properties. Biophysical journal. 57 [PubMed]

Santamaria F, Wils S, De Schutter E, Augustine GJ. (2006). Anomalous diffusion in Purkinje cell dendrites caused by spines. Neuron. 52 [PubMed]

Schiller J, Helmchen F, Sakmann B. (1995). Spatial profile of dendritic calcium transients evoked by action potentials in rat neocortical pyramidal neurones. The Journal of physiology. 487 ( Pt 3) [PubMed]

Schmidt H, Schwaller B, Eilers J. (2005). Calbindin D28k targets myo-inositol monophosphatase in spines and dendrites of cerebellar Purkinje neurons. Proceedings of the National Academy of Sciences of the United States of America. 102 [PubMed]

Schmidt H, Stiefel KM, Racay P, Schwaller B, Eilers J. (2003). Mutational analysis of dendritic Ca2+ kinetics in rodent Purkinje cells: role of parvalbumin and calbindin D28k. The Journal of physiology. 551 [PubMed]

Scorcioni R, Lazarewicz MT, Ascoli GA. (2004). Quantitative morphometry of hippocampal pyramidal cells: differences between anatomical classes and reconstructing laboratories. The Journal of comparative neurology. 473 [PubMed]

Smolen P, de Schutter E. (1999). Calcium dynamics in large neuronal models Methods Neuronal Modeling: From Ions to Networks. 1

Solinas S et al. (2007). Computational reconstruction of pacemaking and intrinsic electroresponsiveness in cerebellar Golgi cells. Frontiers in cellular neuroscience. 1 [PubMed]

• Cerebellar Golgi cell (Solinas et al. 2007a, 2007b) [Model]

Stuart GJ, Sakmann B. (1994). Active propagation of somatic action potentials into neocortical pyramidal cell dendrites. Nature. 367 [PubMed]

Swensen AM, Bean BP. (2005). Robustness of burst firing in dissociated purkinje neurons with acute or long-term reductions in sodium conductance. The Journal of neuroscience : the official journal of the Society for Neuroscience. 25 [PubMed]

Szilágyi T, De Schutter E. (2004). Effects of variability in anatomical reconstruction techniques on models of synaptic integration by dendrites: a comparison of three Internet archives. The European journal of neuroscience. 19 [PubMed]

Tank DW, Sugimori M, Connor JA, Llinás RR. (1988). Spatially resolved calcium dynamics of mammalian Purkinje cells in cerebellar slice. Science (New York, N.Y.). 242 [PubMed]

Traub RD, Llinas R. (1977). The spatial distribution of ionic conductances in normal and axotomized motoneurones Neuroscience. 2

Vetter P, Roth A, Häusser M. (2001). Propagation of action potentials in dendrites depends on dendritic morphology. Journal of neurophysiology. 85 [PubMed]

• Dendritica (Vetter et al 2001) [Model]

Womack MD, Khodakhah K. (2002). Characterization of large conductance Ca2+-activated K+ channels in cerebellar Purkinje neurons. The European journal of neuroscience. 16 [PubMed]

Womack MD, Khodakhah K. (2003). Somatic and dendritic small-conductance calcium-activated potassium channels regulate the output of cerebellar Purkinje neurons. The Journal of neuroscience : the official journal of the Society for Neuroscience. 23 [PubMed]

Womack MD, Khodakhah K. (2004). Dendritic control of spontaneous bursting in cerebellar Purkinje cells. The Journal of neuroscience : the official journal of the Society for Neuroscience. 24 [PubMed]

Ait Ouares K, Filipis L, Tzilivaki A, Poirazi P, Canepari M. (2019). Two Distinct Sets of Ca2+ and K+ Channels Are Activated at Different Membrane Potentials by the Climbing Fiber Synaptic Potential in Purkinje Neuron Dendrites. The Journal of neuroscience : the official journal of the Society for Neuroscience. 39 [PubMed]

• Cerebellum Purkinje cell: dendritic ion channels activated by climbing fibre (Ait Ouares et al 2019) [Model]

Chen W, De Schutter E. (2017). Parallel STEPS: Large Scale Stochastic Spatial Reaction-Diffusion Simulation with High Performance Computers. Frontiers in neuroinformatics. 11 [PubMed]

• Parallel STEPS: Large scale stochastic spatial reaction-diffusion simulat. (Chen & De Schutter 2017) [Model]

Dorman DB, Jędrzejewska-Szmek J, Blackwell KT. (2018). Inhibition enhances spatially-specific calcium encoding of synaptic input patterns in a biologically constrained model. eLife. 7 [PubMed]

• Striatal Spiny Projection Neuron, inhibition enhances spatial specificity (Dorman et al 2018) [Model]

Masoli S, D'Angelo E. (2017). Synaptic Activation of a Detailed Purkinje Cell Model Predicts Voltage-Dependent Control of Burst-Pause Responses in Active Dendrites. Frontiers in cellular neuroscience. 11 [PubMed]

• Purkinje cell: Synaptic activation predicts voltage control of burst-pause (Masoli & D'Angelo 2017) [Model]

Masoli S et al. (2024). Human Purkinje cells outperform mouse Purkinje cells in dendritic complexity and computational capacity. Communications biology. 7 [PubMed]

• Human and mouse Purkinje cell models (Masoli et al., 2024) [Model]

Reed JD, Blackwell KT. (2021). Prediction of Neural Diameter From Morphology to Enable Accurate Simulation. Frontiers in neuroinformatics. 15 [PubMed]

• Reconstructed neuron (cerebellar, hippocampal, striatal) sims using predicted diameters (Reed et al) [Model]