Amitai Y, Friedman A, Connors BW, Gutnick MJ. (1993). Regenerative activity in apical dendrites of pyramidal cells in neocortex. Cerebral cortex (New York, N.Y. : 1991). 3 [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]

Hamill OP, Huguenard JR, Prince DA. (1991). Patch-clamp studies of voltage-gated currents in identified neurons of the rat cerebral cortex. Cerebral cortex (New York, N.Y. : 1991). 1 [PubMed]

Jan LY, Jan YN. (1997). Cloned potassium channels from eukaryotes and prokaryotes. Annual review of neuroscience. 20 [PubMed]

Kang J, Huguenard JR, Prince DA. (1996). Development of BK channels in neocortical pyramidal neurons. Journal of neurophysiology. 76 [PubMed]

Kang J, Huguenard JR, Prince DA. (2000). Voltage-gated potassium channels activated during action potentials in layer V neocortical pyramidal neurons. Journal of neurophysiology. 83 [PubMed]

Koester HJ, Sakmann B. (1998). Calcium dynamics in single spines during coincident pre- and postsynaptic activity depend on relative timing of back-propagating action potentials and subthreshold excitatory postsynaptic potentials. Proceedings of the National Academy of Sciences of the United States of America. 95 [PubMed]

Larkum ME, Zhu JJ, Sakmann B. (1999). A new cellular mechanism for coupling inputs arriving at different cortical layers. Nature. 398 [PubMed]

Llinás RR. (1988). The intrinsic electrophysiological properties of mammalian neurons: insights into central nervous system function. Science (New York, N.Y.). 242 [PubMed]

Magee JC et al. (1995). Subthreshold synaptic activation of voltage-gated Ca2+ channels mediates a localized Ca2+ influx into the dendrites of hippocampal pyramidal neurons. Journal of neurophysiology. 74 [PubMed]

Mainen ZF, Joerges J, Huguenard JR, Sejnowski TJ. (1995). A model of spike initiation in neocortical pyramidal neurons. Neuron. 15 [PubMed]

• Spike Initiation in Neocortical Pyramidal Neurons (Mainen et al 1995) [Model]

Markram H, Helm PJ, Sakmann B. (1995). Dendritic calcium transients evoked by single back-propagating action potentials in rat neocortical pyramidal neurons. The Journal of physiology. 485 ( Pt 1) [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]

Neher E. (1992). Correction for liquid junction potentials in patch clamp experiments. Methods in enzymology. 207 [PubMed]

Nicoll RA. (1988). The coupling of neurotransmitter receptors to ion channels in the brain. Science (New York, N.Y.). 241 [PubMed]

Rettig J et al. (1994). Inactivation properties of voltage-gated K+ channels altered by presence of beta-subunit. Nature. 369 [PubMed]

Rhodes KJ, Keilbaugh SA, Barrezueta NX, Lopez KL, Trimmer JS. (1995). Association and colocalization of K+ channel alpha- and beta-subunit polypeptides in rat brain. The Journal of neuroscience : the official journal of the Society for Neuroscience. 15 [PubMed]

Ruppersberg JP et al. (1990). Heteromultimeric channels formed by rat brain potassium-channel proteins. Nature. 345 [PubMed]

Ruppersberg JP et al. (1991). Regulation of fast inactivation of cloned mammalian IK(A) channels by cysteine oxidation. Nature. 352 [PubMed]

Sakmann B, Korngreen A, Bergling S. (1999). Voltage gated potassium channels and back propagation of the action potential in layer V pyramidal neurons Biophys J. 76

Sakmann B, Neher E. (1995). Geometric parameters of pipettes and membrane patches Single Channel Recording.

Sather W, Dieudonné S, MacDonald JF, Ascher P. (1992). Activation and desensitization of N-methyl-D-aspartate receptors in nucleated outside-out patches from mouse neurones. The Journal of physiology. 450 [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]

Schiller J, Schiller Y, Stuart G, Sakmann B. (1997). Calcium action potentials restricted to distal apical dendrites of rat neocortical pyramidal neurons. The Journal of physiology. 505 ( Pt 3) [PubMed]

Serôdio P, Rudy B. (1998). Differential expression of Kv4 K+ channel subunits mediating subthreshold transient K+ (A-type) currents in rat brain. Journal of neurophysiology. 79 [PubMed]

Sheng M, Tsaur ML, Jan YN, Jan LY. (1994). Contrasting subcellular localization of the Kv1.2 K+ channel subunit in different neurons of rat brain. The Journal of neuroscience : the official journal of the Society for Neuroscience. 14 [PubMed]

Stuart G, Bekkers JM. (1998). Distribution and properties of potassium channels in the soma and apical dendrites of layer 5 cortical pyramidal neurons Soc Neurosci Abstr. 24

Stuart G, Schiller J, Sakmann B. (1997). Action potential initiation and propagation in rat neocortical pyramidal neurons. The Journal of physiology. 505 ( Pt 3) [PubMed]

Stuart G, Spruston N, Sakmann B, Häusser M. (1997). Action potential initiation and backpropagation in neurons of the mammalian CNS. Trends in neurosciences. 20 [PubMed]

Stuart GJ, Dodt HU, Sakmann B. (1993). Patch-clamp recordings from the soma and dendrites of neurons in brain slices using infrared video microscopy. Pflugers Archiv : European journal of physiology. 423 [PubMed]

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

Tsaur ML, Chou CC, Shih YH, Wang HL. (1997). Cloning, expression and CNS distribution of Kv4.3, an A-type K+ channel alpha subunit. FEBS letters. 400 [PubMed]

Tsubokawa H, Ross WN. (1997). Muscarinic modulation of spike backpropagation in the apical dendrites of hippocampal CA1 pyramidal neurons. The Journal of neuroscience : the official journal of the Society for Neuroscience. 17 [PubMed]

Turner RW, Meyers DE, Richardson TL, Barker JL. (1991). The site for initiation of action potential discharge over the somatodendritic axis of rat hippocampal CA1 pyramidal neurons. The Journal of neuroscience : the official journal of the Society for Neuroscience. 11 [PubMed]

White EL. (1989). Cortical Circuits: Synaptic Organisation Of The Cerebral Cortex Structure, Function, And Theory.

Yuste R, Tank DW. (1996). Dendritic integration in mammalian neurons, a century after Cajal. Neuron. 16 [PubMed]

Akemann W, Lundby A, Mutoh H, Knöpfel T. (2009). Effect of voltage sensitive fluorescent proteins on neuronal excitability. Biophysical journal. 96 [PubMed]

• Effect of voltage sensitive fluorescent proteins on neuronal excitability (Akemann et al. 2009) [Model]

Almog M, Korngreen A. (2014). A Quantitative Description of Dendritic Conductances and Its Application to Dendritic Excitation in Layer 5 Pyramidal Neurons The Journal of neuroscience : the official journal of the Society for Neuroscience. 34 [PubMed]

• Ionic mechanisms of dendritic spikes (Almog and Korngreen 2014) [Model]

Bahl A, Stemmler MB, Herz AV, Roth A. (2012). Automated optimization of a reduced layer 5 pyramidal cell model based on experimental data. Journal of neuroscience methods. 210 [PubMed]

• A set of reduced models of layer 5 pyramidal neurons (Bahl et al. 2012) [Model]

Bar-Yehuda D, Korngreen A. (2008). Space-clamp problems when voltage clamping neurons expressing voltage-gated conductances. Journal of neurophysiology. 99 [PubMed]

• Space clamp problems in neurons with voltage-gated conductances (Bar-Yehuda and Korngreen 2008) [Model]

Baranauskas G, Martina M. (2006). Sodium currents activate without a Hodgkin-and-Huxley-type delay in central mammalian neurons. The Journal of neuroscience : the official journal of the Society for Neuroscience. 26 [PubMed]

• Sodium currents activate without a delay (Baranauskas and Martina 2006) [Model]

Ben-Shalom R et al. (2022). NeuroGPU: Accelerating multi-compartment, biophysically detailed neuron simulations on GPUs Journal of neuroscience methods. 366 [PubMed]

• NeuroGPU example on L5_TTPC1_cADpyr232_1 (Ben-Shalom 2022)(Ramaswamy et al., 2015) [Model]

Gulledge AT, Carnevale NT, Stuart GJ. (2012). Electrical advantages of dendritic spines. PloS one. 7 [PubMed]

Gurkiewicz M, Korngreen A. (2007). A numerical approach to ion channel modelling using whole-cell voltage-clamp recordings and a genetic algorithm. PLoS computational biology. 3 [PubMed]

• Ion channel modeling with whole cell and a genetic algorithm (Gurkiewicz and Korngreen 2007) [Model]

Gurkiewicz M, Korngreen A, Waxman SG, Lampert A. (2011). Kinetic modeling of Nav1.7 provides insight into erythromelalgia-associated F1449V mutation. Journal of neurophysiology. 105 [PubMed]

• HMM of Nav1.7 WT and F1449V (Gurkiewicz et al. 2011) [Model]

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]

Häusser M, Spruston N, Stuart GJ. (2000). Diversity and dynamics of dendritic signaling. Science (New York, N.Y.). 290 [PubMed]

Jones SR, Pritchett DL, Stufflebeam SM, Hämäläinen M, Moore CI. (2007). Neural correlates of tactile detection: a combined magnetoencephalography and biophysically based computational modeling study. The Journal of neuroscience : the official journal of the Society for Neuroscience. 27 [PubMed]

• MEG of Somatosensory Neocortex (Jones et al. 2007) [Model]

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]

Korngreen A, Kaiser KM, Zilberter Y. (2005). Subthreshold inactivation of voltage-gated K+ channels modulates action potentials in neocortical bitufted interneurones from rats. The Journal of physiology. 562 [PubMed]

• Subthreshold inact. of K channels modulates APs in bitufted interneurons (Korngreen et al 2005) [Model]

Migliore M. (2003). On the integration of subthreshold inputs from Perforant Path and Schaffer Collaterals in hippocampal CA1 pyramidal neurons. Journal of computational neuroscience. 14 [PubMed]

• CA1 pyramidal neuron: integration of subthreshold inputs from PP and SC (Migliore 2003) [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]

Murakami S, Okada Y. (2006). Contributions of principal neocortical neurons to magnetoencephalography and electroencephalography signals. The Journal of physiology. 575 [PubMed]

Mäki-Marttunen T et al. (2018). A stepwise neuron model fitting procedure designed for recordings with high spatial resolution: Application to layer 5 pyramidal cells. Journal of neuroscience methods. 293 [PubMed]

• Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018) [Model]

Papoutsi A, Sidiropoulou K, Cutsuridis V, Poirazi P. (2013). Induction and modulation of persistent activity in a layer V PFC microcircuit model. Frontiers in neural circuits. 7 [PubMed]

• L5 PFC microcircuit used to study persistent activity (Papoutsi et al. 2014, 2013) [Model]

Pashut T et al. (2011). Mechanisms of magnetic stimulation of central nervous system neurons. PLoS computational biology. 7 [PubMed]

• Mechanisms of magnetic stimulation of central nervous system neurons (Pashut et al. 2011) [Model]

Ramaswamy S et al. (2015). The neocortical microcircuit collaboration portal: a resource for rat somatosensory cortex. Frontiers in neural circuits. 9 [PubMed]

• The neocortical microcircuit collaboration portal (Markram et al. 2015) [Model]

Schaefer AT, Helmstaedter M, Sakmann B, Korngreen A. (2003). Correction of conductance measurements in non-space-clamped structures: 1. Voltage-gated K+ channels. Biophysical journal. 84 [PubMed]

• Correcting space clamp in dendrites (Schaefer et al. 2003 and 2007) [Model]

Schaefer AT et al. (2007). Dendritic voltage-gated K+ conductance gradient in pyramidal neurones of neocortical layer 5B from rats. The Journal of physiology. 579 [PubMed]

• Correcting space clamp in dendrites (Schaefer et al. 2003 and 2007) [Model]

Schaefer AT, Larkum ME, Sakmann B, Roth A. (2003). Coincidence detection in pyramidal neurons is tuned by their dendritic branching pattern. Journal of neurophysiology. 89 [PubMed]

• Pyramidal neuron coincidence detection tuned by dendritic branching pattern (Schaefer et al 2003) [Model]

Spratt PWE et al. (2021). Paradoxical hyperexcitability from NaV1.2 sodium channel loss in neocortical pyramidal cells Cell reports. 36 [PubMed]

• Hyperexcitability from Nav1.2 channel loss in neocortical pyramidal cells (Spratt et al 2021) [Model]

Stuart GJ, Häusser M. (2001). Dendritic coincidence detection of EPSPs and action potentials. Nature neuroscience. 4 [PubMed]

Tobin AE, Calabrese RL. (2006). Endogenous and half-center bursting in morphologically inspired models of leech heart interneurons. Journal of neurophysiology. 96 [PubMed]

Tobin AE, Van Hooser SD, Calabrese RL. (2006). Creation and reduction of a morphologically detailed model of a leech heart interneuron. Journal of neurophysiology. 96 [PubMed]

Tsay D, Yuste R. (2002). Role of dendritic spines in action potential backpropagation: a numerical simulation study. Journal of neurophysiology. 88 [PubMed]

Wang K, Riera J, Enjieu-Kadji H, Kawashima R. (2013). The role of extracellular conductivity profiles in compartmental models for neurons: particulars for layer 5 pyramidal cells. Neural computation. 25 [PubMed]

• Modeling conductivity profiles in the deep neocortical pyramidal neuron (Wang K et al. 2013) [Model]

Watanabe S, Hoffman DA, Migliore M, Johnston D. (2002). Dendritic K+ channels contribute to spike-timing dependent long-term potentiation in hippocampal pyramidal neurons. Proceedings of the National Academy of Sciences of the United States of America. 99 [PubMed]

• CA1 pyramidal neuron: conditional boosting of dendritic APs (Watanabe et al 2002) [Model]

Zheng Y et al. (2019). Deep Sequencing of Somatosensory Neurons Reveals Molecular Determinants of Intrinsic Physiological Properties Neuron.

• DRG neuron models investigate how ion channel levels regulate firing properties (Zheng et al 2019) [Model]