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Mainen ZF, Sejnowski TJ (1996) Influence of dendritic structure on firing pattern in model neocortical neurons. Nature 382:363-6[PubMed]

   Pyramidal Neuron Deep, Superficial; Aspiny, Stellate (Mainen and Sejnowski 1996)

References and models cited by this paper

References and models that cite this paper

Agmon A, Connors BW (1992) Correlation between intrinsic firing patterns and thalamocortical synaptic responses of neurons in mouse barrel cortex. J Neurosci 12:319-29 [PubMed]

Angelides KJ, Elmer LW, Loftus D, Elson E (1988) Distribution and lateral mobility of voltage-dependent sodium channels in neurons. J Cell Biol 106:1911-25 [PubMed]

Azouz R, Jensen MS, Yaari Y (1996) Ionic basis of spike after-depolarization and burst generation in adult rat hippocampal CA1 pyramidal cells. J Physiol 492 ( Pt 1):211-23 [PubMed]

Chagnac-Amitai Y, Luhmann HJ, Prince DA (1990) Burst generating and regular spiking layer 5 pyramidal neurons of rat neocortex have different morphological features. J Comp Neurol 296:598-613 [PubMed]

Connors BW, Gutnick MJ (1990) Intrinsic firing patterns of diverse neocortical neurons. Trends Neurosci 13:99-104 [PubMed]

Franceschetti S, Guatteo E, Panzica F, Sancini G, Wanke E, Avanzini G (1995) Ionic mechanisms underlying burst firing in pyramidal neurons: intracellular study in rat sensorimotor cortex. Brain Res 696:127-39 [PubMed]

Gutfreund Y, yarom Y, Segev I (1995) Subthreshold oscillations and resonant frequency in guinea-pig cortical neurons: physiology and modelling. J Physiol 483 ( Pt 3):621-40 [PubMed]

Hamill OP, Huguenard JR, Prince DA (1991) Patch-clamp studies of voltage-gated currents in identified neurons of the rat cerebral cortex. Cereb Cortex 1:48-61 [PubMed]

Kasper EM, Larkman AU, Lubke J, Blakemore C (1994) Pyramidal neurons in layer 5 of the rat visual cortex. II. Development of electrophysiological properties. J Comp Neurol 339:475-94 [PubMed]

Kim HG, Connors BW (1993) Apical dendrites of the neocortex: correlation between sodium- and calcium-dependent spiking and pyramidal cell morphology. J Neurosci 13:5301-11 [PubMed]

Larkman AU, Major G, Stratford KJ, Jack JJ (1992) Dendritic morphology of pyramidal neurones of the visual cortex of the rat. IV: Electrical geometry. J Comp Neurol 323:137-52 [PubMed]

Mainen ZF, Joerges J, Huguenard JR, Sejnowski TJ (1995) A model of spike initiation in neocortical pyramidal neurons. Neuron 15:1427-39 [PubMed]

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

Mason A, Larkman A (1990) Correlations between morphology and electrophysiology of pyramidal neurons in slices of rat visual cortex. II. Electrophysiology. J Neurosci 10:1415-28 [PubMed]

McCormick DA, Connors BW, Lighthall JW, Prince DA (1985) Comparative electrophysiology of pyramidal and sparsely spiny stellate neurons of the neocortex. J Neurophysiol 54:782-806 [Journal] [PubMed]

Pinsky PF, Rinzel J (1994) Intrinsic and network rhythmogenesis in a reduced Traub model for CA3 neurons. J Comput Neurosci 1:39-60 [Journal] [PubMed]

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

Rapp M, Yarom Y, Segev I (1996) Modeling back propagating action potential in weakly excitable dendrites of neocortical pyramidal cells. Proc Natl Acad Sci U S A 93:11985-90 [PubMed]

Reuveni I, Friedman A, Amitai Y, Gutnick MJ (1993) Stepwise repolarization from Ca2+ plateaus in neocortical pyramidal cells: evidence for nonhomogeneous distribution of HVA Ca2+ channels in dendrites. J Neurosci 13:4609-21 [PubMed]

Schwindt PC, Spain WJ, Foehring RC, Stafstrom CE, Chubb MC, Crill WE (1988) Multiple potassium conductances and their functions in neurons from cat sensorimotor cortex in vitro. J Neurophysiol 59:424-49 [Journal] [PubMed]

Sloper JJ, Powell TP (1979) A study of the axon initial segment and proximal axon of neurons in the primate motor and somatic sensory cortices. Philos Trans R Soc Lond B Biol Sci 285:173-97 [PubMed]

Storm JF (1990) Potassium currents in hippocampal pyramidal cells. Prog Brain Res 83:161-87 [PubMed]

Stuart GJ, Sakmann B (1994) Active propagation of somatic action potentials into neocortical pyramidal cell dendrites. Nature 367:69-72 [PubMed]

Turner RW, Maler L, Deerinck T, Levinson SR, Ellisman MH (1994) TTX-sensitive dendritic sodium channels underlie oscillatory discharge in a vertebrate sensory neuron. J Neurosci 14:6453-71 [PubMed]

Wollner DA, Catterall WA (1986) Localization of sodium channels in axon hillocks and initial segments of retinal ganglion cells. Proc Natl Acad Sci U S A 83:8424-8 [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. J Neurosci 16:1904-21 [PubMed]

Yuste R, Gutnick MJ, Saar D, Delaney KR, Tank DW (1994) Ca2+ accumulations in dendrites of neocortical pyramidal neurons: an apical band and evidence for two functional compartments. Neuron 13:23-43 [PubMed]

Yuste R, Tank DW (1996) Dendritic integration in mammalian neurons, a century after Cajal. Neuron 16:701-16 [PubMed]

Acker CD, Antic SD (2009) Quantitative Assessment of the Distributions of Membrane Conductances Involved in Action Potential Backpropagation Along Basal Dendrites. J Neurophysiol 101:1524-1541 [Journal] [PubMed]

   Excitability of PFC Basal Dendrites (Acker and Antic 2009) [Model]

Acker CD, Hoyos E, Loew LM (2016) EPSPs Measured in Proximal Dendritic Spines of Cortical Pyramidal Neurons. eNeuro [Journal] [PubMed]

Acker CD, White JA (2007) Roles of I(A) and morphology in action potential propagation in CA1 pyramidal cell dendrites. J Comput Neurosci 23(2):201-16 [Journal] [PubMed]

   Roles of I(A) and morphology in AP prop. in CA1 pyramidal cell dendrites (Acker and White 2007) [Model]

Akemann W, Lundby A, Mutoh H, Knopfel T (2009) Effect of voltage sensitive fluorescent proteins on neuronal excitability. Biophys J 96:3959-76 [Journal] [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 J Neurosci 34(1):182-196 [Journal]

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

Amatrudo JM, Weaver CM, Crimins JL, Hof PR, Rosene DL, Luebke JI (2012) Influence of highly distinctive structural properties on the excitability of pyramidal neurons in monkey visual and prefrontal cortices J. Neurosci, 32(40):13644-60 [Journal] [PubMed]

   Rhesus Monkey Layer 3 Pyramidal Neurons: V1 vs PFC (Amatrudo, Weaver et al. 2012) [Model]

Anwar H, Roome CJ, Nedelescu H, Chen W, Kuhn B, De Schutter E (2014) Dendritic diameters affect the spatial variability of intracellular calcium dynamics in computer models Frontiers in Cellular Neuroscience 8(168):1-14 [Journal] [PubMed]

   Calcium dynamics depend on dendritic diameters (Anwar et al. 2014) [Model]

Aradi I, Soltesz I (2002) Modulation of network behaviour by changes in variance in interneuronal properties. J Physiol 538:227-51 [PubMed]

Arhem P, Klement G, Blomberg C (2006) Channel density regulation of firing patterns in a cortical neuron model. Biophys J 90:4392-404 [PubMed]

Azouz R, Gray CM (2008) Stimulus-selective spiking is driven by the relative timing of synchronous excitation and disinhibition in cat striate neurons in vivo. Eur J Neurosci 28:1286-300 [PubMed]

Baccus SA (1998) Synaptic facilitation by reflected action potentials: enhancement of transmission when nerve impulses reverse direction at axon branch points. Proc Natl Acad Sci U S A 95:8345-50 [Journal] [PubMed]

   Leech Mechanosensory Neurons: Synaptic Facilitation by Reflected APs (Baccus 1998) [Model]

Badoual M, Zou Q, Davison AP, Rudolph M, Bal T, Fregnac Y, Destexhe A (2006) Biophysical and phenomenological models of multiple spike interactions in spike-timing dependent plasticity. Int J Neural Syst 16:79-97 [Journal] [PubMed]

   Biophysical and phenomenological models of spike-timing dependent plasticity (Badoual et al. 2006) [Model]

Bahl A, Stemmler MB, Herz AV, Roth A (2012) Automated optimization of a reduced layer 5 pyramidal cell model based on experimental data. J Neurosci Methods 210:22-34 [Journal] [PubMed]

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

Banitt Y, Martin KA, Segev I (2007) A biologically realistic model of contrast invariant orientation tuning by thalamocortical synaptic depression. J Neurosci 27:10230-9 [Journal] [PubMed]

   Contrast invariance by LGN synaptic depression (Banitt et al. 2007) [Model]

Bazhenov M, Timofeev I, Steriade M, Sejnowski TJ (1998) Computational models of thalamocortical augmenting responses. J Neurosci 18:6444-65 [Journal] [PubMed]

   Thalamocortical augmenting response (Bazhenov et al 1998) [Model]

Bazhenov M, Timofeev I, Steriade M, Sejnowski TJ (2002) Model of thalamocortical slow-wave sleep oscillations and transitions to activated States. J Neurosci 22:8691-704 [Journal] [PubMed]

   Sleep-wake transitions in corticothalamic system (Bazhenov et al 2002) [Model]

Behabadi BF, Polsky A, Jadi M, Schiller J, Mel BW (2012) Location-dependent excitatory synaptic interactions in pyramidal neuron dendrites. PLoS Comput Biol 8:e1002599 [Journal] [PubMed]

   Excitatory synaptic interactions in pyramidal neuron dendrites (Behabadi et al. 2012) [Model]

Bol K, Marsat G, Harvey-Girard E, Longtin A, Maler L (2011) Frequency-Tuned Cerebellar Channels and Burst-Induced LTD Lead to the Cancellation of Redundant Sensory Inputs. J Neurosci 31:11028-38 [Journal] [PubMed]

   Cancelling redundant input in ELL pyramidal cells (Bol et al. 2011) [Model]

Broicher T, Kanyshkova T, Meuth P, Pape HC, Budde T (2008) Correlation of T-channel coding gene expression, IT, and the low threshold Ca2+ spike in the thalamus of a rat model of absence epilepsy. Mol Cell Neurosci 39:384-99 [PubMed]

Buchin A, Chizhov A, Huberfeld G, Miles R, Gutkin BS (2016) Reduced Efficacy of the KCC2 Cotransporter Promotes Epileptic Oscillations in a Subiculum Network Model. J Neurosci 36:11619-11633 [Journal] [PubMed]

Bui TV, Cushing S, Dewey DE, Fyffe RE, Rose PK (2003) A comparison of the electrotonic and morphological properties of Renshaw cells, Ia inhibitory interneurons and motoneurons in the cat. J Neurophysiol : [Journal] [PubMed]

Cai Y, Baxter DA, Crow T (2003) Computational study of enhanced excitability in Hermissenda: membrane conductances modulated by 5-HT. J Comput Neurosci 15:105-21 [Journal] [PubMed]

   Enhanced Excitability in Hermissenda: modulation by 5-HT (Cai et al 2003) [Model]

Cannon RC, O`Donnell C, Nolan MF (2010) Stochastic ion channel gating in dendritic neurons: morphology dependence and probabilistic synaptic activation of dendritic spikes. PLoS Comput Biol [Journal] [PubMed]

   Stochastic ion channels and neuronal morphology (Cannon et al. 2010) [Model]

Carnevale NT, Tsai KY, Claiborne BJ, Brown TH (1997) Comparative electrotonic analysis of three classes of rat hippocampal neurons. J Neurophysiol 78:703-20 [Journal] [PubMed]

Chiu CQ, Lur G, Morse TM, Carnevale NT, Ellis-Davies G, Higley MJ (2013) Compartmentalization of GABAergic inhibition by dendritic spines Science 340:759-762 [Journal]

   Compartmentalization of GABAergic inhibition by dendritic spines (Chiu et al. 2013) [Model]

Chow CC, Kopell N (2000) Dynamics of spiking neurons with electrical coupling. Neural Comput 12:1643-78 [PubMed]

Coskren PJ, Luebke JI, Kabaso D, Wearne SL, Yadav A, Rumbell T, Hof PR, Weaver CM (2015) Functional consequences of age-related morphologic changes to pyramidal neurons of the rhesus monkey prefrontal cortex. J Comput Neurosci 38:263-83 [Journal] [PubMed]

   Rhesus Monkey Layer 3 Pyramidal Neurons: Young vs aged PFC (Coskren et al. 2015) [Model]

D'Angelo E, Nieus T, Maffei A, Armano S, Rossi P, Taglietti V, Fontana A, Naldi G (2001) Theta-frequency bursting and resonance in cerebellar granule cells: experimental evidence and modeling of a slow k+-dependent mechanism. J Neurosci 21:759-70 [PubMed]

   Bursting and resonance in cerebellar granule cells (D'Angelo et al. 2001) [Model]

Diba K, Koch C, Segev I (2006) Spike propagation in dendrites with stochastic ion channels J Comput Neurosci 20:77-84 [Journal] [PubMed]

   Spike propagation in dendrites with stochastic ion channels (Diba et al. 2006) [Model]

Doiron B, Laing C, Longtin A, Maler L (2002) Ghostbursting: a novel neuronal burst mechanism. J Comput Neurosci 12:5-25 [Journal] [PubMed]

Doiron B, Longtin A, Turner RW, Maler L (2001) Model of gamma frequency burst discharge generated by conditional backpropagation. J Neurophysiol 86:1523-45 [Journal] [PubMed]

Donohue DE, Ascoli GA (2005) Local Diameter Fully Constrains Dendritic Size in Basal but not Apical Trees of CA1 Pyramidal Neurons J Comp Neurosci 19:223-238 [Journal]

Donohue DE, Ascoli GA (2008) A comparative computer simulation of dendritic morphology. PLoS Comput Biol 4:e1000089 [Journal] [PubMed]

   A comparative computer simulation of dendritic morphology (Donohue and Ascoli 2008) [Model]

Dudman JT, Nolan MF (2009) Stochastically gating ion channels enable patterned spike firing through activity-dependent modulation of spike probability. PLoS Comput Biol 5:e1000290 [Journal] [PubMed]

Duijnhouwer J, Remme MWH, Ooyen VANA, Pelt VANJ (2001) Influence of dendritic topology on firing patterns in model neurons Neurocomputing 38:183-189

Eyal G, Verhoog MB, Testa-Silva G, Deitcher Y, Lodder JC, Benavides-Piccione R, Morales J, DeFelipe J, de Kock CP, Mansvelder HD, Segev I (2016) Unique membrane properties and enhanced signal processing in human neocortical neurons. Elife [Journal] [PubMed]

   Human L2/3 pyramidal cells with low Cm values (Eyal et al. 2016) [Model]

Feng J, Li G (2002) Impact of geometrical structures on the output of neuronal models: a theoretical and numerical analysis. Neural Comput 14:621-40 [PubMed]

Fernandez FR, Mehaffey WH, Turner RW (2005) Dendritic na+ current inactivation can increase cell excitability by delaying a somatic depolarizing afterpotential. J Neurophysiol 94:3836-48 [Journal] [PubMed]

   Dendritic Na inactivation drives a decrease in ISI (Fernandez et al 2005) [Model]

Ferrante M, Migliore M, Ascoli GA (2013) Functional Impact of Dendritic Branch-Point Morphology J. Neurosci. 33:2156-2165 [Journal]

   Functional impact of dendritic branch point morphology (Ferrante et al., 2013) [Model]

Foutz TJ, Arlow RL, McIntyre CC (2012) Theoretical principles underlying optical stimulation of a channelrhodopsin-2 positive pyramidal neuron J Neurophysiol. 107(12):3235-45 [Journal] [PubMed]

   Optical stimulation of a channelrhodopsin-2 positive pyramidal neuron model (Foutz et al 2012) [Model]

Frohlich F, Bazhenov M, Timofeev I, Steriade M, Sejnowski TJ (2006) Slow state transitions of sustained neural oscillations by activity-dependent modulation of intrinsic excitability. J Neurosci 26(23):6153-62 [PubMed]

Gabbiani F, Cox SJ (2010) Mathematics for Neuroscientists :1-486 [Journal]

   Mathematics for Neuroscientists (Gabbiani and Cox 2010) [Model]

Gabbiani F, Krapp HG (2006) Spike-frequency adaptation and intrinsic properties of an identified, looming-sensitive neuron. J Neurophysiol 96:2951-62 [Journal] [PubMed]

   Leaky integrate-and-fire model of spike frequency adaptation in the LGMD (Gabbiani and Krapp 2006) [Model]

Galati DF, Hiester BG, Jones KR (2016) Computer simulations support a morphological contribution to BDNF enhancement of action potential generation Front Cell Neurosci 10:209 [Journal] [PubMed]

   BDNF morphological contributions to AP enhancement (Galati et al. 2016) [Model]

Gertler TS, Chan CS, Surmeier DJ (2008) Dichotomous anatomical properties of adult striatal medium spiny neurons. J Neurosci 28:10814-24 [Journal] [PubMed]

Gleeson P, Crook S, Cannon RC, Hines ML, Billings GO, Farinella M, Morse TM, Davison AP, Ray (2010) NeuroML: a language for describing data driven models of neurons and networks with a high degree of biological detail. PLoS Comput Biol 6:e1000815 [Journal] [PubMed]

Gleeson P, Steuber V, Silver RA (2007) neuroConstruct: a tool for modeling networks of neurons in 3D space. Neuron 54:219-35 [Journal] [PubMed]

Golomb D, Shedmi A, Curtu R, Ermentrout GB (2006) Persistent synchronized bursting activity in cortical tissues with low magnesium concentration: a modeling study J Neurophysiol 95:1049-1067 [Journal] [PubMed]

   Persistent synchronized bursting activity in cortical tissues (Golomb et al 2005) [Model]

Golomb D, Yue C, Yaari Y (2006) Contribution of persistent Na+current and M-type K+ current to somatic bursting in CA1 pyramidal cells: combined experimental and modeling study J Neurophysiol 96(4):1912-26 [Journal] [PubMed]

   CA1 pyramidal cell: I_NaP and I_M contributions to somatic bursting (Golomb et al 2006) [Model]

Gradwohl G, Grossman Y (2005) A theoretical computer model of cellular modification associated with olfactory learning in the rat piriform cortex Neurocomputing 65:549-555 [Journal]

Graham BP, van Ooyen A (2006) Mathematical modelling and numerical simulation of the morphological development of neurons. BMC Neurosci 7 Suppl 1:S9 [PubMed]

   Continuum model of tubulin-driven neurite elongation (Graham et al 2006) [Model]
   Compartmental models of growing neurites (Graham and van Ooyen 2004) [Model]

Grossman N, Simiaki V, Martinet C, Toumazou C, Schultz SR, Nikolic K (2012) The spatial pattern of light determines the kinetics and modulates backpropagation of optogenetic action potentials. J Comput Neurosci [Journal] [PubMed]

Gulledge AT, Carnevale NT, Stuart GJ (2012) Electrical advantages of dendritic spines PLoS One. 7(4):e36007 [Journal] [PubMed]

Haag J, Theunissen F, Borst A (1997) The intrinsic electrophysiological characteristics of fly lobula plate tangential cells: II. Active membrane properties. J Comput Neurosci 4:349-69 [Journal] [PubMed]

   Fly lobular plate VS cell (Borst and Haag 1996, et al. 1997, et al. 1999) [Model]

Hallermann S, de Kock CP, Stuart GJ, Kole MH (2012) State and location dependence of action potential metabolic cost in cortical pyramidal neurons Nat Neurosci. 15(7):1007-14 [Journal] [PubMed]

   State and location dependence of action potential metabolic cost (Hallermann et al., 2012) [Model]

Halnes G, Augustinaite S, Heggelund P, Einevoll GT, Migliore M (2011) A Multi-Compartment Model for Interneurons in the Dorsal Lateral Geniculate Nucleus PLoS Comp. Biol. 7(9):e1002160 [Journal] [PubMed]

   A multi-compartment model for interneurons in the dLGN (Halnes et al. 2011) [Model]

Hausser M, Mel B (2003) Dendrites: bug or feature? Curr Opin Neurobiol 13:372-83 [PubMed]

Hausser M, Roth A (1997) Estimating the time course of the excitatory synaptic conductance in neocortical pyramidal cells using a novel voltage jump method. J Neurosci 17:7606-25 [PubMed]

Hausser M, Spruston N, Stuart GJ (2000) Diversity and dynamics of dendritic signaling. Science 290:739-44 [PubMed]

Hay E, Hill S, Schurmann F, Markram H, Segev I (2011) Models of neocortical layer 5b pyramidal cells capturing a wide range of dendritic and perisomatic active properties. PLoS Comput Biol 7:e1002107 [Journal] [PubMed]

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

Hay E, Schurmann F, Markram H, Segev I (2013) Preserving Axo-somatic Spiking Features Despite Diverse Dendritic Morphology. J Neurophysiol 109(12):2972-81 [Journal] [PubMed]

   Preserving axosomatic spiking features despite diverse dendritic morphology (Hay et al., 2013) [Model]

Helmstaedter M, Sakmann B, Feldmeyer D (2009) The Relation between Dendritic Geometry, Electrical Excitability, and Axonal Projections of L2-3 Interneurons in Rat Barrel Cortex. Cereb Cortex 19:938-950 [Journal] [PubMed]

   Axonal Projection and Interneuron Types (Helmstaedter et al. 2008) [Model]

Henderson D, Miller RF (2003) Evidence for low-voltage-activated (LVA) calcium currents in the dendrites of tiger salamander retinal ganglion cells. Vis Neurosci 20:141-52

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 (2003) Personal Communication of NEURON bibliography

Holmes WR, Ingerson JA, Grover LM (2006) Fitting experimental data to models that use morphological data from public databases J Comput Neurosci 20:349-365 [Journal]

Holt GR, Koch C (1999) Electrical interactions via the extracellular potential near cell bodies. J Comput Neurosci 6:169-84 [Journal] [PubMed]

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

Hossain WA, Antic SD, Yang Y, Rasband MN, Morest DK (2005) Where is the spike generator of the cochlear nerve? Voltage-gated sodium channels in the mouse cochlea. J Neurosci 25:6857-68 [Journal] [PubMed]

   AP initiation and propagation in type II cochlear ganglion cell (Hossain et al 2005) [Model]

Houweling AR, Bazhenov M, Timofeev I, Grenier F, Steriade M, Sejnowski TJ (2002) Frequency-selective augmenting responses by short-term synaptic depression in cat neocortex. J Physiol 542:599-617 [PubMed]

Houweling AR, Bazhenov M, Timofeev I, Steriade M, Sejnowski TJ (1999) Cortical and thalamic components of augmenting responses: A modeling study Neurocomputing 26-27:735-742

Hu W, Tian C, Li T, Yang M, Hou H, Shu Y (2009) Distinct contributions of Na(v)1.6 and Na(v)1.2 in action potential initiation and backpropagation. Nat Neurosci 12:996-1002 [Journal] [PubMed]

   Action Potential initiation and backpropagation in Neocortical L5 Pyramidal Neuron (Hu et al. 2009) [Model]

Jones SR, Pritchett DL, Stufflebeam SM, Hamalainen M, Moore CI (2007) Neural correlates of tactile detection: a combined magnetoencephalography and biophysically based computational modeling study. J Neurosci 27:10751-64 [Journal] [PubMed]

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

Kamitani Y, Bhalodia VM, Kubota Y, Shimojo S (2001) A model of magnetic stimulation of neocortical neurons Neurocomputing 38:697-703

Kording KP, Konig P (2001) Supervised and Unsupervised Learning with Two Sites of Synaptic Integration J Comput Neurosci 11:207-215 [Journal]

Korogod SM, Kulagina IB (1998) Geometry-induced features of current transfer in neuronal dendrites with tonically activated conductances. Biol Cybern 79:231-40 [PubMed]

   Geometry-induced features of current transfer in neuronal dendrites (Korogod, Kulagina 1998) [Model]

Krichmar JL, Nasuto SJ, Scorcioni R, Washington SD, Ascoli GA (2002) Effects of dendritic morphology on CA3 pyramidal cell electrophysiology: a simulation study. Brain Res 941:11-28 [PubMed]

Krichmar JL, Velasquez D, Ascoli GA (2006) Effects of {beta--Catenin on Dendritic Morphology and Simulated Firing Patterns in Cultured Hippocampal Neurons. Biol Bull 211:31-43 [PubMed]

Krishnan GP, Filatov G, Shilnikov A, Bazhenov M (2015) Electrogenic properties of the Na+/K+ ATPase controls transitions between normal and pathological brain states J Neurophysiol (113(9):3356-3374 [Journal] [PubMed]

   Single cell model with variable ion concentrations and Na+/K+ ATPase (Krishnan et al. 2015) [Model]

Kubota Y,Karube F, Nomura M, Gulledge AT, Mochizuki A, Schertel A, Kawaguchi Y (2011) Conserved properties of dendritic trees in four cortical interneuron subtypes Scientific Reports 1:89 [Journal] [PubMed]

   Four cortical interneuron subtypes (Kubota et al. 2011) [Model]

Kurian M, Crook SM, Jung R (2011) Motoneuron model of self-sustained firing after spinal cord injury. J Comput Neurosci [Journal] [PubMed]

   Motoneuron model of self-sustained firing after spinal cord injury (Kurian et al. 2011) [Model]

Laing CR, Doiron B, Longtin A, Noonan L, Turner RW, and Maler L (2003) Type I Burst Excitability Journal of Computational Neuroscience 14:329-342 [Journal]

Lee DC, Jensen AL, Schiefer MA, Morgan CW, Grill WM (2005) Structural mechanisms to produce differential dendritic gains. Brain Res 1033:117-27 [Journal] [PubMed]

Lepora NF, Overton PG,Gurney K (2012) Efficient fitting of conductance-based model neurons from somatic current clamp. J. Comp. Neuro. 32(1):1-24 [Journal] [PubMed]

   Parameter estimation for Hodgkin-Huxley based models of cortical neurons (Lepora et al. 2011) [Model]

Li X, Ascoli GA (2006) Computational simulation of the input-output relationship in hippocampal pyramidal cells J of Comput Neurosci 21(2):191-209 [Journal] [PubMed]

   CA1 pyramidal neuron synaptic integration (Li and Ascoli 2006, 2008) [Model]

London M, Meunier C, Segev I (1999) Signal transfer in passive dendrites with nonuniform membrane conductance. J Neurosci 19:8219-33 [PubMed]

London M, Schreibman A, Hausser M, Larkum ME, Segev I (2002) The information efficacy of a synapse. Nat Neurosci 5:332-40 [PubMed]

McCormick DA, Shu Y, Yu Y (2007) Hodgkin and Huxley model still standing? Nature 445:E1-E2 [Journal] [PubMed]

   AP back-prop. explains threshold variability and rapid rise (McCormick et al. 2007, Yu et al. 2008) [Model]

Miller RF, Staff NP, Velte TJ (2006) Form and function of ON-OFF amacrine cells in the amphibian retina. J Neurophysiol 95:3171-90 [Journal] [PubMed]

Mo CH, Koch C (2003) Modeling reverse-phi motion-selective neurons in cortex: double synaptic-veto mechanism. Neural Comput 15:735-59 [PubMed]

Moortgat KT, Bullock TH, Sejnowski TJ (2000) Gap junction effects on precision and frequency of a model pacemaker network. J Neurophysiol 83:984-97 [Journal] [PubMed]

Morita K (2008) Possible role of dendritic compartmentalization in the spatial working memory circuit. J Neurosci 28:7699-724 [Journal] [PubMed]

   Working memory circuit with branched dendrites (Morita 2008) [Model]

Morse TM (2008) ModelDB in Computational Neuroscience Education - a research tool as interactive educational media. Interactive Educational Media for the Neural and Cognitive Sciences. Brains, Minds & Media, Lorenz S, Egelhaaf M, ed. pp.bmm1409 [Journal]

Murakami S, Okada Y (2006) Contributions of principal neocortical neurons to magnetoencephalography and electroencephalography signals. J Physiol 575:925-36 [Journal] [PubMed]

Nakano T, Yoshimoto J, Doya K (2013) A model-based prediction of the calcium responses in the striatal synaptic spines depending on the timing of cortical and dopaminergic inputs and post-synaptic spikes. Front Comput Neurosci 7:119 [Journal] [PubMed]

   Calcium response prediction in the striatal spines depending on input timing (Nakano et al. 2013) [Model]

Narayanan R, Chattarji S (2010) Computational analysis of the impact of chronic stress on intrinsic and synaptic excitability in the hippocampus. J Neurophysiol 103:3070-83 [PubMed]

   Impact of dendritic atrophy on intrinsic and synaptic excitability (Narayanan & Chattarji, 2010) [Model]

Narayanan R, Narayan A, Chattarji S (2005) A probabilistic framework for region-specific remodeling of dendrites in three-dimensional neuronal reconstructions. Neural Comput 17:75-96 [PubMed]

   Region-specific atrophy in dendrites (Narayanan, Narayan, Chattarji, 2005) [Model]

Nenadic Z, Burdick JW (2006) A control algorithm for autonomous optimization of extracellular recordings. IEEE Trans Biomed Eng 53:941-55 [Journal] [PubMed]

O`Connor S, Angelo K, Jacob TJC (2012) Burst firing versus synchrony in a gap junction connected olfactory bulb mitral cell network model. 6:75. Frontiers in Computational Neuroscience 6:75:1-18 [Journal]

   Olfactory bulb mitral cell gap junction NN model: burst firing and synchrony (O`Connor et al. 2012) [Model]

Otopalik AG, Goeritz ML, Sutton AC, Brookings T, Guerini CJ, Marder E (2017) Sloppy morphological tuning in identified neurons of the crustacean stomatogastric ganglion. Elife [Journal] [PubMed]

   Sloppy morphological tuning in identified neurons of the crustacean STG (Otopalik et al 2017) [Model]

Papoutsi A, Kastellakis G, Poirazi P (2017) Basal tree complexity shapes functional pathways in the prefrontal cortex. J Neurophysiol :jn.00099.2017 [Journal] [PubMed]

   L5 PFC pyramidal neurons (Papoutsi et al. 2017) [Model]

Parasuram H, Nair B, D`Angelo E, Hines M, Naldi G, Diwakar S (2016) Computational modeling of single neuron extracellular electric potentials and network Local Field Potentials using LFPsim Front. Comput. Neurosci. 10:65 [Journal]

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

Parekh R, Ascoli GA (2013) Neuronal morphology goes digital: a research hub for cellular and system neuroscience. Neuron 77:1017-38 [Journal] [PubMed]

   Neuronal morphology goes digital ... (Parekh & Ascoli 2013) [Model]

Polsky A, Mel B, Schiller J (2009) Encoding and decoding bursts by NMDA spikes in basal dendrites of layer 5 pyramidal neurons. J Neurosci 29:11891-903 [Journal] [PubMed]

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

Powers RK, Dai Y, Bell BM, Percival DB, Binder MD (2005) Contributions of the input signal and prior activation history to the discharge behaviour of rat motoneurones. J Physiol 562:707-24 [Journal] [PubMed]

   Contibutions of input and history to motoneuron output (Powers et al 2005) [Model]

Prescott SA, Sejnowski TJ, De Koninck Y (2006) Reduction of anion reversal potential subverts the inhibitory control of firing rate in spinal lamina I neurons: towards a biophysical basis for neuropathic pain. Mol Pain 2:32 [PubMed]

Roth A, Hausser M (2001) Compartmental models of rat cerebellar Purkinje cells based on simultaneous somatic and dendritic patch-clamp recordings. J Physiol 535:445-72 [PubMed]

Rowat PF, Elson RC (2004) State-Dependent Effects of Na Channel Noise on Neuronal burst Generation Journal of Computational Neuroscience 16:87-112 [Journal]

Rulkov NF, Timofeev I, Bazhenov M (2004) Oscillations in large-scale cortical networks: map-based model. J Comput Neurosci 17:203-23 [Journal] [PubMed]

   Large cortex model with map-based neurons (Rulkov et al 2004) [Model]

Saraga F, Skinner FK (2002) Dynamics and diversity in interneurons: a model exploration with slowly inactivating potassium currents. Neuroscience 113:193-203 [PubMed]

Schaefer AT, Larkum ME, Sakmann B, Roth A (2003) Coincidence detection in pyramidal neurons is tuned by their dendritic branching pattern. J Neurophysiol 89:3143-54 [Journal] [PubMed]

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

Schneider CJ, Cuntz H, Soltesz I (2014) Linking Macroscopic with Microscopic Neuroanatomy Using Synthetic Neuronal Populations. PLoS Comput Biol 10:e1003921 [Journal] [PubMed]

   Generation of granule cell dendritic morphology (Schneider et al. 2014) [Model]

Schultheiss NW, Edgerton JR, Jaeger D (2010) Phase response curve analysis of a full morphological globus pallidus neuron model reveals distinct perisomatic and dendritic modes of synaptic integration J. Neurosci. 30(7):2767-2782 [Journal] [PubMed]

   GP Neuron, somatic and dendritic phase response curves (Schultheiss et al. 2011) [Model]

Scorcioni R, Hamilton DJ, Ascoli GA (2008) Self-sustaining non-repetitive activity in a large scale neuronal-level model of the hippocampal circuit. Neural Netw [Journal] [PubMed]

Segev I, London M (2000) Untangling dendrites with quantitative models. Science 290:744-50 [PubMed]

Segev I, Rall W (1998) Excitable dendrites and spines: earlier theoretical insights elucidate recent direct observations. Trends Neurosci 21:453-60 [PubMed]

Sheasby BW, Fohlmeister JF (1999) Impulse encoding across the dendritic morphologies of retinal ganglion cells. J Neurophysiol 81:1685-98 [Journal] [PubMed]

   Salamander retinal ganglian cells: morphology influences firing (Sheasby, Fohlmeister 1999) [Model]

Stanley DA, Bardakjian BL, Spano ML, Ditto WL (2011) Stochastic amplification of calcium-activated potassium currents in Ca(2+) microdomains. J Comput Neurosci [Journal] [PubMed]

   CA1 pyramidal: Stochastic amplification of KCa in Ca2+ microdomains (Stanley et al. 2011) [Model]

Stiefel KM, Sejnowski TJ (2007) Mapping Function onto Neuronal Morphology. J Neurophysiol 98:513-526 [Journal] [PubMed]

   Mapping function onto neuronal morphology (Stiefel and Sejnowski 2007) [Model]

Stuart GJ, Hausser M (2001) Dendritic coincidence detection of EPSPs and action potentials. Nat Neurosci 4:63-71 [PubMed]

Tang AC, Bartels AM, Sejnowski TJ (1997) Effects of cholinergic modulation on responses of neocortical neurons to fluctuating input. Cereb Cortex 7:502-9 [PubMed]

Tejada J, Garcia-Cairasco N, Roque AC (2014) Combined role of seizure-induced dendritic morphology alterations and spine loss in newborn granule cells with mossy fiber sprouting on the hyperexcitability of a computer model of the dentate gyrus. PLoS Comput Biol 10:e1003601 [Journal] [PubMed]

   Dentate gyrus network model (Tejada et al 2014) [Model]

Tiesinga PH, Fellous JM, Jose JV, Sejnowski TJ (2001) Computational model of carbachol-induced delta, theta, and gamma oscillations in the hippocampus. Hippocampus 11:251-74 [PubMed]

Tikidji-Hamburyan RA, Narayana V, Bozkus Z, El-Ghazawi TA (2017) Software for Brain Network Simulations: A Comparative Study Front. Neuroinform. [Journal]

   Brain networks simulators - a comparative study (Tikidji-Hamburyan et al 2017) [Model]

Tomsett RJ, Ainsworth M, Thiele A, Sanayei M, Chen X, Gieselmann MA, Whittington MA, Cunningh (2015) Virtual Electrode Recording Tool for EXtracellular potentials (VERTEX): comparing multi-electrode recordings from simulated and biological mammalian cortical tissue. Brain Struct Funct 220(4):2333-53 [Journal] [PubMed]

   Large-scale model of neocortical slice in vitro exhibiting persistent gamma (Tomsett et al. 2014) [Model]

Toth TI, Crunelli V (1998) Effects of tapering geometry and inhomogeneous ion channel distribution in a neuron model. Neuroscience 84:1223-32 [PubMed]

Tsay D, Yuste R (2002) Role of dendritic spines in action potential backpropagation: a numerical simulation study. J Neurophysiol 88:2834-45 [Journal] [PubMed]

Tsutsui H, Oka Y (2001) Effects of characteristic dendritic tip geometry on the electrical properties of teleost thalamic neurons. J Neurophysiol 85:2289-92 [Journal] [PubMed]

   Dendritic tip geometry effects electrical properties (Tsutsui, Oka 2001) [Model]

Tsutsui H, Oka Y (2002) Slow removal of Na(+) channel inactivation underlies the temporal filtering property in the teleost thalamic neurons. J Physiol 539:743-53 [PubMed]

   Novel Na current with slow de-inactivation (Tsutsui, Oka 2002) [Model]

van der Velden L, van Hooft JA, Chameau P (2012) Altered dendritic complexity affects firing properties of cortical layer 2/3 pyramidal neurons in mice lacking the 5-HT3A receptor J Neurophysiol. 108:1521-1528 [Journal] [PubMed]

   Altered complexity in layer 2/3 pyramidal neurons (Luuk van der Velden et al. 2012) [Model]

van Elburg RA, van Ooyen A (2010) Impact of dendritic size and dendritic topology on burst firing in pyramidal cells. PLoS Comput Biol 6:e1000781 [Journal] [PubMed]

   Impact of dendritic size and topology on pyramidal cell burst firing (van Elburg and van Ooyen 2010) [Model]

van Ooyen A, Duijnhouwer J, Remme MW, van Pelt J (2002) The effect of dendritic topology on firing patterns in model neurons. Network 13:311-25 [PubMed]

van Pelt J, van Ooyen A, Uylings HB (2001) The need for integrating neuronal morphology databases and computational environments in exploring neuronal structure and function. Anat Embryol (Berl) 204:255-65 [PubMed]

Vetter P, Roth A, Hausser M (2001) Propagation of action potentials in dendrites depends on dendritic morphology. J Neurophysiol 85:926-37 [Journal] [PubMed]

   Dendritica (Vetter et al 2001) [Model]

Vierling-Claassen D, Cardin JA, Moore CI, Jones SR (2010) Computational modeling of distinct neocortical oscillations driven by cell-type selective optogenetic drive: separable resonant circuits controlled by low-threshold spiking and fast-spiking interneurons. Front Hum Neurosci 4:198 [Journal] [PubMed]

   Engaging distinct oscillatory neocortical circuits (Vierling-Claassen et al. 2010) [Model]

Wang HP, Spencer D, Fellous JM, Sejnowski TJ (2010) Synchrony of thalamocortical inputs maximizes cortical reliability. Science 328:106-9 [PubMed]

Washington SD, Ascoli GA, Krichmar JL (2000) Statistical Analysis of Dendritic Morphology's Effect on CA3 Pyramidal Cell Electrophysiology Neurocomputing 32:261-269

Weaver CM, Hof PR, Wearne SL, Lindquist WB (2004) Automated algorithms for multiscale morphometry of neuronal dendrites. Neural Comput 16:1353-83

Wetmore DZ, Mukamel EA, Schnitzer MJ (2007) Lock-and-key mechanisms of cerebellar memory recall based on rebound currents. J Neurophysiol : [PubMed]

Wilmes KA, Sprekeler H, Schreiber S (2016) Inhibition as a Binary Switch for Excitatory Plasticity in Pyramidal Neurons. PLoS Comput Biol 12:e1004768 [Journal] [PubMed]

   Inhibition of bAPs and Ca2+ spikes in a multi-compartment pyramidal neuron model (Wilmes et al 2016) [Model]

Wu T, Fan J, Lee KS, Li X (2015) Cortical neuron activation induced by electromagnetic stimulation: a quantitative analysis via modelling and simulation. J Comput Neurosci [Journal] [PubMed]

Yu Y, Shu Y, McCormick DA (2008) Cortical action potential backpropagation explains spike threshold variability and rapid-onset kinetics. J Neurosci 28:7260-72 [Journal] [PubMed]

   AP back-prop. explains threshold variability and rapid rise (McCormick et al. 2007, Yu et al. 2008) [Model]

Zeldenrust F, Chameau PJ, Wadman WJ (2013) Reliability of spike and burst firing in thalamocortical relay cells. J Comput Neurosci 35(3):317-344 [Journal] [PubMed]

   Reliability of Morris-Lecar neurons with added T, h, and AHP currents (Zeldenrust et al. 2013) [Model]

Zylbertal A, Kahan A, Ben-Shaul Y, Yarom Y, Wagner S (2015) Prolonged Intracellular Na+ Dynamics Govern Electrical Activity in Accessory Olfactory Bulb Mitral Cells PLOS Biology 13(12):e1002319 [Journal]

   AOB mitral cell: persistent activity without feedback (Zylbertal et al., 2015) [Model]

Zylbertal A, Yarom Y, Wagner S (2017) The Slow Dynamics of Intracellular Sodium Concentration Increase the Time Window of Neuronal Integration: A Simulation Study Front. Comput. Neurosci. 11(85):1-16 [Journal]

   Cortical Layer 5b pyr. cell with [Na+]i mechanisms, from Hay et al 2011 (Zylbertal et al 2017) [Model]

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