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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 [PubMed]

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

References and models cited by this paper

References and models that cite this paper

Ahmed OJ, Mehta MR (2009) The hippocampal rate code: anatomy, physiology and theory. Trends Neurosci 32:329-38 [Journal] [PubMed]

Anderson CR, Stevens CF (1973) Voltage clamp analysis of acetylcholine produced end-plate current fluctuations at frog neuromuscular junction. J Physiol 235:655-91 [PubMed]

Armstrong CM (1969) Inactivation of the potassium conductance and related phenomena caused by quaternary ammonium ion injection in squid axons. J Gen Physiol 54:553-75 [PubMed]

Ascoli GA, Donohue DE, Halavi M (2007) NeuroMorpho.Org: a central resource for neuronal morphologies. J Neurosci 27:9247-51 [Journal] [PubMed]

Bhalla US (2004) Signaling in small subcellular volumes. II. Stochastic and diffusion effects on synaptic network properties. Biophys J 87:745-53 [Journal] [PubMed]

Bhalla US, Bilitch DH, Bower JM (1992) Rallpacks: a set of benchmarks for neuronal simulators. Trends Neurosci 15:453-8 [PubMed]

Cannon RC, D'Alessandro G (2006) The ion channel inverse problem: neuroinformatics meets biophysics. PLoS Comput Biol 2:e91 [Journal] [PubMed]

Cao Y, Gillespie DT, Petzold LR (2006) Efficient step size selection for the tau-leaping simulation method. J Chem Phys 124:044109 [Journal] [PubMed]

Carelli PV, Reyes MB, Sartorelli JC, Pinto RD (2005) Whole cell stochastic model reproduces the irregularities found in the membrane potential of bursting neurons. J Neurophysiol 94:1169-79 [Journal] [PubMed]

Chen X, Johnston D (2004) Properties of single voltage-dependent K+ channels in dendrites of CA1 pyramidal neurones of rat hippocampus. J Physiol 559:187-203 [Journal] [PubMed]

Chow CC, White JA (1996) Spontaneous action potentials due to channel fluctuations. Biophys J 71:3013-21 [Journal] [PubMed]

   Spontaneous firing caused by stochastic channel gating (Chow, White 1996) [Model]

Clay JR, DeFelice LJ (1983) Relationship between membrane excitability and single channel open-close kinetics. Biophys J 42:151-7 [Journal] [PubMed]

Collins JJ, Chow CC, Imhoff TT (1995) Stochastic resonance without tuning. Nature 376:236-8 [Journal] [PubMed]

Colquhoun D, Hawkes AG (1977) Relaxation and fluctuations of membrane currents that flow through drug-operated channels. Proc R Soc Lond B Biol Sci 199:231-62 [Journal] [PubMed]

Colquhoun D, Hawkes AG (1981) On the stochastic properties of single ion channels. Proc R Soc Lond B Biol Sci 211:205-35 [Journal] [PubMed]

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]

Douglass JK, Wilkens L, Pantazelou E, Moss F (1993) Noise enhancement of information transfer in crayfish mechanoreceptors by stochastic resonance. Nature 365:337-40 [Journal] [PubMed]

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]

Faisal AA, White JA, Laughlin SB (2005) Ion-channel noise places limits on the miniaturization of the brain's wiring. Curr Biol 15:1143-9 [Journal] [PubMed]

Fox RF (1997) Stochastic versions of the Hodgkin-Huxley equations. Biophys J 72:2068-74 [Journal] [PubMed]

Gasparini S, Magee JC (2006) State-dependent dendritic computation in hippocampal CA1 pyramidal neurons. J Neurosci 26:2088-100 [Journal] [PubMed]

Gasparini S, Migliore M, Magee JC (2004) On the initiation and propagation of dendritic spikes in CA1 pyramidal neurons. J Neurosci 24:11046-56 [Journal] [PubMed]

   CA1 pyramidal neuron: dendritic spike initiation (Gasparini et al 2004) [Model]

Gillespie DT (1977) Exact stochastic simulation of coupled chemical reactions. Journal Of Physical Chemistry 81:2340-2361

Gillespie DT (2001) Approximate accelerated stochastic simulation of chemically reacting systems The Journal Of Chemical Physics 115:1716-1733

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

Golding NL, Mickus TJ, Katz Y, Kath WL, Spruston N (2005) Factors mediating powerful voltage attenuation along CA1 pyramidal neuron dendrites. J Physiol 568:69-82 [Journal] [PubMed]

   Voltage attenuation in CA1 pyramidal neuron dendrites (Golding et al 2005) [Model]

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

Hille B (2001) Ionic Channels of Excitable Membranes

Hines M (1984) Efficient computation of branched nerve equations. Int J Biomed Comput 15:69-76 [PubMed]

Hines ML, Carnevale NT (1997) The NEURON simulation environment. Neural Comput 9:1179-209 [PubMed]

Hoffman DA, Magee JC, Colbert CM, Johnston D (1997) K+ channel regulation of signal propagation in dendrites of hippocampal pyramidal neurons. Nature 387:869-75 [Journal] [PubMed]

Jack JJB, Noble D, Tsien RW (1975) Electric Current Flow in Excitable Cells

Jarsky T, Roxin A, Kath WL, Spruston N (2005) Conditional dendritic spike propagation following distal synaptic activation of hippocampal CA1 pyramidal neurons. Nat Neurosci 8:1667-76 [Journal] [PubMed]

   CA1 pyramidal neuron synaptic integration (Jarsky et al. 2005) [Model]

Katz B, Miledi R (1972) The statistical nature of the acetycholine potential and its molecular components. J Physiol 224:665-99 [PubMed]

Kitano H (2002) Systems biology: a brief overview. Science 295:1662-4 [Journal] [PubMed]

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

Koch C, Segev I (1989) Methods In Neuronal Modeling, Koch C:Segev I, ed.

Kole MH, Hallermann S, Stuart GJ (2006) Single Ih channels in pyramidal neuron dendrites: properties, distribution, and impact on action potential output. J Neurosci 26:1677-87 [Journal] [PubMed]

   Stochastic Ih and Na-channels in pyramidal neuron dendrites (Kole et al 2006) [Model]

Kollo M, Holderith NB, Nusser Z (2006) Novel subcellular distribution pattern of A-type K+ channels on neuronal surface. J Neurosci 26:2684-91 [Journal] [PubMed]

Levin JE, Miller JP (1996) Broadband neural encoding in the cricket cercal sensory system enhanced by stochastic resonance. Nature 380:165-8 [Journal] [PubMed]

Lörincz A, Notomi T, Tamás G, Shigemoto R, Nusser Z (2002) Polarized and compartment-dependent distribution of HCN1 in pyramidal cell dendrites. Nat Neurosci 5:1185-93 [Journal] [PubMed]

Luján R, Albasanz JL, Shigemoto R, Juiz JM (2005) Preferential localization of the hyperpolarization-activated cyclic nucleotide-gated cation channel subunit HCN1 in basket cell terminals of the rat cerebellum. Eur J Neurosci 21:2073-82 [Journal] [PubMed]

Magee JC (1998) Dendritic hyperpolarization-activated currents modify the integrative properties of hippocampal CA1 pyramidal neurons. J Neurosci 18:7613-24 [PubMed]

Magistretti J, Ragsdale DS, Alonso A (1999) Direct demonstration of persistent Na+ channel activity in dendritic processes of mammalian cortical neurones. J Physiol 521 Pt 3:629-36 [PubMed]

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

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

Matsumoto M, Nishimura T (1998) Marsenne Twister: A 623-dimensionally equidistributed uniform pseudorandom number generator ACM Trans On Modelling And Computer Simulation 8:3-30

Migliore M, Hoffman DA, Magee JC, Johnston D (1999) Role of an A-type K+ conductance in the back-propagation of action potentials in the dendrites of hippocampal pyramidal neurons. J Comput Neurosci 7:5-15 [PubMed]

   CA1 pyramidal neuron (Migliore et al 1999) [Model]

Milner B, Squire LR, Kandel ER (1998) Cognitive neuroscience and the study of memory. Neuron 20:445-68 [PubMed]

Mino H, Rubinstein JT, White JA (2002) Comparison of algorithms for the simulation of action potentials with stochastic sodium channels. Ann Biomed Eng 30:578-87 [PubMed]

Mitchell SJ, Silver RA (2003) Shunting inhibition modulates neuronal gain during synaptic excitation. Neuron 38:433-45 [PubMed]

Moss F, Ward LM, Sannita WG (2004) Stochastic resonance and sensory information processing: a tutorial and review of application. Clin Neurophysiol 115:267-81 [PubMed]

Neher E, Sakmann B (1976) Single-channel currents recorded from membrane of denervated frog muscle fibres. Nature 260:799-802 [PubMed]

Neher E, Stevens CF (1977) Conductance fluctuations and ionic pores in membranes. Annu Rev Biophys Bioeng 6:345-81 [Journal] [PubMed]

Nevian T, Larkum ME, Polsky A, Schiller J (2007) Properties of basal dendrites of layer 5 pyramidal neurons: a direct patch-clamp recording study. Nat Neurosci 10:206-14 [Journal] [PubMed]

   Dendritic Na+ spike initiation and backpropagation of APs in active dendrites (Nevian et al. 2007) [Model]

Newey SE, Velamoor V, Govek EE, Van Aelst L (2005) Rho GTPases, dendritic structure, and mental retardation. J Neurobiol 64:58-74 [Journal] [PubMed]

Nolan MF, Dudman JT, Dodson PD, Santoro B (2007) HCN1 channels control resting and active integrative properties of stellate cells from layer II of the entorhinal cortex. J Neurosci 27:12440-51 [Journal] [PubMed]

Nusser Z (2009) Variability in the subcellular distribution of ion channels increases neuronal diversity. Trends Neurosci 32:267-74 [Journal] [PubMed]

O'Keefe J, Recce ML (1993) Phase relationship between hippocampal place units and the EEG theta rhythm. Hippocampus 3:317-30 [Journal] [PubMed]

Poirazi P, Brannon T, Mel BW (2003) Arithmetic of subthreshold synaptic summation in a model CA1 pyramidal cell. Neuron 37:977-87 [PubMed]

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

RALL W (1959) Branching dendritic trees and motoneuron membrane resistivity. Exp Neurol 1:491-527 [PubMed]

RALL W (1962) Theory of physiological properties of dendrites. Ann N Y Acad Sci 96:1071-92 [PubMed]

Saarinen A, Linne ML, Yli-Harja O (2008) Stochastic differential equation model for cerebellar granule cell excitability. PLoS Comput Biol 4:e1000004 [Journal] [PubMed]

Schneidman E, Freedman B, Segev I (1998) Ion channel stochasticity may be critical in determining the reliability and precision of spike timing. Neural Comput 10:1679-703 [PubMed]

Schreiber S, Machens CK, Herz AV, Laughlin SB (2002) Energy-efficient coding with discrete stochastic events. Neural Comput 14:1323-46 [Journal] [PubMed]

Scorcioni R, Lazarewicz MT, Ascoli GA (2004) Quantitative morphometry of hippocampal pyramidal cells: differences between anatomical classes and reconstructing laboratories. J Comp Neurol 473:177-93 [Journal] [PubMed]

Sigworth FJ (1980) The variance of sodium current fluctuations at the node of Ranvier. J Physiol 307:97-129 [PubMed]

Stiles JR, Van Helden D, Bartol TM, Salpeter EE, Salpeter MM (1996) Miniature endplate current rise times less than 100 microseconds from improved dual recordings can be modeled with passive acetylcholine diffusion from a synaptic vesicle. Proc Natl Acad Sci U S A 93:5747-52 [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. Eur J Neurosci 19:1257-66 [Journal] [PubMed]

van Rossum MC, O'Brien BJ, Smith RG (2003) Effects of noise on the spike timing precision of retinal ganglion cells. J Neurophysiol 89:2406-19 [Journal] [PubMed]

Vetter P, Roth A, Häusser 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]

White JA, Klink R, Alonso A, Kay AR (1998) Noise from voltage-gated ion channels may influence neuronal dynamics in the entorhinal cortex. J Neurophysiol 80:262-9 [Journal] [PubMed]

White JA, Rubinstein JT, Kay AR (2000) Channel noise in neurons. Trends Neurosci 23:131-7 [PubMed]

Anwar H, Hepburn I, Nedelescu H, Chen W, De Schutter E (2013) Stochastic calcium mechanisms cause dendritic calcium spike variability. J Neurosci 33:15848-67 [Journal] [PubMed]

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

Gewaltig MO, Cannon R (2014) Current practice in software development for computational neuroscience and how to improve it. PLoS Comput Biol 10:e1003376 [Journal] [PubMed]

Goldwyn JH, Imennov NS, Famulare M, Shea-Brown E (2011) Stochastic differential equation models for ion channel noise in Hodgkin-Huxley neurons. Phys Rev E Stat Nonlin Soft Matter Phys 83:041908 [Journal] [PubMed]

   On stochastic diff. eq. models for ion channel noise in Hodgkin-Huxley neurons (Goldwyn et al. 2010) [Model]

Goldwyn JH, Shea-Brown E (2011) The what and where of adding channel noise to the Hodgkin-Huxley equations. PLoS Comput Biol 7:e1002247 [Journal] [PubMed]

   Stochastic versions of the Hodgkin-Huxley equations (Goldwyn, Shea-Brown 2011) (pylab) [Model]
   Stochastic versions of the Hodgkin-Huxley equations (Goldwyn, Shea-Brown 2011) [Model]

Grein S, Stepniewski M, Reiter S, Knodel MM, Queisser G (2014) 1D-3D hybrid modeling-from multi-compartment models to full resolution models in space and time. Front Neuroinform 8:68 [Journal] [PubMed]

Hituri K, Linne ML (2013) Comparison of models for IP3 receptor kinetics using stochastic simulations. PLoS One 8:e59618 [Journal] [PubMed]

   IP3R model comparison (Hituri and Linne 2013) [Model]

Linaro D, Storace M, Giugliano M (2011) Accurate and fast simulation of channel noise in conductance-based model neurons by diffusion approximation. PLoS Comput Biol 7:e1001102 [Journal] [PubMed]

   Accurate and fast simulation of channel noise in conductance-based model neurons (Linaro et al 2011) [Model]

McDougal RA, Bulanova AS, Lytton WW (2016) Reproducibility in Computational Neuroscience Models and Simulations. IEEE Trans Biomed Eng 63:2021-35 [Journal] [PubMed]

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]

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]

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