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Hines ML, Morse T, Migliore M, Carnevale NT, Shepherd GM (2004) ModelDB: A Database to Support Computational Neuroscience. J Comput Neurosci 17:7-11[PubMed]

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Migliore M, Morse TM, Davison AP, Marenco L, Shepherd GM, Hines ML (2003) ModelDB: making models publicly accessible to support computational neuroscience. Neuroinformatics 1:135-9 [Journal] [PubMed]

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]

Anderson WD, Galvan EJ, Mauna JC, Thiels E, Barrionuevo G (2011) Properties and functional implications of Ih in hippocampal area CA3 interneurons Pflugers Arch. 462:895-912 [Journal] [PubMed]

   CA3 Radiatum/Lacunosum-Moleculare interneuron, Ih (Anderson et al. 2011) [Model]

Anderson WD, Makadia HK, Greenhalgh AD, Schwaber JS, David S, Vadigepalli R (2015) Computational modeling of cytokine signaling in microglia. Mol Biosyst 11:3332-46 [Journal] [PubMed]

   Microglial cytokine network (Anderson et al., 2015) [Model]

Anderson WD, Makadia HK, Vadigepalli R (2015) Molecular variability elicits a tunable switch with discrete neuromodulatory response phenotypes. J Comput Neurosci [Journal] [PubMed]

   Cell signaling/ion channel variability effects on neuronal response (Anderson, Makadia, et al. 2015) [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]

Bahmer A, Langner G (2009) Parameters for a model of an oscillating neuronal network in the cochlear nucleus defined by genetic algorithms. Biol Cybern 102:81-93 [Journal] [PubMed]

   Oscillating neurons in the cochlear nucleus (Bahmer Langner 2006a, b, and 2007) [Model]

Baker JL, Perez-Rosello T, Migliore M, Barrionuevo G, Ascoli GA (2011) A computer model of unitary responses from associational-commissural and perforant path synapses in hippocampal CA3 pyramidal cells. J Comput Neurosci 31(1):137-58 [Journal] [PubMed]

   A model of unitary responses from A/C and PP synapses in CA3 pyramidal cells (Baker et al. 2010) [Model]

Briant LJ, Stalbovskiy AO, Nolan MF, Champneys AR, Pickering AE (2014) Increased intrinsic excitability of muscle vasoconstrictor preganglionic neurons may contribute to the elevated sympathetic activity in hypertensive rats. J Neurophysiol 112:2756-2778 [Journal] [PubMed]

   Sympathetic Preganglionic Neurone (Briant et al. 2014) [Model]

Calin-Jageman RJ, Tunstall MJ, Mensh BD, Katz PS, Frost WN (2007) Parameter space analysis suggests multi-site plasticity contributes to motor pattern initiation in Tritonia. J Neurophysiol 98(4):2382-98 [Journal] [PubMed]

   Updated Tritonia Swim CPG (Calin-Jagemann et al. 2007) [Model]

Canakci S, Toy MF, Inci AF, Liu X, Kuzum D (2017) Computational analysis of network activity and spatial reach of sharp wave-ripples PLoS ONE 12(9):e0184542 [Journal] [PubMed]

   Computational analysis of NN activity and spatial reach of sharp wave-ripples (Canakci et al 2017) [Model]

Carey RM, Sherwood WE, Shipley MT, Borisyuk A, Wachowiak M (2015) Role of intraglomerular circuits in shaping temporally structured responses to naturalistic inhalation-driven sensory input to the olfactory bulb. J Neurophysiol :jn.00394.2014 [Journal] [PubMed]

   Olfactory bulb juxtaglomerular models (Carey et al., 2015) [Model]

Castro L, Aguiar P (2012) Phase precession through acceleration of local theta rhythm: a biophysical model for the interaction between place cells and local inhibitory neurons J Comput Neurosci. 33(1):141-50 [Journal] [PubMed]

   Phase precession through acceleration of local theta rhythm (Castro & Aguiar 2011) [Model]

Castro L, Aguiar P (2014) A feedforward model for the formation of a grid field where spatial information is provided solely from place cells. Biol Cybern 108:133-43 [Journal] [PubMed]

   Grid cells from place cells (Castro & Aguiar, 2014) [Model]

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]

Couto J, Linaro D, De Schutter E, Giugliano M (2015) On the Firing Rate Dependency Of the Phase Response Curves of rat Purkinje Neurons In Vitro PLOS Comp Biol [Journal] [PubMed]

   Phase response curves firing rate dependency of rat purkinje neurons in vitro (Couto et al 2015) [Model]

de Almeida LB, Idiart MA, Linster C (2013) A model of cholinergic modulation in olfactory bulb and piriform cortex. J Neurophysiol 109(5):1360-77 [Journal] [PubMed]

   ACh modulation in olfactory bulb and piriform cortex (de Almeida et al. 2013;Devore S, et al. 2014) [Model]

Devore S, de Almeida L, Linster C (2014) Distinct roles of bulbar muscarinic and nicotinic receptors in olfactory discrimination learning. J Neurosci 34:11244-60 [Journal] [PubMed]

   ACh modulation in olfactory bulb and piriform cortex (de Almeida et al. 2013;Devore S, et al. 2014) [Model]

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]

Eglen SJ, Marwick B, Halchenko YO, Hanke M, Sufi S, Gleeson P, Silver RA, Davison AP, Lanyon L, Abrams M, Wachtler T, Willshaw DJ, Pouzat C, Poline JB (2017) Toward standard practices for sharing computer code and programs in neuroscience. Nat Neurosci 20:770-773 [Journal] [PubMed]

Eguchi A, Neymotin SA and Stringer SM (2014) Color opponent receptive fields self-organize in a biophysical model of visual cortex via spike-timing dependent plasticity 8:16. doi: Front. Neural Circuits 8:16 [Journal]

   Simulated cortical color opponent receptive fields self-organize via STDP (Eguchi et al., 2014) [Model]

Esposito U, Giugliano M, van Rossum M, Vasilaki E (2014) Measuring symmetry, asymmetry and randomness in neural network connectivity. PLoS One 9:e100805 [Journal] [PubMed]

   Statistics of symmetry measure for networks of neurons (Esposito et al. 2014) [Model]

Fink CG, Gliske S, Catoni N, Stacey WC (2015) Network Mechanisms Generating Abnormal and Normal Hippocampal High-Frequency Oscillations: A Computational Analysis eNeuro 2(3):ENEURO.0024-15.2015 [Journal] [PubMed]

   Normal ripples, abnormal ripples, and fast ripples in a hippocampal model (Fink et al. 2015) [Model]

Forrest MD (2015) Simulation of alcohol action upon a detailed Purkinje neuron model and a simpler surrogate model that runs >400 times faster BMC Neuroscience 16:27 [Journal] [PubMed]

   Alcohol action in a detailed Purkinje neuron model and an efficient simplified model (Forrest 2015) [Model]

Giugliano M, Gambazzi L, Ballerini L, Prato M, Campidelli S (2012) Carbon nanotubes as electrical interfaces to neurons Nanotechnology for Biology and Medicine, Parpura V, Silva GA, ed. pp.187 [Journal]

   Carbon nanotubes as electrical interfaces to neurons (Giugliano et al. 2008) [Model]

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]

Goldwyn JH, Shea-Brown E (2011) The what and where of adding channel noise to the Hodgkin-Huxley Equations. PLoS Computational Biology 7(11):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]

Guet-McCreight A, Camire O, Topolnik L, Skinner FK (2016) Using a Semi-Automated Strategy to Develop Multi-Compartment Models That Predict Biophysical Properties of Interneuron-Specific 3 (IS3) Cells in Hippocampus. eNeuro [Journal] [PubMed]

   Interneuron Specific 3 Interneuron Model (Guet-McCreight et al, 2016) [Model]

Handy G, Taheri M, White JA, Borisyuk A (2017) Mathematical investigation of IP3-dependent calcium dynamics in astrocytes. J Comput Neurosci [Journal] [PubMed]

   A mathematical model of evoked calcium dynamics in astrocytes (Handy et al 2017) [Model]

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]

   Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2017) [Model]
   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]

Hay E, Segev I (2015) Dendritic excitability and gain control in recurrent cortical microcircuits Cerebral Cortex 25(10):3561-3571 [Journal] [PubMed]

   Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2017) [Model]
   Microcircuits of L5 thick tufted pyramidal cells (Hay & Segev 2015) [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]

Hubel N, Andrew RD, Ullah G (2016) Large extracellular space leads to neuronal susceptibility to ischemic injury in a Na(+)/K (+) pumps-dependent manner. J Comput Neurosci 40:177-92 [Journal] [PubMed]

   Anoxic depolarization, recovery: effect of brain regions and extracellular space (Hubel et al. 2016) [Model]

Huys QJ, Paninski L (2009) Smoothing of, and parameter estimation from, noisy biophysical recordings. PLoS Comput Biol 5:e1000379-80 [Journal] [PubMed]

   Smoothing of, and parameter estimation from, noisy biophysical recordings (Huys & Paninski 2009) [Model]

Jedlicka P, Hoon M, Papadopoulos T, Vlachos A, Winkels R, Poulopoulos A, Betz H, Deller T, Br (2010) Increased Dentate Gyrus Excitability in Neuroligin-2-Deficient Mice in Vivo. Cereb Cortex [Journal] [PubMed]

Ji Y, Zhang YH, Zheng WM (2016) Modelling Spiking Neural Network from the Architecture Evaluation Perspective Journal of Computer Science and Technology 31:50-59 [Journal]

Kim JK, Forger DB (2012) A mechanism for robust circadian timekeeping via stoichiometric balance Molecular Systems Biology 8:630:1-14 [Journal] [PubMed]

   Circadian clock model based on protein sequestration (simple version) (Kim & Forger 2012) [Model]
   Circadian clock model in mammals (detailed version) (Kim & Forger 2012) [Model]

Komendantov AO, Ascoli GA (2009) Dendritic excitability and neuronal morphology as determinants of synaptic efficacy. J Neurophysiol 101:1847-1866 [Journal] [PubMed]

Lange M, Henkel R, Muller W, Waltemath D, Weise S (2014) Chapter 3 Information Retrieval in Life Sciences: A Programmatic Survey Approaches in Integrative Bioinformatics: Towards the Virtual Cell, Chen M:Hofestadt R, ed. pp.73 [Journal]

Le Franc Y, Le Masson G (2010) Multiple firing patterns in deep Dorsal Horn Neurons of the spinal cord: computational analysis of mechanisms and functional implications. J Neurophysiol [Journal] [PubMed]

Lee S, Jones SR (2013) Distinguishing mechanisms of gamma frequency oscillations in human current source signals using a computational model of a laminar neocortical network. Front Hum Neurosci 7:869 [Journal] [PubMed]

   Current Dipole in Laminar Neocortex (Lee et al. 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 7:e1001102 [Journal] [PubMed]

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

Lytton WW (2006) Neural Query System: Data-mining from within the NEURON simulator. Neuroinformatics 4:163-76 [Journal] [PubMed]

   Neural Query System NQS Data-Mining From Within the NEURON Simulator (Lytton 2006) [Model]

Lytton WW, Hines ML (2005) Independent variable time-step integration of individual neurons for network simulations. Neural Comput 17:903-21 [Journal] [PubMed]

   Local variable time step method (Lytton, Hines 2005) [Model]

Makadia H, Anderson W, Fey D, Sauter T, Schwaber JS, Vadigepalli R (2015) Multiscale model of dynamic neuromodulation integrating neuropeptide induced signaling pathway activity with membrane electrophysiology Biophys J. 108(1):211-223 [Journal] [PubMed]

   Model of AngII signaling and membrane electrophysiology (Makadia, Anderson, Fey et al., 2015) [Model]

Makadia HK, Schwaber JS, Vadigepalli R (2015) Intracellular Information Processing through Encoding and Decoding of Dynamic Signaling Features. PLoS Comput Biol 11:e1004563 [Journal] [PubMed]

   Activator protein 1(AP-1) transcriptional regulatory model in brainstem neurons (Makadia et al 2015) [Model]

Manninen T, Havela R, Linne ML (2017) Reproducibility and comparability of computational models for astrocyte calcium excitability Front. Neuroinform. [Journal]

   Reproducibility and comparability of models for astrocyte Ca2+ excitability (Manninen et al 2017) [Model]
   Glutamate-evoked Ca2+ oscillations in single astrocytes (De Pitta et al. 2009) (Manninen et al 2017) [Model]
   Ca2+ oscillations in single astrocytes (Lavrentovich and Hemkin 2008) (python) (Manninen et al 2017) [Model]
   Glutamate-evoked Ca2+ oscillations in single astrocytes (Modified from Dupont et al. 2011) [Model]
   Spontaneous calcium oscillations in single astrocytes (Riera et al. 2011) (Manninen et al 2017) [Model]

Manninen T, Hituri K, Kotaleski JH, Blackwell KT, Linne ML (2010) Postsynaptic signal transduction models for long-term potentiation and depression. Front Comput Neurosci 4:152 [Journal] [PubMed]

Masquelier T (2017) STDP allows close-to-optimal spatiotemporal spike pattern detection by single coincidence detector neurons Neuroscience, in press, accepted manuscript [Journal]

   Optimal spatiotemporal spike pattern detection by STDP (Masquelier 2017) [Model]

Masquelier T, Deco G (2013) Network bursting dynamics in excitatory cortical neuron cultures results from the combination of different adaptive mechanisms PLoS ONE 8(10):e75824 [Journal] [PubMed]

   Network bursts in cultured NN result from different adaptive mechanisms (Masquelier & Deco 2013) [Model]

Masquelier T, Portelli G, Kornprobst P (2016) Microsaccades enable efficient synchrony-based coding in the retina: a simulation study Scientific Reports 6:24086 [Journal] [PubMed]

   Microsaccades and synchrony coding in the retina (Masquelier et al. 2016) [Model]

Mattioni M, Cohen U, Le Novere N (2012) Neuronvisio: A Graphical User Interface with 3D Capabilities for NEURON. Front Neuroinform 6:20 [Journal] [PubMed]

   Neuronvisio: a gui with 3D capabilities for NEURON (Mattioni et al. 2012) [Model]

Matveev V, Bose A, Nadim F (2007) Capturing the bursting dynamics of a two-cell inhibitory network using a one-dimensional map. J Comput Neurosci 23:169-87 [Journal] [PubMed]

   Two-cell inhibitory network bursting dynamics captured in a one-dimensional map (Matveev et al 2007) [Model]

McColgan T, Liu J, Kuokkanen PT, Carr CE, Wagner H, Kempter R (2017) Dipolar extracellular potentials generated by axonal projections. Elife [Journal] [PubMed]

   Dipolar extracellular potentials generated by axonal projections (McColgan et al 2017) [Model]

McDougal RA, Bulanova AS, Lytton WW (2016) Reproducibility in computational neuroscience models and simulations IEEE Trans Biomed Eng 63(10):2021-2035 [Journal] [PubMed]

McDougal RA, Shepherd GM (2015) 3D-printer visualization of neuron models. Front Neuroinform 9:18 [Journal] [PubMed]

   3D-printer visualization of NEURON models (McDougal and Shepherd, 2015) [Model]

McTavish TS, Migliore M, Shepherd GM, Hines ML (2012) Mitral cell spike synchrony modulated by dendrodendritic synapse location Frontiers in Computational Neuroscience 6:3 [Journal] [PubMed]

   Synchrony by synapse location (McTavish et al. 2012) [Model]

Moroni M, Biro I, Giugliano M, Vijayan R, Biggin PC, Beato M, Sivilotti LG (2011) Chloride Ions in the Pore of Glycine and GABA Channels Shape the Time Course and Voltage Dependence of Agonist Currents J Neuroscience 31(40):14095-14106 [Journal]

   Pipette and membrane patch geometry effects on GABAa currents patch-clamp exps (Moroni et al. 2011) [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]

Munro E, Kopell N (2012) Subthreshold somatic voltage in neocortical pyramidal cells can control whether spikes propagate from the axonal plexus to axon terminals: a model study J. Neurophysiol. 107(10):2833-52 [Journal] [PubMed]

   Neocort. pyramidal cells subthreshold somatic voltage controls spike propagation (Munro Kopell 2012) [Model]

Ness TV, Remme MW, Einevoll GT (2016) Active subthreshold dendritic conductances shape the local field potential. J Physiol 594:3809-25 [Journal] [PubMed]

Neymotin SA, McDougal RA, Sherif MA, Fall CP, Hines ML, Lytton WW (2015) Neuronal calcium wave propagation varies with changes in endoplasmic reticulum parameters: a computer model Neural Computation 27(4):898-924 [Journal] [PubMed]

   Neuronal dendrite calcium wave model (Neymotin et al, 2015) [Model]

Neymotin SA, Suter BA, Dura-Bernal S, Shepherd GM, Migliore M, Lytton WW (2017) Optimizing computer models of corticospinal neurons to replicate in vitro dynamics. J Neurophysiol 117(1):148-162 [Journal] [PubMed]

   Computer models of corticospinal neurons replicate in vitro dynamics (Neymotin et al. 2017) [Model]

Nicola W, Campbell SA (2013) Bifurcations of large networks of two-dimensional integrate and fire neurons. J Comput Neurosci [Journal] [PubMed]

   Mean Field Equations for Two-Dimensional Integrate and Fire Models (Nicola and Campbell, 2013) [Model]

Osinski BL, Kay LM (2016) Granule cell excitability regulates gamma and beta oscillations in a model of the olfactory bulb dendrodendritic microcircuit. J Neurophysiol 116:522-539 [Journal] [PubMed]

   Olfactory Bulb mitral-granule network generates beta oscillations (Osinski & Kay 2016) [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]

Podlaski WF, Seeholzer A, Groschner LN, Miesenböck G, Ranjan R, Vogels TP (2017) Mapping the function of neuronal ion channels in model and experiment. Elife [Journal] [PubMed]

Poleg-Polsky A (2015) Effects of Neural Morphology and Input Distribution on Synaptic Processing by Global and Focal NMDA-spikes PLOS One 10(10):e0140254 [Journal] [PubMed]

   Effects of neural morphology on global and focal NMDA-spikes (Poleg-Polsky 2015) [Model]

Poleg-Polsky A, Diamond JS (2011) Imperfect Space Clamp Permits Electrotonic Interactions between Inhibitory and Excitatory Synaptic Conductances, Distorting Voltage Clamp Recordings. PLoS ONE 6(4):e119463-. [Journal]

   Interacting synaptic conductances during, distorting, voltage clamp (Poleg-Polsky and Diamond 2011) [Model]

Popovic MA, Gao X, Carnevale NT, Zecevic D (2014) Cortical Dendritic Spine Heads Are Not Electrically Isolated by the Spine Neck from Membrane Potential Signals in Parent Dendrites. Cereb Cortex 24(2):385-395 [Journal] [PubMed]

Richmond P, Buesing L, Giugliano M, Vasilaki E (2011) Democratic population decisions result in robust policy-gradient learning: a parametric study with GPU simulations. PLoS One 6:e18539-58 [Journal] [PubMed]

   Democratic population decisions result in robust policy-gradient learning (Richmond et al. 2011) [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]

Scuri R, Lombardo P, Cataldo E, Ristori C, Brunelli M (2007) Inhibition of Na+-K+ ATPase potentiates synaptic transmission in tactile sensory neurons of the leech. Eur J Neurosci 25:159-67 [PubMed]

   Touch Sensory Cells (T Cells) of the Leech (Cataldo et al. 2004) (Scuri et al. 2007) [Model]

Short SM, Morse TM, McTavish TS, Shepherd GM, Verhagen JV (2016) Respiration gates sensory input responses in the Mitral Cell layer of the Olfactory Bulb PLOS ONE 11(12):e0168356 [Journal] [PubMed]

   Mitral cell activity gating by respiration and inhibition in an olfactory bulb NN (Short et al 2016) [Model]

Stacey WC, Krieger A, Litt B (2011) Network recruitment to coherent oscillations in a hippocampal computer model. J Neurophysiol 105(4):1464-1481 [Journal] [PubMed]

   Network recruitment to coherent oscillations in a hippocampal model (Stacey et al. 2011) [Model]

Stanley DA, Talathi SS, Parekh MB, Cordiner DJ, Zhou J, Mareci TH, Ditto WL, Carney PR (2013) Phase shift in the 24-hour rhythm of hippocampal EEG spiking activity in a rat model of temporal lobe epilepsy. J Neurophysiol 110:1070-86 [Journal] [PubMed]

   Hippocampal CA3 network and circadian regulation (Stanley et al. 2013) [Model]

Testa-Silva G, Loebel A, Giugliano M, de Kock CP, Mansvelder HD, Meredith RM (2011) Hyperconnectivity and Slow Synapses during Early Development of Medial Prefrontal Cortex in a Mouse Model for Mental Retardation and Autism Cerebral Cortex 22(6):1333-42 [Journal] [PubMed]

   Hyperconnectivity, slow synapses in PFC mental retardation and autism model (Testa-Silva et al 2011) [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]

Vasilaki E, Giugliano M (2014) Emergence of connectivity motifs in networks of model neurons with short- and long-term plastic synapses. PLoS One 9:e84626 [Journal] [PubMed]

   Emergence of Connectivity Motifs in Networks of Model Neurons (Vasilaki, Giugliano 2014) [Model]

Waltemath D, Wolkenhauer O (2016) How Modeling Standards, Software, and Initiatives Support Reproducibility in Systems Biology and Systems Medicine. IEEE Trans Biomed Eng 63:1999-2006 [Journal] [PubMed]

Welday AC, Shlifer IG, Bloom ML, Zhang K, Blair HT (2011) Cosine Directional Tuning of Theta Cell Burst Frequencies: Evidence for Spatial Coding by Oscillatory Interference J. Neurosci. 31:16157-16176 [Journal] [PubMed]

   Synthesis of spatial tuning functions from theta cell spike trains (Welday et al., 2011) [Model]

Williams AH, O'Donnell C, Sejnowski TJ, O'Leary T (2016) Dendritic trafficking faces physiologically critical speed-precision tradeoffs. Elife [Journal] [PubMed]

Yamazaki T, Ikeno H, Okumura Y, Satoh S, Kamiyama Y, Hirata Y, Inagaki K, Ishihara A, et al. (2011) Simulation Platform: A cloud-based online simulation environment. Neural Netw 24:693-8 [Journal] [PubMed]

Zachariou M, Alexander SP, Coombes S, Christodoulou C (2013) A biophysical model of endocannabinoid-mediated short term depression in hippocampal inhibition. PLoS One 8:e58926 [Journal] [PubMed]

Zandt BJ, ten Haken B, van Dijk JG, van Putten MJAM (2011) Neural Dynamics during Anoxia and the "Wave of Death" PLoS ONE 6(7):e22127 [Journal] [PubMed]

   Single neuron with ion concentrations to model anoxic depolarization (Zandt et al. 2011) [Model]

Zandt BJ, Visser S, van Putten MJAM, ten Haken B (2014) A neural mass model based on single cell dynamics to model pathophysiology Journal of Computational Neuroscience 37(3):549-68 [Journal] [PubMed]

   Neural mass model based on single cell dynamics to model pathophysiology (Zandt et al 2014) [Model]

Zhou L, Baxter DA, Byrne JH (2014) Contribution of PKC to the Maintenance of 5-HT-Induced Short-Term Facilitation at Sensorimotor Synapses of Aplysia. J Neurophysiol [Journal] [PubMed]

   SN-MN neurons of Aplysia (Zhou et al. 2014) [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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