Citation Relationships



Druckmann S, Banitt Y, Gidon A, Schürmann F, Markram H, Segev I (2007) A novel multiple objective optimization framework for constraining conductance-based neuron models by experimental data. Front Neurosci 1:7-18 [PubMed]

References and models cited by this paper

References and models that cite this paper

Aberra AS, Peterchev AV, Grill WM (2018) Biophysically realistic neuron models for simulation of cortical stimulation. J Neural Eng 15:066023 [Journal] [PubMed]

  • Biophysically realistic neuron models for simulation of cortical stimulation (Aberra et al. 2018) [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] [PubMed]

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

Alturki A, Feng F, Nair A, Guntu V, Nair SS (2016) Distinct current modules shape cellular dynamics in model neurons. Neuroscience 334:309-331 [Journal] [PubMed]

  • Distinct current modules shape cellular dynamics in model neurons (Alturki et al 2016) [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]

Beining M, Mongiat LA, Schwarzacher SW, Cuntz H, Jedlicka P (2017) T2N as a new tool for robust electrophysiological modeling demonstrated for mature and adult-born dentate granule cells eLife [Journal]

  • Mature and young adult-born dentate granule cell models (T2N interface) (Beining et al. 2017) [Model]
  • GC model (Beining et al 2017) [Model]

Carlu M, Chehab O, Dalla Porta L, Depannemaecker D, Héricé C, Jedynak M, Köksal Ersöz E, Muratore P, Souihel S, Capone C, Zerlaut Y, Destexhe A, di Volo M (2020) A mean-field approach to the dynamics of networks of complex neurons, from nonlinear Integrate-and-Fire to Hodgkin-Huxley models. J Neurophysiol 123:1042-1051 [Journal] [PubMed]

  • Mean field model for Hodgkin Huxley networks of neurons (Carlu et al 2020) [Model]

De Schutter E (2014) The dangers of plug-and-play simulation using shared models. Neuroinformatics 12:227-8 [Journal] [PubMed]

Egger R, Narayanan RT, Guest JM, Bast A, Udvary D, Messore LF, Das S, de Kock CP, Oberlaender M (2020) Cortical Output Is Gated by Horizontally Projecting Neurons in the Deep Layers Neuron [Journal]

  • Sensory-evoked responses of L5 pyramidal tract neurons (Egger et al 2020) [Model]

Eyal G, Verhoog MB, Testa-Silva G, Deitcher Y, Benavides-Piccione R, DeFelipe J, de Kock CPJ, Mansvelder HD, Segev I (2018) Human Cortical Pyramidal Neurons: From Spines to Spikes via Models. Front Cell Neurosci 12:181 [Journal] [PubMed]

  • Comprehensive models of human cortical pyramidal neurons (Eyal et al 2018) [Model]

Friedrich P, Vella M, Gulyás AI, Freund TF, Káli S (2014) A flexible, interactive software tool for fitting the parameters of neuronal models. Front Neuroinform 8:63 [Journal] [PubMed]

  • Software (called Optimizer) for fitting neuronal models (Friedrich et al. 2014) [Model]

Gidon A, Segev I (2012) Principles governing the operation of synaptic inhibition in dendrites. Neuron 75:330-41 [Journal] [PubMed]

  • Principles governing the operation of synaptic inhibition in dendrites (Gidon & Segev 2012) [Model]

Guet-McCreight A, Camiré 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]

Günay C, Doloc-Mihu A, Lamb DG, Calabrese RL (2019) Synaptic Strengths Dominate Phasing of Motor Circuit: Intrinsic Conductances of Neuron Types Need Not Vary across Animals. eNeuro [Journal] [PubMed]

  • Synaptic strengths are critical in creating the proper output phasing in a CPG (Gunay et al 2019) [Model]

Guo T, Tsai D, Morley JW, Suaning GJ, Kameneva T, Lovell NH, Dokos S (2016) Electrical activity of ON and OFF retinal ganglion cells: a modelling study. J Neural Eng 13:025005 [Journal] [PubMed]

  • Retinal ganglion cells responses and activity (Tsai et al 2012, Guo et al 2016) [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 Comput Biol 7:e1002107 [Journal] [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]

Hay E, Segev I (2015) Dendritic Excitability and Gain Control in Recurrent Cortical Microcircuits. Cereb Cortex 25:3561-71 [Journal] [PubMed]

  • Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018) [Model]
  • Microcircuits of L5 thick tufted pyramidal cells (Hay & Segev 2015) [Model]

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

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

Jedrzejewski-Szmek Z, Abrahao KP, Jedrzejewska-Szmek J, Lovinger DM, Blackwell KT (2018) Parameter Optimization Using Covariance Matrix Adaptation-Evolutionary Strategy (CMA-ES), an Approach to Investigate Differences in Channel Properties Between Neuron Subtypes. Front Neuroinform 12:47 [Journal] [PubMed]

  • Parameter optimization using CMA-ES (Jedrzejewski-Szmek et al 2018) [Model]

Jolivet R, Kobayashi R, Rauch A, Naud R, Shinomoto S, Gerstner W (2008) A benchmark test for a quantitative assessment of simple neuron models. J Neurosci Methods 169:417-24 [Journal] [PubMed]

  • Spike Response Model simulator (Jolivet et al. 2004, 2006, 2008) [Model]

Klaus A, Planert H, Hjorth J, Berke JD, Silberberg G, Kotaleski JH (2011) Striatal fast-spiking interneurons: from firing patterns to postsynaptic impact Front. Syst. Neurosci. [Journal]

  • Firing patterns in stuttering fast-spiking interneurons (Klaus et al. 2011) [Model]

Kozloski J, Wagner J (2011) An Ultrascalable Solution to Large-scale Neural Tissue Simulation. Front Neuroinform 5:15 [Journal] [PubMed]

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

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

Linaro D, Couto J, Giugliano M (2014) Command-line cellular electrophysiology for conventional and real-time closed-loop experiments. J Neurosci Methods 230:5-19 [Journal] [PubMed]

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

Linaro D, Ocker GK, Doiron B, Giugliano M (2019) Correlation Transfer by Layer 5 Cortical Neurons Under Recreated Synaptic Inputs In Vitro. J Neurosci 39:7648-7663 [Journal] [PubMed]

  • L5 cortical neurons with recreated synaptic inputs in vitro correlation transfer (Linaro et al 2019) [Model]

Mäki-Marttunen T, Halnes G, Devor A, Metzner C, Dale AM, Andreassen OA, Einevoll GT (2018) A stepwise neuron model fitting procedure designed for recordings with high spatial resolution: Application to layer 5 pyramidal cells. J Neurosci Methods 293:264-283 [Journal] [PubMed]

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

Manis PB, Campagnola L (2018) A biophysical modelling platform of the cochlear nucleus and other auditory circuits: From channels to networks. Hear Res 360:76-91 [Journal] [PubMed]

  • Modelling platform of the cochlear nucleus and other auditory circuits (Manis & Compagnola 2018) [Model]

Markram H, Muller E, Ramaswamy S, Reimann MW, Abdellah M, Sanchez CA, Ailamaki A, Alonso-Nanclares L, Antille N, Arsever S, Kahou GA, Berger TK, Bilgili A, Buncic N, Chalimourda A, Chindemi G, Courcol JD, Delalondre F, Delattre V, Druckmann S, Dumusc R, Dynes J, Eilemann S, Gal E, Gevaert ME, Ghobril JP, Gidon A, Graham JW, Gupta A, Haenel V, Hay E, Heinis T, Hernando JB, Hines M, Kanari L, Keller D, Kenyon J, Khazen G, Kim Y, King JG, Kisvarday Z, Kumbhar P, Lasserre S, Le Bé JV, Magalhães BR, Merchán-Pérez A, Meystre J, Morrice BR, Muller J, Muñoz-Céspedes A, Muralidhar S, Muthurasa K, Nachbaur D, Newton TH, Nolte M, Ovcharenko A, Palacios J, Pastor L, Perin R, Ranjan R, Riachi I, Rodríguez JR, Riquelme JL, Rössert C, Sfyrakis K, Shi Y, Shillcock JC, Silberberg G, Silva R, Tauheed F, Telefont M, Toledo-Rodriguez M, Tränkler T, Van Geit W, Díaz JV, Walker R, Wang Y, Zaninetta SM (2015) Reconstruction and Simulation of Neocortical Microcircuitry. Cell 163:456-92 [Journal] [PubMed]

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

Martínez-Cañada P, Morillas C, Pino B, Ros E, Pelayo F (2016) A Computational Framework for Realistic Retina Modeling. Int J Neural Syst 26:1650030 [Journal] [PubMed]

  • COREM: configurable retina simulator (Martínez-Cañada et al., 2016) [Model]

Masoli S, D'Angelo E (2017) Synaptic Activation of a Detailed Purkinje Cell Model Predicts Voltage-Dependent Control of Burst-Pause Responses in Active Dendrites. Front Cell Neurosci 11:278 [Journal] [PubMed]

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

Masoli S, Solinas S, D'Angelo E (2015) Action potential processing in a detailed Purkinje cell model reveals a critical role for axonal compartmentalization. Front Cell Neurosci 9:47 [Journal] [PubMed]

  • A detailed Purkinje cell model (Masoli et al 2015) [Model]

Mensi S, Naud R, Pozzorini C, Avermann M, Petersen CC, Gerstner W (2012) Parameter extraction and classification of three cortical neuron types reveals two distinct adaptation mechanisms. J Neurophysiol 107:1756-75 [Journal] [PubMed]

  • Extraction and classification of three cortical neuron types (Mensi et al. 2012) [Model]

Pospischil M, Toledo-Rodriguez M, Monier C, Piwkowska Z, Bal T, Frégnac Y, Markram H, Destexhe A (2008) Minimal Hodgkin-Huxley type models for different classes of cortical and thalamic neurons. Biol Cybern 99:427-41 [Journal] [PubMed]

  • Hodgkin-Huxley models of different classes of cortical neurons (Pospischil et al. 2008) [Model]

Rumbell T, Kozloski J (2019) Dimensions of control for subthreshold oscillations and spontaneous firing in dopamine neurons PLOS Computational Biology 15:1-34 [Journal]

  • Control of oscillations and spontaneous firing in dopamine neurons (Rumbell & Kozloski 2019) [Model]

Rumbell TH, Draguljic D, Yadav A, Hof PR, Luebke JI, Weaver CM (2016) Automated evolutionary optimization of ion channel conductances and kinetics in models of young and aged rhesus monkey pyramidal neurons. J Comput Neurosci 41:65-90 [Journal] [PubMed]

  • Rhesus Monkey Young and Aged L3 PFC Pyramidal Neurons (Rumbell et al. 2016) [Model]

Solinas S, Forti L, Cesana E, Mapelli J, De Schutter E, D'Angelo E (2007) Computational reconstruction of pacemaking and intrinsic electroresponsiveness in cerebellar Golgi cells. Front Cell Neurosci 1:2 [Journal] [PubMed]

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

Venkadesh S, Komendantov AO, Listopad S, Scott EO, De Jong K, Krichmar JL, Ascoli GA (2018) Evolving Simple Models of Diverse Intrinsic Dynamics in Hippocampal Neuron Types. Front Neuroinform 12:8 [Journal] [PubMed]

  • Evolving simple models of diverse dynamics in hippocampal neuron types (Venkadesh et al 2018) [Model]

(36 refs)