Neuronal Dynamics: Computational Neuroscience of Single Neurons
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1 Week 7 part 7: Helping Humans Neuronal Dynamics: Computational Neuroscience of Single Neurons Week 7 Optimizing Neuron Models For Coding and Decoding Wulfram Gerstner EPFL, Lausanne, Switzerland 7.1 What is a good neuron model? - Models and data 7.2 AdEx model - Firing patterns and analysis 7.3 Spike Response Model (SRM) - Integral formulation 7.4 Generalized Linear Model (GLM) - Adding noise to the SRM 7.5 Parameter Estimation - Quadratic and convex optimization 7.6. Modeling in vitro data - how long lasts the effect of a spike? 7.7. Helping Humans
2 Week 7 part 7: Helping Humans 7.1 What is a good neuron model? - Models and data 7.2 AdEx model - Firing patterns and analysis 7.3 Spike Response Model (SRM) - Integral formulation 7.4 Generalized Linear Model (GLM) - Adding noise to the SRM 7.5 Parameter Estimation - Quadratic and convex optimization 7.6. Modeling in vitro data - how long lasts the effect of a spike? 7.7. Helping Humans
3 Neuronal Dynamics Review: Models and Data -Predict spike times -Predict subthreshold voltage -Easy to interpret (not a black box ) -Variety of phenomena -Systematic: optimize parameters BUT so far limited to in vitro
4 Neuronal Dynamics 7.7 Systems neuroscience, in vivo Now: extracellular recordings visual cortex A) Predict spike times, given stimulus B) Predict subthreshold voltage C) Easy to interpret (not a black box ) D) Flexible enough to account for a variety of phenomena E) Systematic procedure to optimize parameters Model of Encoding
5 Neuronal Dynamics 7.7 Estimation of receptive fields Estimation of spatial (and temporal) receptive fields ut = k I + u () k K k rest LNP firing intensity ρ() t = f( u() t ϑ()) t
6 Neuronal Dynamics 7.7 Estimation of Receptive Fields visual stimulus LNP = Linear-Nonlinear-Poisson Special case of GLM= Generalized Linear Model
7 GLM for prediction of retinal ganglion ON cell activity Pillow et al. 2008
8 Neuronal Dynamics 7.7 GLM with lateral coupling
9 One cell in a Network of Ganglion cells Pillow et al. 2008
10 Neuronal Dynamics 7.7 Model of ENCODING visual cortex A) Predict spike times, given stimulus B) Predict subthreshold voltage C) Easy to interpret (not a black box ) D) Flexible enough to account for a variety of phenomena E) Systematic procedure to optimize parameters Model of Encoding
11 Neuronal Dynamics 7.7 ENCODING and Decoding Model of Encoding Generalized Linear Model (GLM) - flexible model - systematic optimization of parameters Model of Decoding The same GLM works! - flexible model - systematic optimization of parameters
12 Neuronal Dynamics 7.7 Model of DECODING Predict stimulus! visual cortex Model of Decoding : predict stimulus, given spike times
13 Neuronal Dynamics 7.7 Helping Humans Application: Neuroprosthetics frontal cortex motor cortex Many groups world wide work on this problem! Predict intended arm movement, given Spike Times Model of Decoding
14 Neuronal Dynamics 7.7 Basic neuroprosthetics Application: Neuroprosthetics Decode the intended arm movement Hand velocity
15 Neuronal Dynamics 7.7 Why mathematical models? Mathematical models for neuroscience help humans The end
16 Neuronal Dynamics week 7 Suggested Reading/selected references Reading: W. Gerstner, W.M. Kistler, R. Naud and L. Paninski, Neuronal Dynamics: from single neurons to networks and models of cognition. Ch. 6,10,11: Cambridge, 2014 Nonlinear and adaptive IF Fourcaud-Trocme, N., Hansel, D., van Vreeswijk, C., and Brunel, N. (2003). How spike. J. Neuroscience, 23: Badel, L., et al. (2008a). Extracting nonlinear integrate-and-fire, Biol. Cybernetics, 99: Brette, R. and Gerstner, W. (2005). Adaptive exponential integrate-and-fire J. Neurophysiol., 94: Izhikevich, E. M. (2003). Simple model of spiking neurons. IEEE Trans Neural Netw, 14: Gerstner, W. (2008). Spike-response model. Scholarpedia, 3(12):1343. Optimization methods for neuron models, max likelihood, and GLM -Brillinger, D. R. (1988). Maximum likelihood analysis of spike trains of interacting nerve cells. Biol. Cybern., 59: Truccolo, et al. (2005). A point process framework for relating neural spiking activity to spiking history, neural ensemble, and extrinsic covariate effects. Journal of Neurophysiology, 93: Paninski, L. (2004). Maximum likelihood estimation of Network: Computation in Neural Systems, 15: Paninski, L., Pillow, J., and Lewi, J. (2007). Statistical models for neural encoding, decoding, and optimal stimulus design. In Cisek, P., et al., Comput. Neuroscience: Theoretical Insights into Brain Function. Elsevier Science. Pillow, J., ET AL.(2008). Spatio-temporal correlations and visual signalling. Nature, 454: Encoding and Decoding Rieke, F., Warland, D., de Ruyter van Steveninck, R., and Bialek, W. (1997). Spikes - Exploring the neural code. MIT Press, Keat, J., Reinagel, P., Reid, R., and Meister, M. (2001). Predicting every spike Neuron, 30: Mensi, S., et al. (2012). Parameter extraction and classication. J. Neurophys.,107: Pozzorini, C., Naud, R., Mensi, S., and Gerstner, W. (2013). Temporal whitening by. Nat. Neuroscience, Georgopoulos, A. P., Schwartz, A.,Kettner, R. E. (1986). Neuronal population coding of movement direction. Science, 233: Donoghue, J. (2002). Connecting cortex to machines: recent advances in brain interfaces. Nat. Neurosci., 5:
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