Modelling spike trains and extracting response latency with Bayesian binning

Journal of Physiology, Paris
D EndresM W Oram

Abstract

The peristimulus time histogram (PSTH) and the spike density function (SDF) are commonly used in the analysis of neurophysiological data. The PSTH is usually obtained by binning spike trains, the SDF being a (Gaussian) kernel smoothed version of the PSTH. While selection of the bin width or kernel size is often relatively arbitrary there have been recent attempts to remedy this situation (Shimazaki and Shinomoto, 2007c,b,a). We further develop an exact Bayesian generative model approach to estimating PSTHs (Endres et al., 2008) and demonstrate its superiority to competing methods using data from early (LGN) and late (STSa) visual areas. We also highlight the advantages of our scheme's automatic complexity control and generation of error bars. Additionally, our approach allows extraction of excitatory and inhibitory response latency from spike trains in a principled way, both on repeated and single trial data. We show that the method can be applied to data with high background firing rates and inhibitory responses (LGN) as well as to data with low firing rate and excitatory responses (STSa). Furthermore, we demonstrate on simulated data that our latency extraction method works for a range of signal-to-noise ratios and background...Continue Reading

References

Sep 10, 2002·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·M W OramK R Payne
Apr 9, 2005·Journal of Cognitive Neuroscience·Nick E BarracloughDavid I Perrett
Jun 30, 2005·Journal of Neurophysiology·Robert E KassEmery N Brown
Dec 23, 2006·Proceedings of the National Academy of Sciences of the United States of America·Artur LuczakKenneth D Harris
Apr 21, 2007·Neural Computation·Hideaki Shimazaki, Shigeru Shinomoto
May 26, 2007·Statistics in Medicine·Shigeru Shinomoto, Shinsuke Koyama
Mar 14, 2008·Neural Computation·Mark C W van RossumMike W Oram
Apr 2, 2008·Emergency Medicine Australasia : EMA·Nicola Cunningham

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Citations

May 6, 2015·Bio Systems·Marie LevakovaPetr Lansky
Aug 25, 2012·Computational Intelligence and Neuroscience·Shinichi TamuraYuko Mizuno-Matsumoto
Apr 8, 2009·Neural Networks : the Official Journal of the International Neural Network Society·John P CunninghamKrishna V Shenoy
Sep 26, 2012·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·Massimiliano TamborrinoPetr Lansky

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