Activate Activate Activate
contact  
Hello. Sign in to personalize your visit. New user? Register now.  

In
By author

Neural Computation

September 1994, Vol. 6, No. 5, Pages 1005-1030
Posted Online April 4, 2008.
(doi:10.1162/neco.1994.6.5.1005)
© 1994 Massachusetts Institute of Technology

Bayesian Modeling and Classification of Neural Signals

Michael S. Lewicki

Computation and Neural Systems Program, California Institute of Technology 216-76, Pasadena, CA 91125 USA

PDF (1,225.396 KB) | PDF Plus (559.459 KB)

Identifying and classifying action potential shapes in extracellular neural waveforms have long been the subject of research, and although several algorithms for this purpose have been successfully applied, their use has been limited by some outstanding problems. The first is how to determine shapes of the action potentials in the waveform and, second, how to decide how many shapes are distinct. A harder problem is that action potentials frequently overlap making difficult both the determination of the shapes and the classification of the spikes. In this report, a solution to each of these problems is obtained by applying Bayesian probability theory. By defining a probabilistic model of the waveform, the probability of both the form and number of spike shapes can be quantified. In addition, this framework is used to obtain an efficient algorithm for the decomposition of arbitrarily complex overlap sequences. This algorithm can extract many times more information than previous methods and facilitates the extracellular investigation of neuronal classes and of interactions within neuronal circuits.

Cited by

Yoshio Sakurai, Tomoaki Nakazono, Seiya Ishino, Satoshi Terada, Kenji Yamaguchi, Susumu Takahashi. (2013) Diverse synchrony of firing reflects diverse cell-assembly coding in the prefrontal cortex. Journal of Physiology-Paris
Online publication date: 1-Jun-2013.
Juan Martínez, Rodrigo Quiroga. 2013. Spike Sorting. , 61-74.
Luis A. Camuñas-Mesa, Rodrigo Quian Quiroga. (2013) A Detailed and Fast Model of Extracellular Recordings. Neural Computation 25:5, 1191-1212
Online publication date: 1-May-2013.
Abstract | Full Text | PDF (860 KB) | PDF Plus (508 KB) 
Yoshio Sakurai, Susumu Takahashi. (2013) Conditioned enhancement of firing rates and synchrony of hippocampal neurons and firing rates of motor cortical neurons in rats. European Journal of Neuroscience 37:4, 623-639
Online publication date: 1-Feb-2013.
Vasilis Z. Marmarelis, Dae C. Shin, Dong Song, Robert E. Hampson, Sam A. Deadwyler, Theodore W. Berger. (2013) Nonlinear modeling of dynamic interactions within neuronal ensembles using Principal Dynamic Modes. Journal of Computational Neuroscience 34:1, 73-87
Online publication date: 1-Feb-2013.
Yuan Yuan, Chenhui Yang, Jennie Si. (2012) The M-Sorter: An automatic and robust spike detection and classification system. Journal of Neuroscience Methods 210:2, 281-290
Online publication date: 1-Sep-2012.
Zhe Peng, ShaoJu Zeng, Yu Liu, YaNan Dong, HongYan Zhang, XinWen Zhang, MingXue Zuo. (2012) Comparative study on song behavior, and ultra-structural, electrophysiological and immunoreactive properties in RA among deafened, untutored and normal-hearing Bengalese finches. Brain Research 1458, 40-55
Online publication date: 1-Jun-2012.
Douglas M. Schwarz, Muhammad S.A. Zilany, Melissa Skevington, Nicholas J. Huang, Brian C. Flynn, Laurel H. Carney. (2012) Semi-supervised spike sorting using pattern matching and a scaled Mahalanobis distance metric. Journal of Neuroscience Methods 206:2, 120-131
Online publication date: 1-May-2012.
GERT VAN DIJCK, KARSTEN SEIDL, OLIVER PAUL, PATRICK RUTHER, MARC M. VAN HULLE, REINOUD MAEX. (2012) ENHANCING THE YIELD OF HIGH-DENSITY ELECTRODE ARRAYS THROUGH AUTOMATED ELECTRODE SELECTION. International Journal of Neural Systems 22:01, 1-19
Online publication date: 1-Feb-2012.
Gaute T Einevoll, Felix Franke, Espen Hagen, Christophe Pouzat, Kenneth D Harris. (2012) Towards reliable spike-train recordings from thousands of neurons with multielectrodes. Current Opinion in Neurobiology 22:1, 11-17
Online publication date: 1-Feb-2012.
Manfred Hartbauer, Thilo B. Krüger, Thomas Stieglitz. (2012) Possibilities offered by implantable miniaturized cuff-electrodes for Insect neurophysiology. Neurocomputing
Online publication date: 1-Jan-2012.
Christopher L. Frewin, Luca Abbati, Edwin J. Weeber, Stephen E. Saddow. 2012. SiC for Brain–Machine Interface (BMI). , 257-307.
E Chah, V Hok, A Della-Chiesa, J J H Miller, S M O'Mara, R B Reilly. (2011) Automated spike sorting algorithmbased on Laplacian eigenmaps and k -means clustering. Journal of Neural Engineering 8:1, 016006
Online publication date: 1-Feb-2011.
Aryan Salmanpour, Lyndon J. Brown, J.Kevin Shoemaker. (2010) Spike detection in human muscle sympathetic nerve activity using a matched wavelet approach. Journal of Neuroscience Methods 193:2, 343-355
Online publication date: 30-Nov-2010.
Zhi Yang, Linh Hoang, Qi Zhao, Edward Keefer, Wentai Liu. (2010) 1/f Neural Noise Reduction and Spike Feature Extraction Using a Subset of Informative Samples. Annals of Biomedical Engineering
Online publication date: 18-Nov-2010.
Purvis Bedenbaugh, Diana K Sarko, Heidi L Roth, Eugene M Martin. (2010) Prosody-Preserving Voice Transformation to Evaluate Brain Representations of Speech Sounds. IEEE Transactions on Audio, Speech, and Language Processing 18:5, 1017-1029
Online publication date: 1-Jul-2010.
C. J. Keller, W. Truccolo, J. T. Gale, E. Eskandar, T. Thesen, C. Carlson, O. Devinsky, R. Kuzniecky, W. K. Doyle, J. R. Madsen, D. L. Schomer, A. D. Mehta, E. N. Brown, L. R. Hochberg, I. Ulbert, E. Halgren, S. S. Cash. (2010) Heterogeneous neuronal firing patterns during interictal epileptiform discharges in the human cortex. Brain 133:6, 1668-1681
Online publication date: 1-Jun-2010.
Di Ge, E. Le Carpentier, D. Farina. (2010) Unsupervised Bayesian Decomposition of Multiunit EMG Recordings Using Tabu Search. IEEE Transactions on Biomedical Engineering 57:3, 561-571
Online publication date: 1-Mar-2010.
Kostas Kokkinakis, Philipos C. Loizou. (2010) Advances in Modern Blind Signal Separation Algorithms: Theory and Applications. Synthesis Lectures on Algorithms and Software in Engineering 2:1, 1-100
Online publication date: 1-Jan-2010.
Michael T. Wolf*, Joel W. Burdick. (2009) A Bayesian Clustering Method for Tracking Neural Signals Over Successive Intervals. IEEE Transactions on Biomedical Engineering 56:11, 2649-2659
Online publication date: 1-Nov-2009.
K. Imfeld, A. Maccione, M. Gandolfo, S. Martinoia, P.-A. Farine, M. Koudelka-Hep, L. Berdondini. (2009) Real-time signal processing for high-density microelectrode array systems. International Journal of Adaptive Control and Signal Processing 23:11, 983-998
Online publication date: 1-Nov-2009.
Juan Martinez, Carlos Pedreira, Matias J. Ison, Rodrigo Quian Quiroga. (2009) Realistic simulation of extracellular recordings. Journal of Neuroscience Methods 184:2, 285-293
Online publication date: 1-Nov-2009.
Ariel Tankus, Yehezkel Yeshurun, Itzhak Fried. (2009) An automatic measure for classifying clusters of suspected spikes into single cells versus multiunits. Journal of Neural Engineering 6:5, 056001
Online publication date: 1-Oct-2009.
Valérie Ventura. (2009) Automatic Spike Sorting Using Tuning Information. Neural Computation 21:9, 2466-2501
Online publication date: 1-Sep-2009.
Abstract | Full Text | PDF (888 KB) | PDF Plus (486 KB) 
Zhi Yang, Qi Zhao, Wentai Liu. (2009) Improving spike separation using waveform derivatives. Journal of Neural Engineering 6:4, 046006
Online publication date: 1-Aug-2009.
V. Ventura. (2009) Traditional waveform based spike sorting yields biased rate code estimates. Proceedings of the National Academy of Sciences 106:17, 6921-6926
Online publication date: 28-Apr-2009.
Yoshio Sakurai,, Susumu Takahashi,. (2008) Dynamic Synchrony of Local Cell Assembly. Reviews in the Neurosciences 19:6, 425-440
Online publication date: 1-Dec-2008.
Joshua A. Herbst, Stephan Gammeter, David Ferrero, Richard H.R. Hahnloser. (2008) Spike sorting with hidden Markov models. Journal of Neuroscience Methods 174:1, 126-134
Online publication date: 1-Sep-2008.
Craig A. Atencio, Tatyana O. Sharpee, Christoph E. Schreiner. (2008) Cooperative Nonlinearities in Auditory Cortical Neurons. Neuron 58:6, 956-966
Online publication date: 1-Jun-2008.
Raul Benitez, Zoran Nenadic. (2008) Robust Unsupervised Detection of Action Potentials With Probabilistic Models. IEEE Transactions on Biomedical Engineering 55:4, 1344-1354
Online publication date: 1-Apr-2008.
Satoshi Kojima, Allison J. Doupe. (2008) Neural encoding of auditory temporal context in a songbird basal ganglia nucleus, and its independence of birds' song experience. European Journal of Neuroscience 27:5, 1231-1244
Online publication date: 1-Mar-2008.
Weidong Ding, Jingqi Yuan. (2008) Spike sorting based on multi-class support vector machine with superposition resolution. Medical & Biological Engineering & Computing 46:2, 139-145
Online publication date: 1-Feb-2008.
Sridhar Kalluri, Didier A. Depireux, Shihab A. Shamma. (2008) Perception and cortical neural coding of harmonic fusion in ferrets. The Journal of the Acoustical Society of America 123:5, 2701
Online publication date: 1-Jan-2008.
M JOSHUA, S ELIAS, O LEVINE, H BERGMAN. (2007) Quantifying the isolation quality of extracellularly recorded action potentials. Journal of Neuroscience Methods 163:2, 267-282
Online publication date: 30-Jul-2007.
Pramodsingh H. Thakur, Hanzhang Lu, Steven S. Hsiao, Kenneth O. Johnson. (2007) Automated optimal detection and classification of neural action potentials in extra-cellular recordings. Journal of Neuroscience Methods 162:1-2, 364-376
Online publication date: 1-May-2007.
A BARHILLEL, A SPIRO, E STARK. (2006) Spike sorting: Bayesian clustering of non-stationary data. Journal of Neuroscience Methods 157:2, 303-316
Online publication date: 30-Oct-2006.
T BLANCHE, N SWINDALE. (2006) Nyquist interpolation improves neuron yield in multiunit recordings. Journal of Neuroscience Methods 155:1, 81-91
Online publication date: 15-Jul-2006.
G.-L. Wang, Y. Zhou, A.-H. Chen, P.-M. Zhang, P.-J. Liang. (2006) A Robust Method for Spike Sorting With Automatic Overlap Decomposition. IEEE Transactions on Biomedical Engineering 53:6, 1195-1198
Online publication date: 1-Jun-2006.
Z. Nenadic, J.W. Burdick. (2006) A Control Algorithm for Autonomous Optimization of Extracellular Recordings. IEEE Transactions on Biomedical Engineering 53:5, 941-955
Online publication date: 1-May-2006.
Alex Zviagintsev, Yevgeny Perelman, Ran Ginosar. (2006) Algorithms and architectures for low power spike detection and alignment. Journal of Neural Engineering 3:1, 35-42
Online publication date: 1-Mar-2006.
X. Liu, D.B. McCreery, L.A. Bullara, W.F. Agnew. (2006) Evaluation of the Stability of Intracortical Microelectrode Arrays. IEEE Transactions on Neural Systems and Rehabilitation Engineering 14:1, 91-100
Online publication date: 1-Mar-2006.
C. Pouzat. 2005. Course 15 Technique(s) for spike-sorting. , 729-785.
Z. Nenadic, J.W. Burdick. (2005) Spike Detection Using the Continuous Wavelet Transform. IEEE Transactions on Biomedical Engineering 52:1, 74-87
Online publication date: 1-Jan-2005.
S. Takahashi, Y. Sakurai. (2005) Real-time and automatic sorting of multi-neuronal activity for sub-millisecond interactions in vivo. Neuroscience 134:1, 301-315
Online publication date: 1-Jan-2005.
Ronen Segev, Joe Goodhouse, Jason Puchalla, Michael J Berry. (2004) Recording spikes from a large fraction of the ganglion cells in a retinal patch. Nature Neuroscience 7:10, 1155-1162
Online publication date: 1-Oct-2004.
T HERMLE, C SCHWARZ, M BOGDAN. (2004) Employing ICA and SOM for spike sorting of multielectrode recordings from CNS. Journal of Physiology-Paris 98:4-6, 349-356
Online publication date: 1-Jul-2004.
F. Wood, M.J. Black, C. Vargas-Irwin, M. Fellows, J.P. Donoghue. (2004) On the Variability of Manual Spike Sorting. IEEE Transactions on Biomedical Engineering 51:6, 912-918
Online publication date: 1-Jun-2004.
P Zhang. (2004) Spike sorting based on automatic template reconstruction with a partial solution to the overlapping problem. Journal of Neuroscience Methods 135:1-2, 55-65
Online publication date: 30-May-2004.
S Shoham. (2003) Robust, automatic spike sorting using mixtures of multivariate t-distributions. Journal of Neuroscience Methods 127:2, 111-122
Online publication date: 15-Aug-2003.
S Takahashi. (2003) A new approach to spike sorting for multi-neuronal activities recorded with a tetrode—how ICA can be practical. Neuroscience Research 46:3, 265-272
Online publication date: 1-Jul-2003.
Vito Di Maio, Fortunato Marciano. (2003) AUTOMATIC CLASSIFICATION OF NEURAL SPIKE ACTIVITY: AN APPLICATION OF MINIMUM DISTANCE CLASSIFIERS. Cybernetics and Systems 34:3, 173-192
Online publication date: 1-Apr-2003.
Kyung Hwan Kim, Sung June Kim. (2003) Method for unsupervised classification of multiunit neural signal recording under low signal-to-noise ratio. IEEE Transactions on Biomedical Engineering 50:4, 421-431
Online publication date: 1-Apr-2003.
David P Nguyen, Loren M Frank, Emery N Brown. (2003) An application of reversible-jump Markov chain Monte Carlo to spike classification of multi-unit extracellular recordings. Network: Computation in Neural Systems 14:1, 61-82
Online publication date: 1-Feb-2003.
C Pouzat. (2002) Using noise signature to optimize spike-sorting and to assess neuronal classification quality. Journal of Neuroscience Methods 122:1, 43-57
Online publication date: 31-Dec-2002.
E Hulata. (2002) A method for spike sorting and detection based on wavelet packets and Shannon's mutual information. Journal of Neuroscience Methods 117:1, 1-12
Online publication date: 30-May-2002.
Lee M Miller, Monty A Escabı́, Heather L Read, Christoph E Schreiner. (2001) Functional Convergence of Response Properties in the Auditory Thalamocortical System. Neuron 32:1, 151-160
Online publication date: 11-Oct-2001.
Izhar Bar-Gad, Ya'acov Ritov, Eilon Vaadia, Hagai Bergman. (2001) Failure in identification of overlapping spikes from multiple neuron activity causes artificial correlations. Journal of Neuroscience Methods 107:1-2, 1-13
Online publication date: 30-May-2001.
2001. References. , 326-336.
G.P. Zhang. (2000) Neural networks for classification: a survey. IEEE Transactions on Systems, Man and Cybernetics, Part C (Applications and Reviews) 30:4, 451-462
Online publication date: 1-Nov-2000.
M Quirk. (1999) Interaction between spike waveform classification and temporal sequence detection. Journal of Neuroscience Methods 94:1, 41-52
Online publication date: 15-Dec-1999.
K Guillory. (1999) A 100-channel system for real time detection and storage of extracellular spike waveforms. Journal of Neuroscience Methods 91:1-2, 21-29
Online publication date: 15-Sep-1999.
P Rousche. (1999) Examination of the spatial and temporal distribution of sensory cortical activity using a 100-electrode array. Journal of Neuroscience Methods 90:1, 57-66
Online publication date: 1-Aug-1999.
R Snider. (1998) Classification of non-stationary neural signals. Journal of Neuroscience Methods 84:1-2, 155-166
Online publication date: 1-Oct-1998.
R. Chandra, L.M. Optican. (1997) Detection, classification, and superposition resolution of action potentials in multiunit single-channel recordings by an on-line real-time neural network. IEEE Transactions on Biomedical Engineering 44:5, 403-412
Online publication date: 1-May-1997.
Michale S. Fee, Partha P. Mitra, David Kleinfeld. (1996) Automatic sorting of multiple unit neuronal signals in the presence of anisotropic and non-Gaussian variability. Journal of Neuroscience Methods 69:2, 175-188
Online publication date: 1-Nov-1996.
C Gray. (1995) Tetrodes markedly improve the reliability and yield of multiple single-unit isolation from multi-unit recordings in cat striate cortex. Journal of Neuroscience Methods 63:1-2, 43-54
Online publication date: 1-Dec-1995.

Technology Partner - Atypon Systems, Inc.
  CrossRef member COUNTER member