Spike detection and clustering with unsupervised wavelet optimization in extracellular neural recordings

IEEE Transactions on Biomedical Engineering

Volumn 59, Issue 9, 2012, Pages 2576-2585

  Shalchyan, Vahid ^a,b   Jensen, Winnie ^a   Farina, Dario ^b  

^a AALBORG UNIVERSITY   (Denmark)

^b UNIVERSITY MEDICAL CENTER GÖTTINGEN   (Germany)

Author keywords

Action potential (APs); extracellular recording; spike detection; spike sorting; unsupervised optimization; wavelet design

Indexed keywords

ACTION POTENTIALS; EXTRACELLULAR RECORDING; SPIKE DETECTION; SPIKE-SORTING; WAVELET DESIGN;

EDGE DETECTION; ELECTROPHYSIOLOGY; NEUROPHYSIOLOGY; OPTIMIZATION; SORTING;

SIGNAL DETECTION;

ACTION POTENTIAL; ARTICLE; CONTROLLED STUDY; CORRELATION ANALYSIS; ELECTROENCEPHALOGRAM; NERVE POTENTIAL; NONHUMAN; PROCESS OPTIMIZATION; RAT; SIGNAL DETECTION; SPIKE WAVE; WAVELET ANALYSIS;

ACTION POTENTIALS; ALGORITHMS; ANIMALS; CLUSTER ANALYSIS; COMPUTER SIMULATION; ELECTRODES, IMPLANTED; ELECTROENCEPHALOGRAPHY; MALE; MOTOR CORTEX; NEURONS; RATS; RATS, SPRAGUE-DAWLEY; WAVELET ANALYSIS;

EID: 84865486349     PISSN: 00189294     EISSN: 15582531     Source Type: Journal    
DOI: 10.1109/TBME.2012.2204991     Document Type: Article

References (38)

1. J. K. Chapin, K. A. Moxon, R. S. Markowitz, and M. A. Nicolelis, "Realtime control of a robot arm using simultaneously recorded neurons in the motor cortex," Nature Neurosci., vol. 2, pp. 664-670, Jul. 1999. (Pubitemid 30491219)
2. L. R. Hochberg, M. D. Serruya, G. M. Friehs, J. A. Mukand, M. Saleh, A. H. Caplan, A. Branner, D. Chen, R. D. Penn, and J. P. Donoghue, "Neuronal ensemble control of prosthetic devices by a human with tetraplegia," Nature, vol. 442, pp. 164-171, 2006. (Pubitemid 44086558)
3. M. S. Lewicki, "A review of methods for spike sorting: The detection and classification of neural action potentials," Network, vol. 9, pp. R53-R78, Nov. 1998. (Pubitemid 128692538)
4. I. N. Bankman and S. J. Janselewitz, "Neural waveform detector for prosthesis control," in Proc. 17th Annu. Conf. IEEE Eng. Med. Biol. Soc., 1995, pp. 963-964.
5. R. Chandra and L. Optican, "Detection, classification, and superposition resolution of action potentials in multiunit single-channel recordings by an on-line real-time neural network," IEEE Trans. Biomed. Eng., vol. 44, no. 5, pp. 403-412, May 1997. (Pubitemid 27183862)
6. R. Q. Quiroga, Z. Nadasdy, and Y. Ben-Shaul, "Unsupervised spike detection and sorting with wavelets and superparamagnetic clustering," Neural Comput., vol. 16, pp. 1661-1687, 2004. (Pubitemid 38835137)
7. M. S. Fee, P. P. Mitra, and D. Kleinfeld, "Variability of extracellular spike waveforms of cortical neurons," J. Neurophysiol., vol. 76, pp. 3823-3833, Dec. 1996. (Pubitemid 27009686)
8. K. H. Kim and S. J. Kim, "A wavelet-based method for action potential detection from extracellular neural signal recording with low signal-tonoise ratio," IEEE Trans. Biomed. Eng., vol. 50, no. 8, pp. 999-1011, Aug. 2003. (Pubitemid 36917439)
9. F. Worgotter, W. J. Daunicht, and R. Eckmiller, "An on-line spike form discriminator for extracellular recordings based on an analog correlation technique," J. Neurosci. Methods, vol. 17, pp. 141-151, 1986. (Pubitemid 16044886)
10. H. Kaneko, S. S. Suzuki, J. Okada, and M. Akamatsu, "Multineuronal spike classification based on multisite electrode recording, wholewaveform analysis, and hierarchical clustering," IEEE Trans. Biomed. Eng., vol. 46, no. 3, pp. 280-290, Mar. 1999. (Pubitemid 29119984)
11. S. N. Gozani, "Optimal discrimination and classification of neuronal action potential waveforms from multiunit, multichannel recordings using software-based linear filters," IEEE Trans. Biomed. Eng., vol. 41, no. 4, pp. 358-372, Apr. 1994. (Pubitemid 24169647)
12. P. M. Zhang, J. Y.Wu, Y. Zhou, P. J. Liang, and J. Q. Yuan, "Spike sorting based on automatic template reconstruction with a partial solution to the overlapping problem," J. Neurosci. Methods, vol. 135, pp. 55-65, May 30, 2004. (Pubitemid 38333125)
13. S. Kim and J. McNames, "Automatic spike detection based on adaptive template matching for extracellular neural recordings," J. Neurosci. Methods, vol. 165, pp. 165-174, Sep. 30, 2007. (Pubitemid 47212454)
14. K. H. Kim and S. J. Kim, "Neural spike sorting under nearly 0-dB signalto-noise ratio using nonlinear energy operator and artificial neural-network classifier," IEEE Trans. Biomed. Eng., vol. 47, no. 10, pp. 1406-1411, Oct. 2000.
15. S. Mukhopadhyay and G. C. Ray, "A new interpretation of nonlinear energy operator and its efficacy in spike detection," IEEE Trans. Biomed. Eng., vol. 45, no. 2, pp. 180-187, Feb. 1998. (Pubitemid 28128237)
16. I. Obeid and P. D. Wolf, "Evaluation of spike-detection algorithms for a brain-machine interface application," IEEE Trans. Biomed. Eng., vol. 51, no. 6, pp. 905-911, Jun. 2004. (Pubitemid 38661441)
17. J. H. Choi, H. K. Jung, and T. Kim, "A new action potential detector using the MTEO and its effects on spike sorting systems at low signal-to-noise ratios," IEEE Trans. Biomed. Eng., vol. 53, no. 4, pp. 738-746, Apr. 2006.
18. I. Obeid, "Comparison of spike detectors based on simultaneous intracellular and extracellular recordings," in Proc. 3rd Int. IEEE/Eng. Med. Biol. Soc. Conf. Neural Eng., May 2007, pp. 410-413. (Pubitemid 47432246)
19. S. Gibson, J. W. Judy, and D. Markovic, "Comparison of spike-sorting algorithms for future hardware implementation," in Proc. 30th Annu. Int. Conf. IEEE Eng. Med. Biol. Soc., Aug. 2008, pp. 5015-5020.
20. K. G. Oweiss and D. J. Anderson, "Noise reduction inmultichannel neural recordings using a new array wavelet denoising algorithm," Neurocomputing, vol. 38, pp. 1687-1693, 2001. (Pubitemid 35276823)
21. E. Hulata, R. Segev, and E. Ben-Jacob, "A method for spike sorting and detection based on wavelet packets and Shannon's mutual information," J. Neurosci. Methods, vol. 117, pp. 1-12, May 30, 2002. (Pubitemid 34663896)
22. A. Diedrich, W. Charoensuk, R. J. Brychta, A. C. Ertl, and R. Shiavi, "Analysis of raw microneurographic recordings based on wavelet denoising technique and classification algorithm: Wavelet analysis in microneurography, " IEEE Trans. Biomed. Eng., vol. 50, no. 1, pp. 41-50, Jan. 2003. (Pubitemid 36227937)
23. Z. Nenadic and J. W. Burdick, "Spike detection using the continuous wavelet transform," IEEE Trans. Biomed. Eng., vol. 52, no. 1, pp. 74-87, Jan. 2005. (Pubitemid 40065611)
24. C. Gold,D.A.Henze, C.Koch, and G. Buzs'aki, "On the origin of the extracellular action potential waveform: A modeling study," J. Neurophysiol., vol. 95, pp. 3113-3128, 2006.
25. E. N. Kamavuako, W. Jensen, K. Yoshida, M. Kurstjens, and D. Farina, "A criterion for signal-based selection of wavelets for denoising intrafascicular nerve recordings," J. Neurosci. Methods, vol. 186, pp. 274-280, 2010.
26. D. Farina, O. F. Nascimento,M. F. Lucas, and C. Doncarli, "Optimization of wavelets for classification of movement-related cortical potentials generated by variation of force-related parameters," J. Neurosci. Methods, vol. 162, pp. 357-363, 2007. (Pubitemid 46527929)
27. L. Brechet, M. F. Lucas, C. Doncarli, and D. Farina, "Compression of biomedical signals with mother wavelet optimization and best-basis wavelet packet selection," IEEE Trans. Biomed. Eng., vol. 54, no. 12, pp. 2186-2192, Dec. 2007. (Pubitemid 350157783)
28. D. Farina, M. F. Lucas, and C. Doncarli, "Optimized wavelets for blind separation of nonstationary surface myoelectric signals," IEEE Trans. Biomed. Eng., vol. 55, no. 1, pp. 78-86, Jan. 2008. (Pubitemid 350308403)
29. W. M. Lawton, "Tight frames of compactly supported affine wavelets," J. Math. Phys., vol. 31, pp. 1898-1901, 1990.
30. W. M. Lawton, "Necessary and sufficient conditions for constructing orthonormal wavelet bases," J. Math. Phys., vol. 32, pp. 57-61, 1991.
31. D. L. Donoho and I. M. Johnstone, "Ideal spatial adaptation by wavelet shrinkage," Biometrika, vol. 81, pp. 425-455, 1994.
32. D. L. Donoho, "De-noising by soft-thresholding," IEEE Trans. Inf. Theory, vol. 41, no. 3, pp. 613-627, May 1995.
33. S. Mallat and S. Zhong, "Characterization of signals from multiscale edges," IEEE Trans. Pattern Anal. Mach. Intell., vol. 14, no. 7, pp. 710-732, Jul. 1992.
34. Y. Xu and J. B. Weaver, "Wavelet transform domain filters: A spatially selective noise filtration technique," IEEE Trans. Image Process., vol. 3, no. 6, pp. 747-758, Nov. 1994.
35. L. Zhang and P. Bao, "Edge detection by scale multiplication in wavelet domain," Pattern Recognit. Lett., vol. 23, pp. 1771-1784, 2002.
36. J. H. Ward Jr., "Hierarchical grouping to optimize an objective function," J. Amer. Stat. Assoc., vol. 58, pp. 236-244, 1963.
37. G. W. Milligan and P. D. Isaac, "The validation of four ultrametric clustering algorithms," Pattern Recognit., vol. 12, pp. 41-50, 1980. (Pubitemid 10117358)
38. W. Jensen and P. J. Rousche, "Encoding of self-paced, repetitive forelimb movements in rat primary motor cortex," in Proc. 26th Annu. Int. Conf. IEEE Eng. Med. Biol. Soc., Sep. 2004, pp. 4233-4236. (Pubitemid 40035188)