An online spike detection and spike classification algorithm capable of instantaneous resolution of overlapping spikes

Journal of Computational Neuroscience

Volumn 29, Issue 1-2, 2010, Pages 127-148

  Franke, Felix ^a   Natora, Michal ^b   Boucsein, Clemens ^c   Munk, Matthias H J ^d   Obermayer, Klaus ^a  

^a BERNSTEIN CENTER FOR COMPUTATIONAL NEUROSCIENCE   (Germany)

^b TECHNISCHE UNIVERSITÄT BERLIN   (Germany)

^c UNIVERSITY OF FREIBURG   (Germany)

^d MAX PLANCK INSTITUTE FOR BIOLOGICAL CYBERNETICS   (Germany)

Author keywords

Deconfusion; Extracellular multi electrode recordings; FIR filters; Realtime spike sorting; Tetrode recordings

Indexed keywords

BANDPASS FILTERS; FIR FILTERS; NEURONS; SORTING; SOURCE SEPARATION;

CLASSIFICATION ALGORITHM; DECONFUSION; EXTRACELLULAR; EXTRACELLULAR MULTI ELECTRODE RECORDING; MULTI-ELECTRODE RECORDINGS; REAL- TIME; REALTIME SPIKE SORTING; SPIKE DETECTION; SPIKE-SORTING; TETRIDE RECORDING;

SIGNAL TO NOISE RATIO;

ANIMAL CELL; ANIMAL TISSUE; ARTICLE; BRAIN CORTEX; CLASSIFICATION ALGORITHM; CONTROLLED STUDY; MACACA; MATHEMATICAL ANALYSIS; MATHEMATICAL COMPUTING; MEMBRANE POTENTIAL; MEMORY; NERVE CELL; NONHUMAN; ONLINE SYSTEM; PREFRONTAL CORTEX; PRIORITY JOURNAL; RAT; SIGNAL NOISE RATIO; SIMULATION; SPIKE; TASK PERFORMANCE; WAKEFULNESS;

EID: 77956931641     PISSN: 09295313     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10827-009-0163-5     Document Type: Article

References (40)

1. TI Aksenova OK Chibirova OA Dryga IV Tetko AL Benabid AEP Villa 2003 An unsupervised automatic method for sorting neuronal spike waveforms in awake and freely moving animals Methods 30 2 178 187 1:CAS:528:DC%2BD3sXjt1OisLs%3D 10.1016/S1046-2023(03)00079-3 12725785 (Pubitemid 36506565)
2. Branchaud, E., Burdick, J., & Andersen, R. (2006). An algorithm for autonomous isolation of neurons in extracellular recordings. In Proc. first IEEE/RAS-EMBS international conference on biomedical robotics and biomechatronics BioRob 2006 (pp. 939-945). doi: 10.1109/BIOROB.2006.1639212. (Pubitemid 44931249)
3. JG Cham EA Branchaud Z Nenadic B Greger RA Andersen JW Burdick 2005 Semi-chronic motorized microdrive and control algorithm for autonomously isolating and maintaining optimal extracellular action potentials Journal of Neurophysiology 93 1 570 579 10.1152/jn.00369.2004 10.1152/jn.00369.2004 15229215 (Pubitemid 40626862)
4. R Chandra LM 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 10.1109/10.568916 1:STN:280:DyaK2s3ntVyisw%3D%3D 10.1109/10.568916 9125825 (Pubitemid 27183862)
5. JH Choi HK Jung T Kim 2006 A new action potential detector using the mteo and its effects on spike sorting systems at low signal-to-noise ratios IEEE Transactions on Biomedical Engineering 53 4 738 746 10.1109/TBME.2006.870239 10.1109/TBME.2006.870239 16602581
6. M Delescluse C Pouzat 2006 Efficient spike-sorting of multi-state neurons using inter-spike intervals information Journal of Neuroscience Methods 150 1 16 29 10.1016/j.jneumeth.2005.05.023 10.1016/j.jneumeth.2005.05.023 16085317 (Pubitemid 41770794)
7. W Ding J Yuan 2008 Spike sorting based on multi-class support vector machine with superposition resolution Medical and Biological Engineering and Computing 46 2 139 145 10.1007/s11517-007-0248-0 10.1007/s11517-007-0248-0 17874257 (Pubitemid 351234018)
8. R Eckhorn U Thomas 1993 A new method for the insertion of multiple microprobes into neural and muscular tissue, including fiber electrodes, fine wires, needles and microsensors Journal of Neuroscience Methods 49 3 175 179 1:STN:280:DyaK2c%2FpslShtg%3D%3D 10.1016/0165-0270(93)90121-7 8271837 (Pubitemid 23350481)
9. MS Fee PP Mitra. D 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 10.1016/S0165-0270(96)00050-7 1:STN:280:DyaK2s7gtFyjsQ%3D%3D 10.1016/S0165-0270(96)00050-7 8946321 (Pubitemid 26377776)
10. MS Fee PP Mitra D Kleinfeld 1996 Variability of extracellular spike waveforms of cortical neurons Journal of Neurophysiology 76 6 3823 3833 1:STN:280:DyaK2s7jvVyqtA%3D%3D 8985880
11. CM Gray PE Maldonado M Wilson B McNaughton 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 1:STN:280:DyaK28zotVSgtg%3D%3D 10.1016/0165-0270(95)00085-2 8788047 (Pubitemid 26009962)
12. KD Harris DA Henze J Csicsvari H Hirase G Buzsáki 2000 Accuracy of tetrode spike separation as determined by simultaneous intracellular and extracellular measurements Journal of Neurophysiology 84 1 401 414 1:STN:280:DC%2BD3cvitFCjsg%3D%3D 10899214
13. Hayes, M. H. (1996). Statistical digital signal processing and modeling. New York: Wiley.
14. E Hulata R Segev E Ben-Jacob 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 10.1016/S0165-0270(02)00032-8 12084559 (Pubitemid 34663896)
15. KH Kim SJ 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 10.1109/TBME.2003.809503 10.1109/TBME.2003.809503 12723053 (Pubitemid 36438219)
16. M Lewicki 1998 A review of methods for spike sorting: The detection and classification of neural action potentials Network: Computation in Neural Systems 9 4 53 78 10.1088/0954-898X/9/4/001
17. KC McGill 2002 Optimal resolution of superimposed action potentials IEEE Transactions on Biomedical Engineering 49 7 640 650 10.1109/TBME.2002.1010847 10.1109/TBME.2002.1010847 12083298 (Pubitemid 34651457)
18. W Melvin 2004 A stap overview IEEE Aerospace and Electronic Systems Magazine 19 1 19 35 10.1109/MAES.2004.1263229 10.1109/MAES.2004.1263229
19. N Mtetwa L Smith 2006 Smoothing and thresholding in neuronal spike detection Neurocomputing 69 10-12 1366 1370 10.1016/j.neucom.2005.12.108
20. I Obeid PD Wolf 2004 Evaluation of spike-detection algorithms for a brain-machine interface application IEEE Transactions on Biomedical Engineering 51 6 905 911 10.1109/TBME.2004.826683 10.1109/TBME.2004.826683 15188857 (Pubitemid 38661441)
21. J O'Keefe ML Recce 1993 Phase relationship between hippocampal place units and the eeg theta rhythm Hippocampus 3 3 317 330 10.1002/hipo.450030307 10.1002/hipo.450030307 8353611
22. C Pouzat O Mazor G Laurent 2002 Using noise signature to optimize spike-sorting and to assess neuronal classification quality Journal of Neuroscience 122 1 43 57
23. C Pouzat M Delescluse P Viot J Diebolt 2004 Improved spike-sorting by modeling firing statistics and burst-dependent spike amplitude attenuation: A markov chain monte carlo approach Journal of Neurophysiology 91 6 2910 2928 10.1152/jn.00227.2003 10.1152/jn.00227.2003 14749321 (Pubitemid 38649793)
24. S Rebrik B Wright A Emondi KD Miller 1999 Cross-channel correlations in tetrode recordings: Implications for spike-sorting Neurocomputing 2627 1033 1038 10.1016/S0925-2312(99)00101-0 (Pubitemid 29447419)
25. Robinson, E. A., & Treitel, S. (1980). Geophysical signal analysis. Englewood Cliffs: Prentice Hall
26. U Rutishauser EM Schuman AN Mamelak 2006 Online detection and sorting of extracellularly recorded action potentials in human medial temporal lobe recordings, in vivo Journal of Neuroscience Methods 154 1-2 204 224 10.1016/j.jneumeth.2005.12.033 10.1016/j.jneumeth.2005.12.033 16488479 (Pubitemid 43833330)
27. Y Sakurai S Takahashi 2006 Dynamic synchrony of firing in the monkey prefrontal cortex during working-memory tasks Journal of Neuroscience 26 40 10141 10153 10.1523/JNEUROSCI.2423-06.2006 1:CAS:528:DC%2BD28XhtVymurbL 10.1523/JNEUROSCI.2423-06.2006 17021170 (Pubitemid 44527408)
28. S Shoham MR Fellows RA Normann 2003 Robust, automatic spike sorting using mixtures of multivariate t-distributions Journal of Neuroscience Methods 127 2 111 122 10.1016/S0165-0270(03)00120-1 12906941 (Pubitemid 36957863)
29. S Takahashi Y Anzai Y Sakurai 2003 Automatic sorting for multi-neuronal activity recorded with tetrodes in the presence of overlapping spikes Journal of Neurophysiology 89 4 2245 2258 10.1152/jn.00827.2002 10.1152/jn.00827.2002 12612049 (Pubitemid 36444277)
30. 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 10.1016/j.neuroscience.2005.03.031 1:CAS:528:DC%2BD2MXlvFynsb4%3D 10.1016/j.neuroscience.2005.03.031 15982823 (Pubitemid 40943656)
31. S Takahashi Y Sakurai M Tsukuda Y Anzai 2002 Classification of neural activities using independent component analysis Neurocomputing 49 289 298 10.1016/S0925-2312(02)00528-3 (Pubitemid 36097423)
32. PH Thakur H Lu SS Hsiao KO Johnson 2007 Automated optimal detection and classification of neural action potentials in extra-cellular recordings Journal of Neuroscience Methods 162 1-2 364 376 10.1016/j.jneumeth.2007.01.023 10.1016/j.jneumeth.2007.01.023 17353053 (Pubitemid 46527938)
33. G Turin 1960 An introduction to matched filters IRE Transactions on Information Theory 6 3 311 329 10.1109/TIT.1960.1057571 10.1109/TIT.1960.1057571
34. C Vargas-Irwin JP Donoghue 2007 Automated spike sorting using density grid contour clustering and subtractive waveform decomposition Journal of Neuroscience Methods 164 1 1 18 10.1016/j.jneumeth.2007.03.025 10.1016/j.jneumeth.2007.03.025 17512603 (Pubitemid 46935967)
35. R Vollgraf M Munk K Obermayer 2005 Optimal filtering for spike sorting of multi-site electrode recordings Network 16 1 85 113 10.1080/09548980500275378 16350435 (Pubitemid 43982150)
36. R Vollgraf K Obermayer 2006 Improved optimal linear filters for the discrimination of multichannel waveform templates for spike-sorting applications IEEE Signal Processing Letters 13 3 121 124 10.1109/LSP.2005.862621 10.1109/LSP.2005.862621 (Pubitemid 43263963)
37. GL Wang Y Zhou AH Chen PM Zhang PJ Liang 2006 A robust method for spike sorting with automatic overlap decomposition IEEE Transactions on Biomedical Engineering 53 6 1195 1198 10.1109/TBME.2006.873397 10.1109/TBME.2006.873397 16761848 (Pubitemid 43860744)
38. W Wu DW Wheeler ES Staedtler MHJ Munk G Pipa 2008 Behavioral performance modulates spike field coherence in monkey prefrontal cortex Neuroreport 19 2 235 238 10.1097/WNR.0b013e3282f49b29 10.1097/WNR.0b013e3282f49b29 18185115
39. R Xu ID Wunsch 2005 Survey of clustering algorithms IEEE Transactions on Neural Networks 16 3 645 678 10.1109/TNN.2005.845141 10.1109/TNN.2005.845141 15940994 (Pubitemid 40718010)
40. PM Zhang JY Wu Y Zhou PJ Liang JQ Yuan 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 10.1016/j.jneumeth.2003. 12.001 10.1016/j.jneumeth.2003.12.001 15020089 (Pubitemid 38333125)