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Analyzing cognitive processes from complex neuro-physiologically based data: some lessons

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Abstract

In the past few years, due to their ability to extract multivariate correlations, machine learning tools have become more and more important for discovery of information in very complex data sets. This has had specific application to various data sets related to human brain tasks. However, this is far from a simple and direct methodology. Some of the issues involve dealing with the extreme signal to noise ratios, as well as variation between different individuals. Moreover, the huge amount of features relative to the number of data points is a challenge. As a result, in attacking these problems, we found it necessary to adapt a large variety of methodologies; chosen to overcome specific obstructions for specific problems. In this paper, we describe our experience working on several examples at the edge of capabilities of these systems and describe the various and variant methodologies we needed to overcome these sort of challenges. Hopefully these cases will serve as a guideline for other applications.

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References

  1. Lashley, K.S.: In search of the engram. in Physiological mechanisms in animal behavior. (Society’s Symposium IV.), pp. 454–482. Academic Press, Oxford (1950)

    Google Scholar 

  2. Karczmar, A. G. and Eccles J. C., Brain and Human Behavior. Springer Science & Business Media, (1972)

  3. Tulving, E.: Episodic and Semantic Memory. Academic, London (1972)

    Google Scholar 

  4. Petrican, R., Moscovitch, M., Grady, C.: Proficiency in positive vs. negative emotion identification and subjective well-being among long-term married elderly couples. Front. Psychol. 5, (2014)

  5. Sharon, T., Moscovitch, M., Gilboa, A.: Rapid neocortical acquisition of long-term arbitrary associations independent of the hippocampus. Proc. Natl. Acad. Sci. 108(3), 1146–1151 (2011)

    Article  Google Scholar 

  6. Chomsky N., Aspects of the Theory of Syntax. MIT Press, (1965)

  7. Mazziotta, J.C.: Imaging: Window on the Brain. Arch. Neurol. 57(10), (2000)

  8. Hardoon, D.R., Mourão-Miranda, J., Brammer, M., Shawe-Taylor, J.: Unsupervised analysis of fMRI data using kernel canonical correlation. NeuroImage. 37(4), 1250–1259 (2007)

    Article  Google Scholar 

  9. Boehm, O., Hardoon, D.R., Manevitz, L.M.: Classifying cognitive states of brain activity via one-class neural networks with feature selection by genetic algorithms. Int. J. Mach. Learn. Cybern. 2(3), 125–134 (2011). https://doi.org/10.1007/s13042-011-0030-3

    Article  Google Scholar 

  10. Boehm, O., Hardoon, D.R., Manevitz, L.M.: Towards one-class pattern recognition in brain activity via neural networks. In: Sidorov, G., Aguirre, A.H., García, C.A.R. (eds.) Advances in Soft Computing, pp. 126–137. Berlin Heidelberg, Springer (2010)

    Chapter  Google Scholar 

  11. Hertz, S.: Two Issues in applications of Machine learning on fMRI data: Deep learning for One-class classification and Machine learning for detecting brain scan patterns. University of Haifa, Haifa (2014)

    Google Scholar 

  12. Frid, A., Hazan, H., Koilis, E., Manevitz, L.M., Merhav, M., and Star, G., Machine learning techniques and the existence of variant processes in humans declarative memory. 2015 7th International Joint Conference on Computational Intelligence (IJCCI), 3, 114–121 (2015)

  13. Atir-Sharon, T., et al.: Decoding the formation of new semantics: MVPA investigation of rapid neocortical plasticity during associative encoding through fast mapping, decoding the formation of new semantics: MVPA investigation of rapid neocortical plasticity during associative encoding through fast mapping. Neural Plast. 2015, p. e804385 (2015)

  14. Frid, A., Hazan, H., Kolis, E., Manevitz, L.M., Merhav, M., and Star, G., The existence of two variant processes in human declarative memory: evidence using machine learning classification techniques in retrieval tasks. Lect. Notes Comput. Sci., vol. Accepted, (2016)

  15. Nawa, N.E., Ando, H.: Classification of self-driven mental tasks from whole-brain activity patterns. PLoS ONE. 9(5), e97296 (2014)

    Article  Google Scholar 

  16. Frid, A., Manevitz, L. M., and Nawa, N. E., Identifying Positive and Negative autobiographical Memories from fMRI scans using feature selection in machine learning techniques. Presented at the 24th ISFN Annual Meeting, Eilat, Israel, (2015)

  17. Nawa, N.E., Frid, A., and Manevitz, L.M., Classifying valence of autobiographical memories from functional magnetic resonance imaging data. In The 46th Annual Meeting of the Society for Neuroscience (SfN 2016), San Diego, CA, (2016)

  18. Shalelashvili, H., Bitan, T., Frid, A., Hazan, H., Hertz, S., Weiss, Y., Manevitz, L.M., Recognizing deep grammatical information during reading from event related fMRI. in 2014 IEEE 28th Convention of Electrical Electronics Engineers in Israel (IEEEI), 2014, pp. 1–4

  19. Bitan, T., Frid, A., Hazan, H., Manevitz, L., Shalelashvili, H., and Weiss, Y., Classification from Generation: Recognizing Deep Grammatical Information During Reading from Rapid Event-Related fMRI. presented at the IEEE World Congress on Computational Intelligence (IEEE WCCI 2016), Vancouver, Canada, (2016)

  20. Hazan, H., Hilu, D., Manevitz, L., Ramig, L.O., and Sapir, S., Early diagnosis of Parkinson’s disease via machine learning on speech data. in 2012 IEEE 27th Convention of Electrical Electronics Engineers in Israel (IEEEI), 2012, pp. 1–4

  21. Frid, A., Hazan, H., Hilu, D., Manevitz, L., Ramig, L.O., and Sapir, S., Computational Diagnosis of Parkinson’s Disease Directly from Natural Speech Using Machine Learning Techniques. in 2014 IEEE International Conference on Software Science, Technology and Engineering (SWSTE), 2014, pp. 50–53

  22. Frid, A. and Manevitz, L.M., Topological Multi-Class Support Vector Machines and Diagnosis of Parkinson’s Disease. Presented at the Bar-Ilan Symposium on the Foundations of Artificial Intelligence (BISFAI), Bar-Ilan University, Ramat Gan, Israel, 2015

  23. Frid, A., Differences in phase synchrony of brain regions between regular and dyslexic readers. in 2014 IEEE 28th Convention of Electrical Electronics Engineers in Israel (IEEEI), 2014, pp. 1–4

  24. Frid, A. and Breznitz, Z., An SVM based algorithm for analysis and discrimination of dyslexic readers from regular readers using ERPs. in 2012 IEEE 27th Convention of Electrical Electronics Engineers in Israel (IEEEI), 2012, pp. 1–4

  25. Kohavi, R., John, G.H.: Wrappers for feature subset selection. Artif. Intell. 97(1–2), 273–324 (1997)

    Article  Google Scholar 

  26. Manevitz, L.M., Yousef, M.: One-class Svms for document classification. J. Mach. Learn. Res. 2, 139–154 (2002)

  27. D. R. Hardoon and L. M. Manevitz, “One-class Machine Learning Approach for fMRI Analysis. Presented at the Postgraduate Research Conference in Electronics, Photonics, Communications and Networks, and Computer Science, (2005)

  28. Levy, I., Hasson, U., Avidan, G., Hendler, T., Malach, R.: Center–periphery organization of human object areas. Nat. Neurosci. 4(5), 533–539 (2001)

    Article  Google Scholar 

  29. Pincus, R.: Barnett, V., and Lewis T.: Outliers in Statistical Data. 3rd edition. J. Wiley & Sons 1994, XVII. 582 pp., £49.95. Biom. J. 37(2), 256–256 (1995)

    Article  Google Scholar 

  30. Pearson, R. K., Mining Imperfect Data: Dealing with Contamination and Incomplete Records. SIAM, (2005)

  31. Holland, J.H.: Adaptation in natural and artificial systems: An introductory analysis with applications to biology, control, and artificial intelligence, vol. viii. U Michigan Press, Oxford (1975)

    MATH  Google Scholar 

  32. Fukushima, K., Miyake, S., Ito, T.: Neocognitron: a neural network model for a mechanism of visual pattern recognition. IEEE Trans. Syst. Man Cybern. SMC-13(5), 826–834 (1983)

    Article  Google Scholar 

  33. Serre, T., Wolf, L., Bileschi, S., Riesenhuber, M., Poggio, T.: Robust object recognition with cortex-like mechanisms. IEEE Trans. Pattern Anal. Mach. Intell. 29(3), 411–426 (2007)

    Article  Google Scholar 

  34. Lecun, Y., Bottou, L., Bengio, Y., Haffner, P.: Gradient-based learning applied to document recognition. Proc. IEEE. 86(11), 2278–2324 (1998)

    Article  Google Scholar 

  35. Merhav, M., Karni, A., Gilboa, A.: Not all declarative memories are created equal: fast mapping as a direct route to cortical declarative representations. NeuroImage. 117, 80–92 (2015)

    Article  Google Scholar 

  36. Breiman, L., Friedman, J., Stone, C., and Olshen, R.A., Classification and Regression Trees. CRC press, (1984)

  37. Gelfand, S.B., Ravishankar, C.S., and Delp, E.J., An iterative growing and pruning algorithm for classification tree design. in IEEE International Conference on Systems, Man and Cybernetics, 1989. Conference Proceedings, 1989, pp. 818–823 vol.2

  38. Freund, Y., Schapire, R.E.: A decision-theoretic generalization of on-line learning and an application to boosting. J. Comput. Syst. Sci. 55(1), 119–139 (1997)

    Article  MathSciNet  Google Scholar 

  39. Kononenko, I.: Estimating attributes: analysis and extensions of RELIEF. In: Bergadano, F., Raedt, L.D. (eds.) Machine Learning: ECML-94, pp. 171–182. Berlin Heidelberg, Springer (1994)

    Chapter  Google Scholar 

  40. Iba, W., Langley, P.: Induction of one-level decision trees. In: Machine Learning Proceedings 1992, pp. 233–240. Morgan Kaufmann, San Francisco (1992)

    Chapter  Google Scholar 

  41. Weiss, Y., Katzir, T., Bitan, T.: Many ways to read your vowels--neural processing of diacritics and vowel letters in Hebrew. NeuroImage. 121, 10–19 (2015)

    Article  Google Scholar 

  42. Huse, D.M., Schulman, K., Orsini, L., Castelli-Haley, J., Kennedy, S., Lenhart, G.: Burden of illness in Parkinson’s disease. Mov. Disord. 20(11), 1449–1454 (2005)

    Article  Google Scholar 

  43. Alexander, G.E.: Biology of Parkinson’s disease: pathogenesis and pathophysiology of a multisystem neurodegenerative disorder. Dialogues Clin. Neurosci. 6(3), 259–280 (2004)

    MathSciNet  Google Scholar 

  44. Fahn, S., Elton, R., UPDRS Development Committee: Unified Parkinson’s disease rating scale. Recent Dev. Park. Dis. 2, 153–163 (1987)

    Google Scholar 

  45. Sapir, S., Ramig, L.O., Spielman, J.L., Fox, C.: Formant Centralization Ratio (FCR): A proposal for a new acoustic measure of dysarthric speech. J. Speech Lang. Hear. Res. JSLHR. 53(1), 114 (2010)

    Article  Google Scholar 

  46. Frid, A., Kantor, A., Svechin, D., and Manevitz, L.M., Diagnosis of Parkinson’s Disease from Continuous Speech using Deep Convolution Networks without Manual Selection of Features. Presented at the International Conference on the Science of Electrical Engineering (ISCEE 2016), Eilat, Israel, 2016

  47. Fairbanks, G.: The Rainbow Passage. In: Voice and Articulation Drillbook, 2nd edn, p. 127. Harper & Row, New York (1960)

    Google Scholar 

  48. Borrie, S.A., McAuliffe, M.J., Liss, J.M.: Perceptual learning of Dysarthric speech: a review of experimental studies. J. Speech Lang. Hear. Res. 55(1), 290–305 (2011)

    Article  Google Scholar 

  49. Murty, K.S.R., Yegnanarayana, B.: Combining evidence from residual phase and MFCC features for speaker recognition. IEEE Signal Process. Lett. 13(1), 52–55 (2006)

    Article  Google Scholar 

  50. Rabiner, L.: On the use of autocorrelation analysis for pitch detection. IEEE Trans. Acoust. Speech Signal Process. 25(1), 24–33 (1977)

    Article  Google Scholar 

  51. LeCun, Y., Bengio, Y.: Convolutional networks for images, speech, and time series. In: Arbib, M.A. (ed.) The Handbook of Brain Theory and Neural Networks, pp. 255–258. MIT Press, Cambridge (1998) http://dl.acm.org/citation.cfm?id=303568.303704 Accessed Mar 2018.

  52. Breznitz, Z.: Fluency in Reading: Synchronization of Brain Processes. Lawrence Erlbaum Associates, Mahwah (2005) http://www.arcadia.eblib.com/EBLWeb/patron?target=patron&extendedid=P_274511_0& Accessed Mar 2018.

  53. Richards, T.L., Berninger, V.W.: Abnormal fMRI connectivity in children with dyslexia during a phoneme task: before but not after treatment. J. Neurolinguistics. 21(4), 294–304 (2008)

    Article  Google Scholar 

  54. Breznitz, Z.: Asynchrony of visual-orthographic and auditory-phonological word recognition processes: an underlying factor in dyslexia. Read. Writ. 15(1–2), 15–42 (2002)

    Article  Google Scholar 

  55. Mallat, S.G.: A theory for multiresolution signal decomposition: the wavelet representation. IEEE Trans. Pattern Anal. Mach. Intell. 11(7), 674–693 (1989)

    Article  Google Scholar 

  56. Lachaux, J.-P., Rodriguez, E., Martinerie, J., Varela, F.J.: Measuring phase synchrony in brain signals. Hum. Brain Mapp. 8(4), 194–208 (1999)

    Article  Google Scholar 

  57. Frid, A., Applications and Development of Machine Learning Methods for Biological Signals Arising from Cognitive Processes. University of Haifa, (2016)

  58. Meyer, D.E., Schvaneveldt, R.W.: Facilitation in recognizing pairs of words: evidence of a dependence between retrieval operations. J. Exp. Psychol. 90(2), 227–234 (1971)

    Article  Google Scholar 

  59. Frost, R., “Unpublished Word List in Hebrew”

  60. Bellman, R.E.: Adaptive Control Processes: a Guided Tour. Princeton University Press, Princeton (1961)

    Book  Google Scholar 

  61. Frid, A. and Lavner, Y., Acoustic-phonetic analysis of fricatives for classification using SVM based algorithm. in 2010 IEEE 26th Convention of Electrical and Electronics Engineers in Israel (IEEEI), 2010, pp. 000751–000755

  62. Frid, A., and Lavner, Y.. 2014. “Spectral and textural features for automatic classification of fricatives using SVM. In 2014 International Conference on Systems, Signals and Image Processing (IWSSIP), 99–102

  63. Frid, A., Hazan, H., and Manevitz, L., Temporal pattern recognition via temporal networks of temporal neurons. in 2012 IEEE 27th Convention of Electrical Electronics Engineers in Israel (IEEEI), 2012, pp. 1–4

  64. Huang, C.-M., Lee, S.-H., Hsiao, T., Kuan, W.-C., Wai, Y.-Y., Ko, H.-J., Wan, Y.-L., Hsu, Y.-Y., Liu, H.-L.: Study-specific EPI template improves group analysis in functional MRI of young and older adults. J. Neurosci. Methods. 189(2), 257–266 (2010)

    Article  Google Scholar 

  65. Poldrack, R.A., Mumford, J.A., and Nichols, T.E., Handbook of Functional MRI Data Analysis. Cambridge University Press, 2011

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Acknowledgments

We thank our colleagues for their discussions and generous sharing of data in these various works over the years. Specifically, we thank Hiroshi Ando, Tali Bitan, Zvia Breznitz, Omer Boehm, David Hardoon, Hananel Hazan, Stav Hertz, Asaf Gilboa, Ester Koilis, Rafael Malach, M. Merhav, Noberto E. Nawa, Shimon Sapir, Tali Sharon, Haim Shalelashvili, Gal Star, Yael Weiss.

This work was partially supported by a grant for computational equipment by the Caesarea Rothschild Institute at the University of Haifa, and by a Hardware Grant by NVIDIA Corporation The paper was partially written during a sabbatical visit of L. Manevitz graciously hosted at the Computer Science Department, Otago University, Dunedin, New Zealand. Some of this work has appeared in the Ph.D. thesis of Alex Frid supervised by Larry Manevitz.

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Frid, A., Manevitz, L.M. Analyzing cognitive processes from complex neuro-physiologically based data: some lessons. Ann Math Artif Intell 88, 1125–1153 (2020). https://doi.org/10.1007/s10472-019-09669-z

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