Independent component analysis involving autocorrelated sources with an application to functional magnetic resonance imaging

Journal of the American Statistical Association

Volumn 106, Issue 495, 2011, Pages 1009-1024

  Lee, Seonjoo ^a   Shen, Haipeng ^a   Truong, Young ^b   Lewis, Mechelle ^c   Huang, Xuemei ^d  

^a University of North Carolina at Chapel Hill   (United States)

^b IL   (United States)

^c PENN STATE COLLEGE OF MEDICINE   (United States)

^d PENN STATE MILTON S HERSHEY MEDICAL CENTER   (United States)

Author keywords

Blind source separation; Discrete Fourier transform; Spectral analysis; Time series; Whittle likelihood

Indexed keywords

EID: 80054708838     PISSN: 01621459     EISSN: None     Source Type: Journal    
DOI: 10.1198/jasa.2011.tm10332     Document Type: Article

References (64)

1. Akaike, H. (1974), "A New Look at the Statistical Model Identification, " IEEE Transactions on Automatic Control, 19, 716-723. [1013]
2. Amari, S. (1999), "Natural Gradient Learning for Over and Under Complete Bases in ICA, " Neural Computation, 11, 1875-1883. [1012]
3. Amari, S., Cichocki, A., Yang, H. et al. (1996), "A New Learning Algorithm for Blind Signal Separation, " Advances in Neural Information Processing Systems, 8, 757-763. [1013]
4. Bach, F., and Jordan, M. (2003), "Kernel Independent Component Analysis, " Journal of Machine Learning Research, 3, 1-48. [1009,1013,1014]
5. Bai, P., Shen, H., Huang, X., and Truong, Y. (2008), "A Supervised Singular Value Decomposition for Independent Component Analysis of fMRI, " Statistica Sinica, 18, 1233-1252. [1020]
6. Bell, A., and Sejnowski, T. (1995), "An Information-Maximization Approach to Blind Separation and Blind Deconvolution, " Neural Computation, 7, 1129-1159. [1009]
7. Bertsekas, D. (1982), Constrained Optimization and LagrangeMultiplierMethods, New York: Academic Press. [1012]
8. Bloomfield, P. (2000), Fourier Analysis of Time Series, New York: Wiley. [1015]
9. Boscolo, R., Pan, H., and Roychowdhury, V. (2004), "Independent Component Analysis Based on Nonparametric Density Estimation, " IEEE Transactions on Neural Networks, 15, 55-65. [1009]
10. Brillinger, D. (2001), Time Series: Data Analysis and Theory, Philadelphia, PA: Society for Industrial and Applied Mathematics. [1011,1012]
11. Brockwell, P., and Davis, R. (1991), Time Series: Theory and Methods (2nd ed.), New York: Springer. [1013,1014]
12. Bullmore, E., Long, C., Suckling, J., Fadili, J., Calvert, G., Zelaya, F., Carpenter, T., and Brammer, M. (2001), "Colored Noise and Computational Inference in Neurophysiological (fMRI) Time Series Analysis: Resampling Methods in Time and Wavelet Domains, " Human Brain Mapping, 12, 61-78. [1010]
13. Calhoun, V., Adali, T., Pearlson, G., and Pekar, J. (2001), "A Method for Making Group Inferences From Functional MRI Data Using Independent Component Analysis, " Human Brain Mapping, 14, 140-151. [1020]
14. Calhoun, V., Liu, J., and Adali, T. (2009), "A Review of Group ICA for fMRI Data and ICA for Joint Inference of Imaging, Genetic, and ERP Data, " Neuroimage, 45, 163-172. [1009,1011]
15. Cardoso, J. (1999), "High-Order Contrasts for Independent Component Analysis, " Neural Computation, 11, 157-192. [1009]
16. Chen, A. (2006), "Fast Kernel Density Independent Component Analysis, " in Independent Component Analysis and Blind Signal Separation. Lecture Notes in Computer Science, Vol. 3889, Berlin: Springer-Verlag, pp. 24-31. [1009]
17. Chen, A., and Bickel, P. (2005), "Consistent Independent Component Analysis and Prewhitening, " IEEE Transactions on Signal Processing, 53, 3625-3632. [1009,1012-1014]
18. Chen, A., and Bickel, P. (2006), "Efficient Independent Component Analysis, " The Annals of Statistics, 34, 2825-2855. [1009]
19. Comon, P. (1994), "Independent Component Analysis, a New Concept?" Signal Processing, 36, 287-314. [1009]
20. Douglas, S. (2002), "Self-Stabilized Gradient Algorithms for Blind Source Separation With Orthogonality Constraints, " IEEE Transactions on Neural Networks, 11, 1490-1497. [1012]
21. Dyrholm, M., Makeig, S., and Hansen, L. (2007), "Model Selection for Convolutive ICA With an Application to Spatiotemporal Analysis of EEG, " Neural Computation, 19, 934-955. [1011]
22. Dzhaparidze, K., and Kotz, S. (1986), Parameter Estimation and Hypothesis Testing in Spectral Analysis of Stationary Time Series, New York: Springer. [1011,1012]
23. Edelman, A., Arias, T., and Smith, S. (1998), "The Geometry of Algorithms With Orthogonality Constraints, " SIAM Journal on Matrix Analysis and Applications, 20, 303-353. [1012]
24. Esposito, F., Scarabino, T., Hyvarinen, A., Himberg, J., Formisano, E., Comani, S., Tedeschi, G., Goebel, R., Seifritz, E., and Di Salle, F. (2005), "Independent Component Analysis of fMRI Group Studies by Self-Organizing Clustering, " Neuroimage, 25, 193-205. [1011]
25. Friston, K. J., Ashburner, J., Kiebel, S. J., Nichols, T. E., and Penny, W. D. (2007), Statistical Parametric Mapping: The Analysis of Functional Brain Images, London, U.K.: Academic Press, available at http://www.fil.ion.ucl. ac.uk/spm/. [1011]
26. Gowen, E., and Miall, R. (2007), "Differentiation Between External and Internal Cuing: An fMRI Study Comparing Tracing With Drawing, " Neuroimage, 36, 396-410. [1021]
27. Haslinger, B., Erhard, P., Kampfe, N., Boecker, H., Rummeny, E., Schwaiger, M., Conrad, B., and Ceballos-Baumann, A. (2001), "Event-Related Functional Magnetic Resonance Imaging in Parkinson's Disease Before and After Levodopa, " Brain, 124, 558-570. [1021]
28. Hastie, T., and Tibshirani, R. (2003), "Independent Components Analysis Through Product Density Estimation, " Advances in Neural Information Processing Systems, 15, 665-672. [1009,1016]
29. Huettel, S., Song, A., and McCarthy, G. (2008), Functional Magnetic Resonance Imaging (2nd ed.), Sunderland, MA: Sinauer Associates. [1009,1011, 1015]
30. Hyvärinen, A., and Hoyer, P. (2000), "Emergence of Phase-and Shift-Invariant Features by Decomposition of Natural Images Into Independent Feature Subspaces, " Neural Computation, 12, 1705-1720. [1009,1010]
31. Hyvärinen, A., Karhunen, J., and Oja, E. (2001), Independent Component Analysis, New York: Wiley. [1009,1010,1012,1014]
32. Kawaguchi, A., and Truong, Y. K. (2009), "Spline Independent Component Analysis, " technical report, available at http://www.bios.unc.edu/~truong/ MRI/sica.pdf. [1009]
33. Koechlin, E., and Hyafil, A. (2007), "Anterior Prefrontal Function and the Limits of Human Decision-Making, " Science, 318, 594-598. [1022]
34. Lee, T., Girolami, M., and Sejnowski, T. (1999), "Independent Component Analysis Using an Extended Infomax Algorithm for Mixed Subgaussian and Supergaussian Sources, " Neural Computation, 11, 417-441. [1014]
35. Lewis, M. M., Du, G., Sen, S., Kawaguchi, A., Truong, Y., Lee, S., Mailman, R. B., and Huang, X. (2011), "Differential Involvement of Striatoand Cerebello-Thalamo-Cortical Pathways in Tremor-and Akinetic/Rigid-Predominant Parkinson's Disease, " Neuroscience, 177, 230-239. [1020]
36. Lewis, M., Slagle, C., Smith, A., Truong, Y., Bai, P., McKeown, M., Mailman, R., Belger, A., and Huang, X. (2007), "Task Specific Influences of Parkinson's Disease on the Striato-Thalamo-Cortical and Cerebello-Thalamo-Cortical Motor Circuitries, " Neuroscience, 147, 224-235. [1021]
37. Li, Y., Adali, T., and Calhoun, V. (2006), "Sample Dependence Correction for Order Selection in fMRI Analysis, " in 3rd IEEE International Symposium on Biomedical Imaging, New York: IEEE Press, pp. 1072-1075. [1020]
38. McKeown, M., Hansen, L., and Sejnowsk, T. (2003), "Independent Component Analysis of Functional MRI: What Is Signal and What Is Noise?" Current Opinion in Neurobiology, 13, 620-629. [1009,1011]
39. McKeown, M., Makeig, S., Brown, G., Jung, T., Kindermann, S., Bell, A., and Sejnowski, T. (1998), "Analysis of fMRI Data by Blind Separation Into Independent Spatial Components, " Human Brain Mapping, 6, 160-188. [1017]
40. Palmer, J., Kreutz-Delgado, K., and Makeig, S. (2010), "An Adaptive Mixture of Independent Component AnalyzersWith Shared Components, " technical report, available at http:// sccn.ucsd.edu/ ~jason/amica_r.pdf. [1009,1014]
41. Palmer, J., Makeig, S., Delgado, K., and Rao, B. (2008), "Newton Method for the ICA Mixture Model, " in IEEE International Conference on Acoustics, Speech and Signal Processing, 2008, New York: IEEE Press, pp. 1805-1808. [1009]
42. Park, B., Mammen, E., Härdle, W., and Borak, S. (2009), "Time Series Modelling With Semiparametric Factor Dynamics, " Journal of the American Statistical Association, 104, 284-298. [1011]
43. Pearlmutter, B., and Parra, L. (1997), "Maximum Likelihood Source Separation: A Context-Sensitive Generalization of ICA, " Advances in Neural Information Processing Systems, 9, 613-619. [1011]
44. Petersen, K., Hansen, L. K., Kolenda, T., and Rostrup, E. (2000), "On the Independent Components of Functional Neuroimages, " in Third International Conference on Independent Component Analysis and Blind Source Separation, Helsinki, Finland. [1016]
45. Pham, D., and Garat, P. (1997), "Blind Separation of Mixture of Independent Sources Through a Quasi-Maximum Likelihood Approach, " IEEE Transactions on Signal Processing, 45, 1712-1725. [1010,1012]
46. Plumbley, M. D. (2004), "Lie Group Methods for Optimization With Orthogonality Constraints, " in Proceedings of the International Conference on Independent Component Analysis and Blind Signal Separation. Lecture Notes in Computer Science, Vol. 3195, Berlin: Springer, pp. 1245-1252. [1012]
47. Rorden, C. (2007), "MRIcron, " available at http://www.cabiatl.com/mricro/ mricron/. [1021]
48. Semendeferi, K., Armstrong, E., Schleicher, A., Zilles, K., and Van Hoesen, G. (2001), "Prefrontal Cortex in Humans and Apes: A Comparative Study of Area 10, " American Journal of Physical Anthropology, 114, 224-241. [1021]
49. Sen, S., Kawaguchi, A., Truong, Y., Lewis, M. M., and Huang, X. (2010), "Dynamic Changes in Cerebello-Thalamo-Cortical Motor Circuitry During Progression of Parkinson's Disease, " Neuroscience, 166 (2), 712-719. [1020]
50. Sharma, A., and Paliwal, K. (2006), "Subspace Independent Component Analysis Using Vector Kurtosis, " Pattern Recognition, 39, 2227-2232. [1009]
51. Shen, H., Hüper, K., and Smola, A. (2006), "Newton-Like Methods for Nonparametric Independent Component Analysis, " Neural Information Processing. Lecture Notes in Computer Science, Vol. 4232, Berlin: Springer-Verlag, pp. 1068-1077. [1009]
52. Smith, S. M., Jenkinson, M., Woolrich, M. W., Beckmann, C. F., Behrens, T. E. J., Johansen-Berg, H., Bannister, P. R., De Luca, M., Drobnjak, I., Flitney, D. E., Niazy, R., Saunders, J., Vickers, J., Zhang, Y., De Stefano, N., Brady, J. M., and Matthews, P. M. (2004), "Advances in Functional and Structural MR Image Analysis and Implementation as FSL, " NeuroImage, 23 (S1), 208-219, available at http://www.fmrib.ox.ac.uk/ fsl/. [1020]
53. Stone, J. (2004), Independent Component Analysis, Cambridge, MA: MIT Press. [1009]
54. Sui, J., Adali, T., Pearlson, G., Clark, V., and Calhoun, V. (2009), "A Method for Accurate Group Difference Detection by Constraining the Mixing Coefficients in an ICA Framework, " Human Brain Mapping, 30, 2953-2970. [1011]
55. Venkataraman, A., Van Dijk, K., Buckner, R., and Golland, P. (2009), "Exploring Functional Connectivity in fMRI via Clustering, " in IEEE International Conference on Acoustics, Speech and Signal Processing, 2009, New York: IEEE Press, pp. 441-444. [1011]
56. Vingerhoets, G., Honoré, P., Vandekerckhove, E., Nys, J., Vandemaele, P., and Achten, E. (2010), "Multifocal Intraparietal Activation During Discrimination of Action Intention in Observed Tool Grasping, " Neuroscience, 169, 1158-1167. [1021]
57. Viviani, R., Gron, G., and Spitzer, M. (2005), "Functional Principal Component Analysis of fMRI Data, " Human Brain Mapping, 24, 109-129. [1011]
58. Vlassis, N., and Motomura, Y. (2001), "Efficient Source Adaptivity in Independent Component Analysis, " IEEE Transactions on Neural Networks, 12, 559-566. [1009]
59. Welch, P. (1967), "The Use of Fast Fourier Transform for the Estimation of Power Spectra: A Method Based on Time Averaging Over Short, Modified Periodograms, " IEEE Transactions on Audio and Electroacoustics, 15, 70-73. [1015]
60. Whittle, P. (1952), "Some Results in Time Series Analysis, " Skandivanisk Aktuarietidskrift, 35, 48-60. [1012]
61. Woolrich, M., Jbabdi, S., Patenaude, B., Chappell, M., Makni, S., Behrens, T., Beckmann, C., Jenkinson, M., and Smith, S. (2009), "Bayesian Analysis of Neuroimaging Data in FSL, " NeuroImage, 45, 173-186. [1011]
62. Worsley, K., Liao, C., Aston, J., Petre, V., Duncan, G., Morales, F., and Evans, A. (2002), "A General Statistical Analysis for fMRI Data, " NeuroImage, 15, 1-15. [1011]
63. Ye, M., Fan, X., and Liu, Q. (2006), "Monotonic Convergence of a Nonnegative ICA Algorithm on Stiefel Manifold, " in Neural Information Processing. Lecture Notes in Computer Science, Vol. 4232, Berlin: Springer-Verlag, pp. 1098-1106. [1012]
64. Zhu, H., Li, Y., Ibrahim, J. G., Shi, X., An, H., Chen, Y., Gao, W., Lin, W., Rowe, D. B., and Peterson, B. S. (2009), "Regression Models for Identifying Noise Sources in Magnetic Resonance Images, " Journal of the American Statistical Association, 104, 623-637. [1011]