Automatic selection of resting-state networks with functional magnetic resonance imaging

Frontiers in Neuroscience

Volumn , Issue 7 MAY, 2013, Pages

  Storti, Silvia Francesca ^a   Formaggio, Emanuela ^b   Nordio, Roberta ^c   Manganotti, Paolo ^a,b   Fiaschi, Antonio ^a,b   Bertoldo, Alessandra ^c   Toffolo, Gianna Maria ^c  

^a UNIVERSITY HOSPITAL OF VERONA   (Italy)

^b IRCCS SAN CAMILLO HOSPITAL   (Italy)

^c UNIVERSITY OF PADOVA   (Italy)

Author keywords

Automatic selection of RSNs; BOLD; Default mode; FMRI; ICA; Resting state networks

Indexed keywords

ACCURACY; ADULT; ALGORITHM; ARTICLE; ATTENTION; BRAIN REGION; COMPUTED TOMOGRAPHY SCANNER; COMPUTER PROGRAM; DEFAULT MODE NETWORK; EXECUTIVE FUNCTION; FEMALE; FUNCTIONAL MAGNETIC RESONANCE IMAGING; HEARING; HUMAN; HUMAN EXPERIMENT; IMAGE ANALYSIS; IMAGE PROCESSING; INDEPENDENT COMPONENT ANALYSIS; MALE; MEMORY; MOTOR PERFORMANCE; NEUROIMAGING; NORMAL HUMAN; REPRODUCIBILITY; RESTING STATE NETWORK; VISION; VISUAL CORTEX;

EID: 84878852833     PISSN: 16624548     EISSN: 1662453X     Source Type: Journal    
DOI: 10.3389/fnins.2013.00072     Document Type: Article

References (48)

1. Andreasen, N. C., O'Leary, D. S., Cizadlo, T., Arndt, S., Rezai, K., Watkins, G. L., et al. (1995). Remembering the past: two facets of episodic memory explored with positron emission tomography. Am. J. Psychiatry 152, 1576-1585.
2. Bandettini, P. A., Jesmanowicz, A., Wong, E. C., and Hyde, J. S. (1993). Processing strategies for time-courses data sets in functional MRI of the human brain. Magn. Res. Med. 30, 161-173.
3. Bannister, P. R., Bekmann, C. F., and Jenkinson, M. (2001). Exploratory motion analysis in fMRI using ICA. Neuroimage 13, S69.
4. Beckmann, C., and Smith, S. (2004). Probabilistic independent component analysis for functional magnetic resonance imaging. IEEE Trans. Med. Imaging 23, 137-152.
5. Beckmann, C. F., Noble, J. A., and Smith, S. M. (2001). Investigating the intrinsic dimensionality of FMRI data for ICA. Neuroimage 13, S76.
6. Biswal, B., Yetkin, F. Z., Haughton, V. M., and Hyde, J. S. (1995). Functional connectivity in the motor cortex resting human brain using echo-planar MRI. Magn. Reson. Med. 34, 537-541.
7. Boly, M., Phillips, C., Tshibanda, L., Vanhaudenhuyse, A., Schabus, M., Dang-vu, T. T., et al. (2008). Intrinsic brain activity in altered states of consciousness. How conscious is the default mode of brain function? Ann. N.Y. Acad. Sci. 1129, 119-129.
8. Calhoun, V. D., Adali, T., McGinty, V. B., Pekar, J. J., Watson, T. D., and Pearlson, G. D. (2001). fMRI activation in a visual-perception task: network of areas detected using the general linear model and independent components analysis. Neuroimage 14, 1080-1088.
9. Cole, D. M., Smith, S. M., and Beckmann, C. F. (2010). Advances and pitfalls in the analysis and interpretation of resting-state FMRI data. Front. Syst. Neurosci. 4:8. doi: 10.3389/fnsys.2010.00008
10. Cordes, D., Haughton, V., Arfanakis, K., Carew, J., Turski, P., Moritz, C., et al. (2001). Frequencies contributing to functional connectivity in the cerebral cortex in "resting-state" data. Am. J. Neuroradiol. 22, 1326-1333.
11. Cordes, D., Haughton, V. M., Arfanakis, K., Wendt, G. J., Turski, P. A., Moritz, C. H., et al. (2000). Mapping functionally related regions of brain with functional connectivity MR imaging. AJNR Am. J. Neuroradiol. 21, 1636-1644.
12. Damoiseaux, J. S., Rombouts, S. A., Barkhof, F., Scheltens, P., Stam, C. J., Smith, S. M., et al. (2006). Consistent resting-state networks across healthy subjects. Proc. Natl. Acad. Sci. U.S.A. 103, 13848-13853.
13. De Martino, F., Gentile, F., Esposito, F., Balsi, M., Di Salle, F., Goebel, R., et al. (2007). Classification of fMRI independent components using IC-fingerprints and support vector machine classifiers. Neuroimage 34, 177-194.
14. Formisano, E., Esposito, F., Kriegeskorte, N., Tedeschi, G., Di Salle, F., and Goebel, R. (2002). Spatial independent component analysis of functional magnetic resonance imaging time-series: characterization of the cortical components. Neurocomputing 49, 241-254.
15. Fox, M. D., Corbetta, M., Snyder, A. Z., Vincent, J. L., and Raichle, M. E. (2006). Spontaneous neuronal activity distinguishes human dorsal and ventral attention systems. Proc. Natl. Acad. Sci. U.S.A. 103, 10046-10051.
16. Friston, K. J., Holmes, A. P., Worsley, K. J., Poline, J.-P., Frith, C. D., and Frackowiak, R. S. J. (1995). Statistical parametric maps in functional imaging: a general linear approach. Hum. Brain Mapp. 2, 189-210.
17. Golay, X., Kllias, S., Stoll, G., Meier, D., Valvanis, A., and Boesiger, P. (1998). A new correlation-based fuzzy logic clustering algorithm for fMRI. Magn. Reson. Imaging 40, 249-260.
18. Goutte, C., Toft, P., Rostrup, E., Nielsen, F. A., and Hansen, L. K. (1999). On clustering fMRI time series. Neuroimage 9, 298-310.
19. Greicius, M. D., Krasnow, B., Reiss, A. L., and Menon, V. (2002). Functional connectivity in the resting brain: a network analysis of the default mode hypothesis. Proc. Natl. Acad. Sci. U.S.A. 100, 253-258.
20. Greicius, M. D., Srivastava, G., Reiss, A. L., and Menon, V. (2004). Default-mode network activity distinguishes Alzheimer's disease from healthy aging: evidence from functional MRI. Proc. Natl. Acad. Sci. U.S.A. 101, 4637-4642.
21. Kaufman, L., and Rousseeuw, P. (1990). Finding Groups in Data: An Introduction to Cluster Analysis. London: Wiley.
22. Keihaninejad, S., Heckemann, R. A., Fagiolo, G., Symms, M. R., Hajnal, J. V., and Hammers, A. (2010). A robust method to estimate the intracranial volume across MRI field strengths (1.5T and 3T). Neuroimage 50, 1427-1437.
23. Kiviniemi, V., Jauhiainen, J., Tervonen, O., Paakko, E., Vainionpaa, V., Rantala, H., et al. (2000). Slow vasomotor fluctuation in the fMRI of the anesthetized child brain. Magn. Reson. Med. 44, 378-383.
24. Laufs, H., Kleinschmidt, A., Beyerle, A., Eger, E., Salek-Haddadi, A., Preibisch, C., et al. (2003). EEG-correlated fMRI of human alpha activity. Neuroimage 19, 1463-1476.
25. Lu, H., Zuo, Y., Gu, H., Waltz, J. A., Zhan, W., Scholl, C. A., et al. (2007). Synchronized delta oscillations correlate with the resting-state functional MRI signal. Proc. Natl. Acad. Sci. U.S.A. 104, 18265-18269.
26. Lu, W., and Rajapakse, J. C. (2003). Eliminating indeterminacy in ICA. Neurocomputing 50, 271-290.
27. MacQueen, J. B. (1967). "Some methods for classification and analysis of multivariate observations," in Proceedings of 5-th Berkeley Symposium on Mathematical Statistics and Probability, Vol. 1, (Berkeley: University of California Press), 281-297.
28. Mantini, D., Perrucci, M. G., Del Gratta, C., Romani, G. L., and Corbetta, M. (2007). Electrophysiological signatures of resting state networks in the human brain. Proc. Natl. Acad. Sci. U.S.A. 104, 13170-13175.
29. Margulies, D. S., Böttger, J., Long, X., Lv, Y., Kelly, C., Schäfer, A., et al. (2010). Resting developments: a review of fMRI post-processing methodologies for spontaneous brain activity. Magn. Reson. Mater. Phy. 23, 289-307.
30. McKeown, M. J. (2000). Detection of consistently task-related activations in fMRI data with hybrid independent component analysis. Neuroimage 11, 24-35.
31. McKeown, M. J., Makeig, S., Brown, G. G., Jung, T. P., Kindermann, S. S., Bell, A. J., et al. (1998). Analysis of fMRI data by blind separation into independent spatial components. Hum. Brain Mapp. 6, 160-188.
32. Minka, T. (2000). Automatic Choice of Dimensionality for PCA. Technical Report 514. Cambridge, MA: MIT Media Lab Vision and Modeling Group.
33. Moritz, C. H., Rogers, B. P., and Meyerand, M. E. (2003). Power spectrum ranked independent component analysis of a periodic fMRI complex motor paradigm. Hum. Brain Mapp. 18, 111-122.
34. Mulert, C., and Lemieux, L. (2010). EEG-fMRI. Berlin, Heidelberg: Springer Verlag.
35. Polanía, R., Paulus, W., and Nitsche, M. A. (2012). Reorganizing the intrinsic functional architecture of the human primary motor cortex during rest with non-invasive cortical stimulation. PLoS ONE 7:e30971. doi: 10.1371/journal.pone.0030971
36. Raichle, M. E., MacLeod, A. M., Snyder, A. Z., Powers, W. J., Gusnard, D. A., and Shulman, G. L. (2001). A default mode of brain function. Proc. Natl. Acad. Sci. U.S.A. 98, 676-682.
37. Schöpf, V., Kasess, C. H., Lanzenberger, R., Fischmeister, F., Windischberger, C., and Moser, E. (2010). Fully exploratory network ICA (FENICA) on resting-state fMRI data. J. Neurosci. Methods 192, 207-213.
38. Shehzad, Z., Kelly, A. M., Reiss, P. T., Gee, D. G., Gotimer, K., Uddin, L. Q., et al. (2009). The resting brain: unconstrained yet reliable. Cereb. Cortex 19, 2209-2229.
39. Soldati, N., Robinson, S., Persello, C., Jovicich, J., and Bruzzone, L. (2009). Automatic classification of brain resting states using fMRI temporal signals. Electron. Lett. 45, 19-21.
40. Sun, F. T., Miller, L. M., and D'Esposito, M. (2004). Measuring interregional functional connectivity using coherence and partial coherence analysis of fMRI data. Neuroimage 21, 647-658.
41. Thirion, B., Dodel, S., and Poline, J.-B. (2006). Detection of signal synchronizations in resting-state fMRI datasets. Neuroimage 29, 321-327.
42. Uddin, L. Q., Clare Kelly, A. M., Biswal, B. B., Xavier Castellanos, F., and Milham, M. P. (2008). Functional connectivity of default mode network components: correlation, anticorrelation, and causality. Hum. Brain Mapp. 30, 625-637.
43. van den Heuvel, M., Mandl, R., and Hulshoff Pol, H. (2008). Normalized cut group clustering of resting-state FMRI data. PLoS ONE 3:e2001. doi: 10.1371/journal.pone.0002001
44. Vincent, J. L., Patel, G. H., Fox, M. D., Snyder, A. Z., Baker, J. T., Van Essen, D. C., et al. (2007). Intrinsic functional architecture in the anaesthetized monkey brain. Nature 447, 83-86.
45. Vlipaavalniemi, J., and Vigario, R. (2008). Analyzing consistency of independent components: an fMRI illustration. Neuroimage 39, 169-180.
46. Wang, Z., and Peterson, B. S. (2008). Partner-matching for the automated identification of reproducible ICA components from fMRI data-sets: algorithm and validation. Hum. Brain Mapp. 29, 875-893.
47. Zhang, J., Tuo, X., Yuan, Z., Liao, W., and Chen, H. (2011). Analysis of FMRI data using an integrated principal component analysis and supervised affinity propagation clustering approach. IEEE Trans. Biomed. Eng. 58, 3184-3196.
48. Zuo, X. N., Kelly, C., Adelstein, J. S., Klein, D. F., Castellanos, F. X., and Milham, M. P. (2010). Reliable intrinsic connectivity networks: test-retest evaluation using ICA and dual regression approach. Neuroimage 49, 2163-2177