Does parametric fMRI analysis with SPM yield valid results?-An empirical study of 1484 rest datasets

NeuroImage

Volumn 61, Issue 3, 2012, Pages 565-578

  Eklund, Anders ^a   Andersson, Mats ^a   Josephson, Camilla ^a   Johannesson, Magnus ^a,b   Knutsson, Hans ^a  

^a LINKÖPING UNIVERSITY   (Sweden)

^b STOCKHOLM SCHOOL OF ECONOMICS   (Sweden)

Author keywords

Familywise error rate; Functional magnetic resonance imaging (fMRI); Graphics processing unit (GPU); Non parametric statistics; Random field theory; Random permutation test

Indexed keywords

ANALYTICAL ERROR; ARTICLE; CALCULATION; COMPUTER GRAPHICS; CONTROLLED STUDY; DATA BASE; ELECTROENCEPHALOGRAM; FUNCTIONAL MAGNETIC RESONANCE IMAGING; IMAGE ANALYSIS; INFORMATION PROCESSING; INFORMATION RETRIEVAL; NONPARAMETRIC TEST; POWER SPECTRUM; PRIORITY JOURNAL; REGRESSION ANALYSIS; VALIDITY;

ADOLESCENT; ADULT; AGED; AGED, 80 AND OVER; BRAIN MAPPING; DATABASES, FACTUAL; EVOKED POTENTIALS; FEMALE; HUMANS; IMAGE PROCESSING, COMPUTER-ASSISTED; LOGISTIC MODELS; MAGNETIC RESONANCE IMAGING; MALE; MIDDLE AGED; MOVEMENT; NORMAL DISTRIBUTION; REPRODUCIBILITY OF RESULTS; REST; SOFTWARE; YOUNG ADULT;

EID: 84861183305     PISSN: 10538119     EISSN: 10959572     Source Type: Journal    
DOI: 10.1016/j.neuroimage.2012.03.093     Document Type: Article

References (54)

1. Bennett C.M., Baird A.A., Miller M.B., Wolford G.L. Neural correlates of interspecies perspective taking in the post-mortem Atlantic salmon: an argument for multiple comparisons correction. J. Serendipitous Unexpected Results 2010, 1:1-5.
2. Bianciardi M., Cerasa A., Patria F., Hagberg G. Evaluation of mixed effects in event-related fMRI studies: impact of first-level design and filtering. NeuroImage 2004, 22:1351-1370.
3. Biswal B., Yetkin F., Haughton V., Hyde J. Functional connectivity in the motor cortex of resting state human brain using echo-planar MRI. Magn. Reson. Med. 1995, 34:537-541.
4. Biswal B., Mennes M., Zuo X.N., Gohel S., Kelly C., Smith S.M., Beckmann C.F., Adelstein J.S., Buckner R.L., Colcombe S., Dogonowski A.M., Ernst M., Fair D., Hampson M., Hoptman M.J., Hyde J.S., Kiviniemi V.J., Kötter R., Li S.J., Lin C.P., Lowe M.J., Mackay C., Madden D.J., Madsen K.H., Margulies D.S., Mayberg H.S., McMahon K., Monk C.S., Mostofsky S.H., Nagel B.J., Pekar J.J., Peltier S.J., Petersen S.E., Riedl V., Rombouts S.A., Rypma B., Schlaggar B.L., Schmidt S., Seidler R.D., Siegle G.J., Sorg C., Teng G.J., Veijola J., Villringer A., Walter M., Wang L., Weng X.C., Whitfield-Gabrieli S., Williamson P., Windischberger C., Zang Y.F., Zhang H.Y., Castellanos F.X., Milham M.P. Toward discovery science of human brain function. PNAS 2010, 107:4734-4739.
5. Björnsdotter M., Rylander K., Wessberg J. A Monte Carlo method for locally multivariate brain mapping. NeuroImage 2011, 56:508-516.
6. Brammer M.J., Bullmore E.T., Simmons A., Williams S.C.R., Grasby P.M., Howard R.J., Woodruff P.W.R., Rabe-Hesketh S. Generic brain activation mapping in functional magnetic resonance imaging: a nonparametric approach. Magn. Reson. Imaging 1997, 15:763-770.
7. Bullmore E., Long C., Suckling J., Fadili J., Calvert G., Zelaya F., Carpenter T., Brammer M. Colored noise and computational inference in neurophysiological fMRI time series analysis: resampling methods in time and wavelet domains. Hum. Brain Mapp. 2001, 12:61-78.
8. Dagli M., Ingeholm J., Haxby J. Localization of cardiac induced signal change in fMRI. NeuroImage 1999, 9:407-415.
9. Das S., Sen P. Restricted canonical correlations. Linear Algebra Appl. 1994, 210:29-47.
10. Dwass M. Modified randomization tests for nonparametric hypotheses. Ann. Math. Stat. 1957, 28:181-187.
11. Eklund A., Andersson M., Knutsson H. Phase based volume registration using CUDA. IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP) 2010, 658-661.
12. Eklund A., Andersson M., Knutsson H. Fast random permutation tests enable objective evaluation of methods for single subject fMRI analysis. Int. J. Biomed. Imaging 2011, Article ID 627947.
13. Eklund A., Friman O., Andersson M., Knutsson H. A GPU accelerated interactive interface for exploratory functional connectivity analysis of fMRI data. IEEE International Conference on Image Processing (ICIP) 2011, 1621-1624.
14. Eklund A., Andersson M., Knutsson H. fMRI analysis on the GPU - possibilities and challenges. Comput. Methods Programs Biomed. 2012, 105:145-161.
15. Feinberg D.A., Moeller S., Smith S.M., Auerbach E., Ramanna S., Glasser M.F., Miller K.L., Ugurbil K., Yacoub E. Multiplexed echo planar imaging for sub-second whole brain FMRI and fast diffusion imaging. PLoS One 2010, 5:e15710.
16. Ferreira da Silva A.R. cudaBayesreg: Bayesian Computation in CUDA. R J. 2010, 2(2):48-55.
17. Ferreira da Silva A.R. A Bayesian multilevel model for fMRI data analysis. Comput. Methods Programs Biomed. 2011, 102:238-252.
18. Friman O., Westin C.F. Resampling fMRI time series. NeuroImage 2005, 25:859-867.
19. Friman O., Carlsson J., Lundberg P., Borga M., Knutsson H. Detection of neural activity in functional MRI using canonical correlation analysis. Magn. Reson. Med. 2001, 45:323-330.
20. Friman O., Borga M., Lundberg P., Knutsson H. Adaptive analysis of fMRI data. NeuroImage 2003, 19:837-845.
21. Friman O., Borga M., Lundberg P., Knutsson H. Detection and detrending in fMRI data analysis. NeuroImage 2004, 22:645-655.
22. Friman O., Morocz I., Westin C.F. Examining the whiteness of fMRI noise. Proceedings of the Annual Meeting of the International Society of Magnetic Resonance in Medicine (ISMRM) 2005, 699.
23. Friston K., Worsley K., Frackowiak R., Mazziotta J., Evans A. Assessing the significance of focal activations using their spatial extent. Hum. Brain Mapp. 1994, 1:210-220.
24. Friston K., Josephs O., Zarahn E., Holmes A., Rouquette S., Poline J. To smooth or not to smooth - bias and efficiency in fMRI time-series analysis. NeuroImage 2000, 12:196-208.
25. Gautama T., Hulle M.V. Optimal spatial regularization of autocorrelation estimates in fMRI analysis. NeuroImage 2004, 23:1203-1216.
26. Gembris D., Neeb M., Gipp M., Kugel A., Männer R. Correlation analysis on GPU systems using NVIDIA's CUDA. J. real-time image process. 2011, 6:275-280.
27. Hayasaka S., Nichols T. Validating cluster size inference: random field and permutation methods. NeuroImage 2003, 20:2343-2356.
28. Hayasaka S., Nichols T. Validation of the random field theory-based cluster size test in single-subject fMRI analyses. Proceedings of International Society of Magnetic Resonance in Medicine (ISMRM) 2003, 493.
29. Holmes A., Blair R., Watson J., Ford I. Nonparametric analysis of statistic images from functional mapping experiments. J. Cereb. Blood Flow Metab. 1996, 16:7-22.
30. Inselberg A. The plane with parallel coordinates. Vis. Comput. 1985, 1:69-91.
31. Knutsson H., Westin C.F. Normalized and differential convolution: methods for interpolation and filtering of incomplete and uncertain data. Proceedings of Computer Vision and Pattern Recognition 1993, 515-523.
32. Kriegeskorte N., Goebel R., Bandettini P. Information-based functional brain mapping. PNAS 2006, 103:3863-3868.
33. Locascio J.J., Jennings P.J., Moore C.I., Corkin S. Time series analysis in the time domain and resampling methods for studies of functional magnetic resonance brain imaging. Hum. Brain Mapp. 1997, 5:168-193.
34. Long C., Brown E., Triantafyllou C., Aharon I., Wald L., Solo V. Nonstationary noise estimation in functional MRI. NeuroImage 2005, 28:890-903.
35. Lund T.E., Madsen K.H., Sidaros K., Luo W.L., Nichols T.E. Non-white noise in fMRI: does modelling have an impact?. NeuroImage 2006, 29:54-66.
36. Luo H., Puthusserypady S. fMRI data analysis with nonstationary noise models: a Bayesian approach. IEEE Trans. Biomed. Eng. 2007, 54:1621-1630.
37. Martino F.D., Valente G., Staeren N., Ashburner J., Goebel R., Formisano E. Combining multivariate voxel selection and support vector machines for mapping and classification of fMRI spatial patterns. NeuroImage 2008, 43:44-58.
38. Milosavljevic M.M., Veinovic M.D., Kovacevic B.D. Estimation of nonstationary AR model using the weighted recursive least square algorithm. IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP) 1995, 1432-1435.
39. Mitra P.P., Pesaran B. Analysis of dynamic brain imaging data. Biophys. J. 1999, 76:691-708.
40. Mourao-Miranda J., Bokde A.L., Born C., Hampel H., Stetter M. Classifying brain states and determining the discriminating activation patterns: support vector machine on functional MRI data. NeuroImage 2005, 28:980-995.
41. Nandy R., Cordes D. A novel nonparametric approach to canonical correlation analysis with applications to low CNR functional MRI data. Magn. Reson. Med. 2003, 49:1152-1162.
42. Nandy R., Cordes D. A semi-parametric approach to estimate the family-wise error rate in fMRI using resting-state data. NeuroImage 2007, 34:1562-1576.
43. Nichols T.E., Hayasaka S. Controlling the familywise error rate in functional neuroimaging: a comparative review. Stat. Methods Med. Res. 2003, 12:419-446.
44. Nichols T.E., Holmes A.P. Nonparametric permutation tests for functional neuroimaging: a primer with examples. Hum. Brain Mapp. 2001, 15:1-25.
45. Norman K.A., Polyn S.M., Detre G.J., Haxby J.V. Beyond mind-reading: multi-voxel pattern analysis of fMRI data. Trends Cogn. Sci. 2006, 10:424-430.
46. Poline J., Worsley K., Evans A., Friston K. Combining spatial extent and peak intensity to test for activations in functional imaging. NeuroImage 1997, 5:83-96.
47. Purdon P.L., Weisskoff R.M. Effect of temporal autocorrelation due to physiological noise and stimulus paradigm on voxel-level false-positive rates in fMRI. Hum. Brain Mapp. 1998, 6:239-249.
48. Siegel S. Nonparametric statistics. Am. Stat. 1957, 11:13-19.
49. Smith A., Lewis B., Ruttimann U., Ye F., Sinnwell T., Yang Y., Duyn J., Frank J. Investigation of low frequency drift in fMRI signal. NeuroImage 1999, 9:526-533.
50. Smith A.T., Singh K.D., Balsters J.H. A comment on the severity of the effects of non-white noise in fMRI time-series. NeuroImage 2007, 36:282-288.
51. Tillikainen L., Salli E., Korvenoja A., Aronen H. A cluster mass permutation test with contextual enhancement for fMRI activation detection. NeuroImage 2006, 32:654-664.
52. Woolrich M.W., Ripley B.D., Brady M., Smith S.M. Temporal autocorrelation in univariate linear modeling of FMRI data. NeuroImage 2001, 14:1370-1386.
53. Worsley K., Liao C., Aston J., Petre V., Duncan G., Morales F., Evans A. A general statistics analysis for fMRI data. NeuroImage 2002, 15:1-15.
54. Zarahn E., Aguirre G., D'Esposito M. Empirical analyses of BOLD fMRI statistics I. Spatially unsmoothed data collected under null-hypothesis conditions. NeuroImage 1997, 5:179-197.