Phase stability in fMRI time series: Effect of noise regression, off-resonance correction and spatial filtering techniques

NeuroImage

Volumn 59, Issue 4, 2012, Pages 3748-3761

  Hagberg, Gisela E ^a,e   Bianciardi, Marta ^a,b   Brainovich, Valentina ^a   Cassara, Antonino Mario ^a,c,d   Maraviglia, Bruno ^a,c,d  

^a IRCCS FONDAZIONE SANTA LUCIA   (Italy)

^b NATIONAL INSTITUTE OF NEUROLOGICAL DISORDERS AND STROKE   (United States)

^c MUSEO STORICO DELLA FISICA E CENTRO STUDI E RICERCHE ENRICO FERMI   (Italy)

^d UNIVERSITÀ DI ROMA LA SAPIENZA   (Italy)

^e MAX PLANCK INSTITUTE FOR BIOLOGICAL CYBERNETICS   (Germany)

Author keywords

Gradient echo EPI; Phase; Physiological noise; Retrospective correction; Time series

Indexed keywords

ARTICLE; CLINICAL PROTOCOL; CONTROLLED STUDY; DIGITAL FILTERING; FUNCTIONAL MAGNETIC RESONANCE IMAGING; IMAGE PROCESSING; KERNEL METHOD; MAGNETIC FIELD; MATHEMATICAL MODEL; NOISE REDUCTION; PHANTOM; PRIORITY JOURNAL; PROCESS DESIGN; PROCESS DEVELOPMENT; SIGNAL DETECTION; SIGNAL NOISE RATIO; THERMOSTABILITY; TIME SERIES ANALYSIS; VOXEL BASED MORPHOMETRY;

ADULT; ARTIFACTS; BRAIN; HUMANS; MAGNETIC RESONANCE IMAGING; TIME FACTORS;

EID: 84855179699     PISSN: 10538119     EISSN: 10959572     Source Type: Journal    
DOI: 10.1016/j.neuroimage.2011.10.095     Document Type: Article

References (53)

1. Arja S.K., Feng Z., Chen Z., Caprihan A., Kiehl K.A., Adali T., Calhoun V.D. Changes in fMRI magnitude data and phase data observed in block-design and event-related tasks. NeuroImage 2010, 49(4):3149-3160.
2. Bianciardi M., Di Russo F., Aprile T., Maraviglia B., Hagberg G.E. Combination of BOLD-fMRI and VEP recordings for spin-echo MRI detection of primary magnetic effects caused by neuronal currents. Magn. Reson. Imaging 2004, 22(10):1429-1440.
3. Birn R.M., Diamond J.B., Smith M.A., Bandettini P.A. Separating respiratory-variation-related fluctuations from neuronal-activity-related fluctuations in fMRI. NeuroImage 2006, 31(4):1536-1548.
4. Blagoev K.B., Mihaila B., Travis B.J., Alexandrov L.B., Bishop A.R., Ranken D., Posse S., Gasparovic C., Mayer A., Aine C.J., Ulbert I., Morita M., Muller W., Connor J., Halgern E. Modelling the magnetic signature of neuronal tissue. NeuroImage 2007, 37(1):137-148.
5. Bodurka J., Jesmanowicz A., Hyde J.S., Xu H., Estkowski L., Li S.J. Current-induced magnetic resonance phase imaging. J. Magn. Reson. 1999, 137(1):265-271.
6. Bodurka J., Ye F., Petridou N., Murphy K., Bandettini P.A. Mapping the MRI voxel volume in which thermal noise matches physiological noise-implications for fMRI. NeuroImage 2007, 34(2):542-549.
7. Brainovich V., Sabatini U., Hagberg G.E. Advantages of using multiple-echo image combination and asymmetric triangular phase masking in magnetic resonance venography at 3 T. Magn. Reson. Imaging 2009, 27(1):23-37.
8. Cassarà A., Hagberg G.E., Bianciardi M., Maraviglia B. Realistic simulation of neuronal activity: a contribution to the debate on direct detection of neuronal currents by MRI. NeuroImage 2008, 39(1):87-106.
9. Cernicanu A., Lepetit-Coiffe M., Roland J., Becker C.D., Terraz S. Validation of fast MR thermometry at 1.5T with gradient-echo echo planar imaging sequences: phantom and clinical feasibility studies. NMR Biomed. 2008, 21(8):849-858.
10. Chow L.S., Cook G.G., Whitby E., Paley M.N. Investigating direct detection of axon firing in the adult human optic nerve using MRI. NeuroImage 2006, 30(3):835-846.
11. de Rochefort L., Liu T., Kressler B., Liu J., Spincemaille P., Lebon V., Wu J., Wang Y. Quantitative susceptibility map reconstruction from MR phase data using bayesian regularization: validation and application to brain imaging. Magn. Reson. Med. 2010, 63(1):194-206.
12. El-Sharkawy A.E.M., Schär M., Bottomley P.A., Atalar E. Monitoring and correcting spatio-temporal variations of the MR scanner's static magnetic field. Magn. Reson. Mater. Phys. 2006, 19(5):223-236.
13. Feng Z., Caprihan A., Blagoev K.B., Calhoun V.D. Biophysical modeling of phase changes in BOLD fMRI. NeuroImage 2009, 47(2):540-548.
14. Foerster B.U., Tomasi D., Caparelli E.C. Magnetic field shift due to mechanical vibration in functional magnetic resonance imaging. Magn. Reson. Med. 2005, 54(5):1261-1267.
15. Glover G.H., Li T.Q., Ress D. Image-based method for retrospective correction of physiological motion effects in fMRI: RETROICOR. Magn. Reson. Med. 2000, 44(1):162-167.
16. Gudbjartsson H., Patz S. The Rician distribution of noisy MRI data. Magn. Reson. Med. 1995, 34(6):910-914.
17. Hagberg G.E., Bianciardi M., Brainovich V., Cassarà A.M., Maraviglia B. The effect of physiological noise in phase functional magnetic resonance imaging: from blood oxygen level-dependent effects to direct detection of neuronal currents. Magn. Reson. Imaging 2008, 26(7):1026-1040.
18. Hahn A.D., Nencka A.S., Rowe D.B. Improving robustness and reliability of phase-sensitive fMRI analysis using temporal off-resonance alignment of single-echo timeseries (TOAST). NeuroImage 2009, 44(3):742-752.
19. Hu X., Le T.H., Parrish T., Erhard P. Retrospective estimation and correction of physiological fluctuation in functional MRI. Magn. Reson. Med. 1995, 34(2):201-212.
20. Jenkinson M. Fast, automated N-dimensional phase-unwrapping algorithm. Magn. Reson. Med. 2003, 49(1):193-197.
21. Jesmanowicz A., Bandettini P.A., Hyde J.S. Single-shot half k-space high-resolution gradient-recalled EPI for fMRI at 3Tesla. Magn. Reson. Med. 1998, 40(5):754-756.
22. Jones T.B., Bandettini P.A., Birn R.M. Integration of motion correction and physiological noise regression in fMRI. NeuroImage 2008, 42(2):582-590.
23. Kadah Y.M., Hu X. Simulated phase evolution rewinding (SPHERE): a technique for reducing B0 inhomogeneity effects in MR images. Magn. Reson. Med. 1997, 38(4):615-627.
24. Kamei H., Iramina K., Yoshikawa K., Ueno S. Neuronal current distribution imaging using magnetic resonance. IEEE Trans. Magn. 1999, 35(5):4109-4111.
25. Kickhefel A., Roland J., Weiss C., Schick F. Accuracy of real-time MR temperature mapping in the brain: a comparison of fast sequences. Phys. Med. 2010, 26(4):192-201.
26. Konn D., Gowland P., Bowtell R. MRI detection of weak magnetic fields due to an extended current dipole in a conducting sphere: a model for direct detection of neuronal currents in the brain. Magn. Reson. Med. 2003, 50(1):40-49.
27. Konn D., Leach S., Gowland P., Bowtell R. Initial attempts at directly detecting alpha wave activity in the brain using MRI. Magn. Reson. Imaging 2004, 22(10):1413-1427.
28. Krüger G., Glover G.H. Physiological noise in oxygenation-sensitive magnetic resonance imaging. Magn. Reson. Med. 2001, 46(4):631-637.
29. Le T.H., Hu X. Retrospective estimation and correction of physiological artifacts in fMRI by direct extraction of physiological activity from MR data. Magn. Reson. Med. 1996, 35(3):290-298.
30. Luo Q., Jiang X., Chen B., Zhu Y., Gao J.H. Modeling neuronal current MRI signal with human neuron. Magn. Reson. Med. 2011, 10.1002/mrm.22764.
31. Mandelkow H., Halder P., Brandeis D., Soellinger M., de Zanche N., Luechinger R., Boesiger P. Heart beats brain: the problem of detecting alpha waves by neuronal current imaging in joint EEG-MRI experiments. NeuroImage 2007, 37(1):149-163.
32. Menon R. Postacquisition suppression of large-vessel BOLD signals in high-resolution fMRI. Magn. Reson. Med. 2002, 47(1):1-9.
33. Munger P., Crelier G.R., Peters T.M., Pike G.B. An inverse problem approach to the correction of distortion in EPI images. IEEE Trans. Med. Imaging 2000, 19(7):681-689.
34. Neelavalli J., Cheng Y.C., Jiang J., Haacke E.M. Removing background phase variations in susceptibility-weighted imaging using a fast, forward-field calculation. J. Magn. Reson. Imaging 2009, 29(4):937-948.
35. Parkes L.M., de Lange F.P., Fries P., Toni I., Norris D.G. Inability to directly detect magnetic field changes associated with neuronal activity. Magn. Reson. Med. 2007, 57(2):411-416.
36. Petridou N., Plenz D., Ailva A.C., Loew M., Bodurka J., Bandettini P.A. Direct magnetic resonance detection of neuronal electrical activity. PNAS 2006, 103(43):16015-16020.
37. Petridou N., Schäfer A., Gowland P., Bowtell R. Phase vs. magnitude information in functional magnetic resonance imaging time series: toward understanding the noise. Magn. Reson. Imaging 2009, 27(8):1046-1057.
38. Petridou N., Wharton S.J., Lotfipour A., Gowland P., Bowtell R. Investigating the effect of blood susceptibility on phase contrast in the human brain. NeuroImage 2010, 50(2):491-498.
39. Pfeuffer J., Van de Moortele P.-F., Ugurbil K., Hu X., Glover G.H. Correction of physiologically induced global off-resonance effects in dynamic echo-planar and spiral functional imaging. Magn. Reson. Med. 2002, 47(2):344-353.
40. Raj D., Paley D.P., Anderson A.W., Kennan R.P., Gore J.C. A model for susceptibility artefacts from respiration in functional echo-planar magnetic resonance imaging. Phys. Med. Biol. 2000, 45(12):3809-3820.
41. Rowe D.B. Modeling both the magnitude and phase of complex-valued fMRI data. NeuroImage 2005, 25:1310-1324.
42. Rowe D.B., Logan B.R. A complex way to compute fMRI activation. NeuroImage 2004, 23(3):1078-1092.
43. Schweser F., Deistung A., Lehr B.W., Reichenbach J.R. Quantitative imaging of intrinsic magnetic tissue properties using MRI signal phase: an approach to in vivo brain iron metabolism?. Neuroimage 2011, 54(4):2789-2807.
44. Tomasi D.G., Caparelli E.G. Macrovascular cobtribution in activation patterns of working memory. J. Cereb. Blood Flow Metab. 2007, 27:33-42.
45. Triantafyllou C., Hoge R.D., Krueger G., Wiggins C.J., Potthast A., Wiggins G.C., Wald L.L. Comparison of physiological noise at 1.5T, 3T and 7T and optimization of fMRI acquisition parameters. NeuroImage 2005, 26:243-250.
46. 0 fluctuations and their spatial distribution in the human brain at 7Tesla. Magn. Reson. Med. 2002, 47:888-895.
47. Wharton S., Bowtell R. Whole-brain susceptibility mapping at high field: a comparison of multiple- and single-orientation methods. Neuroimage 2010, 53(2):515-525.
48. Wise R.G., Ide K., Poulin M.J., Tracey I. Resting fluctuations in arterial carbon dioxide induce significant low frequency variations in BOLD signal. NeuroImage 2004, 21:1652-1664.
49. Wowk B., McIntyre M.C., Saunders J.K. K-space detection and correction of physiological artefacts in fMRI. Magn. Reson. Med. 1997, 38:1029-1034.
50. Xiong J., Fox P.T., Gao J.H. Directly mapping magnetic field effects of neuronal activity by magnetic resonance imaging. Hum. Brain Mapp. 2003, 20:41-49.
51. Xue Y., Chen X., Grabowski T., Xiong J. Direct MRI mapping of neuronal activity evoked by electrical stimulation of the median nerve at the right wrist. Magn. Reson. Med. 2009, 61:1073-1082.
52. Yablonskiy D.A., Ackerman J.H., Raichle M.R. Coupling between changes in human brain temperature and oxidative metabolism during prolonged visual stimulation. PNAS 2000, 97(13):7603-7608.
53. Zhao F., Jin T., Wang P., Hu X., Kim S.G. Sources of phase changes in BOLD and CBV-weighted fMRI. Magn. Reson. Med. 2007, 57:520-527.