MRI methods for in-vivo cortical parcellation

Microstructural Parcellation of the Human Cerebral Cortex: From Brodmann's Post-Mortem Map to in Vivo Mapping with High-Field Magnetic Resonance Imaging

Volumn , Issue , 2013, Pages 197-220

  Turner, Robert ^a  

^a MAX PLANCK INSTITUTE FOR HUMAN COGNITIVE AND BRAIN SCIENCES   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 84929542286     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1007/978-3-642-37824-9_7     Document Type: Chapter

References (86)

1. Alexander AL, Hurley SA, Samsonov AA, Adluru N, Hosseinbor AP, Mossahebi P, Tromp do PM, Zakszewski E, Field AS (2011) Characterization of cerebral white matter properties using quantitative magnetic resonance imaging stains. Brain Connect 1(6):423-446
2. Andrews-Shigaki BC, Armstrong BS, Zaitsev M, Ernst T (2011) Prospective motion correction for magnetic resonance spectroscopy using single camera Retro-Grate reflector optical tracking. J Magn Reson Imaging 33(2):498-504
3. Ashburner J, Friston KJ (2000) Voxel-based morphometry-the methods. Neuroimage 11(6 Pt 1):805-821
4. Augustinack JC, van der Kouwe AJ, Blackwell ML, Salat DH, Wiggins CJ, Frosch MP, Wiggins GC, Potthast A, Wald LL, Fischl BR (2005) Detection of entorhinal layer II using 7 Tesla magnetic resonance imaging. Ann Neurol 57:489-494
5. Axer M, Amunts K, Grässel D, Palm C, Dammers J, Axer H, Pietrzyk U, Zilles K (2011) A novel approach to the human connectome: ultra-high resolution mapping of fiber tracts in the brain. Neuroimage 54(2):1091-1101
6. Barbier EL, Marrett S, Danek A, Vortmeyer A, van Gelderen P, Duyn J, Bandettini P, Grafman J, Koretsky AP (2002) Imaging cortical anatomy by high-resolution MR at 3.0T: detection of the stripe of Gennari in visual area 17. Magn Reson Med 48:735-738
7. Blackband SJ, Buckley DL, Bui JD, Phillips MI (1999) NMR microscopy-beginnings and new directions. MAGMA 9(3):112-116
8. Bock NA, Kocharyan A, Liu JV, Silva AC (2009) Visualizing the entire cortical myelination pattern in marmosets with magnetic resonance imaging. J Neurosci Methods 185(1):15-22
9. Bock NA, Hashim E, Janik R, Stanisz GJ, Weiss M, Turner R, Geyer S (2013) Optimizing T1-weighted imaging of cortical myelin content at 3.0 Tesla. Neuroimage 65:1-12
10. Bourgeois ME, Wajer FT, Roth M, Briguet A, Décorps M, van Ormondt D, Segebarth C, Graveron-Demilly D (2003) Retrospective intra-scan motion correction. J Magn Reson 163(2):277-287
11. Bridge H, Clare S, Jenkinson M, Jezzard P, Parker AJ, Matthews PM (2005) Independent anatomical and functional measures of the V1/V2 boundary in human visual cortex. J Vis 5:93-102
12. Carmichael DW, Thomas DL, De Vita E, Fernández-Seara MA, Chhina N, Cooper M, Sunderland C, Randell C, Turner R, Ordidge RJ (2006) Improving whole brain structural MRI at 4.7 Tesla using 4 irregularly shaped receiver coils. Neuroimage 32(3):1176-1184
13. Clark VP, Courchesne E, Grafe M (1992) In vivo myeloarchitectonic analysis of human striate and extrastriate cortex using magnetic resonance imaging. Cereb Cortex 2:417-424
14. Cohen-Adad J, Polimeni JR, Helmer KG, Benner T, McNab JA, Wald LL, Rosen BR, Mainero C (2012) T2∗ mapping and B0orientation-dependence at 7T reveal cyto- and myeloarchitecture organization of the human cortex. Neuroimage 60(2):1006-1014
15. Dasgupta S, Hogan EL (2001) Chromatographic resolution and quantitative assay of CNS tissue sphingoids and sphingolipids. J Lipid Res 42:301-308
16. De Vita E, Thomas DL, Roberts S, Parkes HG, Turner R, Kinchesh P, Shmueli K, Yousry TA, Ordidge RJ (2003) High resolution MRI of the brain at 4.7 Tesla using fast spin echo imaging. Br J Radiol 76(909):631-637
17. Deichmann R (2006) Fast structural brain imaging using an MDEFT sequence with a FLASH-EPI hybrid readout. Neuroimage 33(4):1066-1071
18. Denk W, Briggman KL, Helmstaedter M (2012) Structural neurobiology: missing link to a mechanistic understanding of neural computation. Nat Rev Neurosci 13(5):351-358
19. Deoni SC, Rutt BK, Arun T, Pierpaoli C, Jones DK (2008) Gleaning multicomponent T1 and T2 information from steady-state imaging data. Magn Reson Med 60(6):1372-1387
20. Dhital B, Turner R (2012) Comparison between kurtosis and biexponential models for diffusionweighted brain imaging with high resolution and high b-factor. Abstract 3624, ISMRM 20th Annual Meeting, Wiley Publishing
21. Drayer B, Burger P, Darwin R, Riederer S, Herfkens R, Johnson GA (1986) MRI of brain iron. AJR Am J Roentgenol 147(1):103-110
22. Duflou H, Maenhaut W, De Reuck J (1989) Regional distribution of potassium, calcium, and six trace elements in normal human brain. Neurochem Res 14(11):1099-1112
23. Duyn JH (2011) High-field MRI of brain iron. Methods Mol Biol 711:239-249
24. Duyn JH, van Gelderen P, Li TQ, de Zwart JA, Koretsky AP, Fukunaga M (2007) High-field MRI of brain cortical substructure based on signal phase. Proc Natl Acad Sci USA 104(28):11796-11801
25. Fatterpekar GM, Naidich TP, Delman BN, Aguinaldo JG, Gultekin SH, Sherwood CC, Hof PR, Drayer BP, Fayad ZA (2002) Cytoarchitecture of the human cerebral cortex: MR microscopy of excised specimens at 9.4 Tesla. AJNR Am J Neuroradiol 23(8):1313-1321
26. Feinberg DA, Moeller S, Smith SM, Auerbach E, Ramanna S, Gunther M, Glasser MF, Miller KL, Ugurbil K, Yacoub E (2010) Multiplexed echo planar imaging for sub-second whole brain FMRI and fast diffusion imaging. PLoS One 5(12):e15710
27. Fischl B, Salat DH, van der Kouwe AJ, Makris N, Ségonne F, Quinn BT, Dale AM (2004) Sequence-independent segmentation of magnetic resonance images. Neuroimage 23(Suppl 1):S69-S84
28. Frahm J, Haase A, Matthaei D (1986) Rapid three-dimensional MR imaging using the FLASH technique. J Comput Assist Tomogr 10(2):363-368
29. Fukunaga M, Li TQ, van Gelderen P, de Zwart JA, Shmueli K, Yao B, Lee J, Maric D, Aronova MA, Zhang G, Leapman RD, Schenck JF, Merkle H, Duyn JH (2010) Layer-specific variation of iron content in cerebral cortex as a source of MRI contrast. Proc Natl Acad Sci USA 107(8):3834-3839
30. Geyer S, Weiss M, Reimann K, Lohmann G, Turner R (2011) Microstructural parcellation of the human cerebral cortex - from Brodmann's post-mortem map to in vivo mapping with highfield magnetic resonance imaging. Front Hum Neurosci 5:19
31. Glasser MF, Van Essen DC (2011) Mapping human cortical areas in vivo based on myelin content as revealed by T1- and T2-weighted MRI. J Neurosci 31(32):11597-11616
32. Gringel T, Schulz-Schaeffer W, Elolf E, Frölich A, Dechent P, Helms G (2009) Optimized highresolution mapping of magnetization transfer (MT) at 3 Tesla for direct visualization of substructures of the human thalamus in clinically feasible measurement time. J Magn Reson Imaging 29:1285-1292
33. Helms G, Dathe H, Dechent P (2010) Modeling the influence of TR and excitation flip angle on the magnetization transfer ratio (MTR) in human brain obtained from 3D spoiled gradient echo MRI. Magn Reson Med 64(1):177-185
34. Hennig J, Nauerth A, Friedburg H (1986) RARE imaging: a fast imaging method for clinical MR. Magn Reson Med 3(6):823-833
35. Hinds OP, Rajendran N, Polimeni JR, Augustinack JC, Wiggins G, Wald LL, Diana Rosas H, Potthast A, Schwartz EL, Fischl B (2008) Accurate prediction of V1 location from cortical folds in a surface coordinate system. Neuroimage 39(4):1585-1599
36. Hopf A (1954) Die Myeloarchitektonik des Isocortex temporalis beim Menschen. J Hirnforsch 1:208-279
37. Hopf A (1955) Über die Verteilung myeloarchitektonischer Merkmale in der isokortikalen Schläfenlappenrinde beim Menschen. J Hirnforsch 2:36-54
38. Hopf A (1956) Über die Verteilung myeloarchitektonischer Merkmale in der Stirnhirnrinde beim Menschen. J Hirnforsch 2(4):311-333
39. Jespersen SN, Bjarkam CR, Nyengaard JR, Chakravarty MM, Hansen B, Vosegaard T, Østergaard L, Yablonskiy D, Nielsen NC, Vestergaard-Poulsen P (2010) Neurite density from magnetic resonance diffusion measurements at ultrahigh field: comparison with light microscopy and electron microscopy. Neuroimage 49(1):205-216
40. Kalantari S, Laule C, Bjarnason TA, Vavasour IM, MacKay AL (2011) Insight into in vivo magnetization exchange in human white matter regions. Magn Reson Med 66(4):1142-1151
41. Katscher U, Börnert P, Leussler C, van den Brink JS (2003) Transmit SENSE. Magn Reson Med 49(1):144-150
42. Koenig SH (1991) Cholesterol of myelin is the determinant of gray-white contrast in MRI of brain. Magn Reson Med 20(2):285-291
43. Kolind SH, Mädler B, Fischer S, Li DK, MacKay AL (2009) Myelin water imaging: implementation and development at 3.0T and comparison to 1.5T measurements. Magn Reson Med 62(1):106-115
44. Kozlov M, Turner R (2011) Analysis of RF transmit performance for a 7T dual row multichannel MRI loop array. Conf Proc IEEE Eng Med Biol Soc 2011:547-553
45. Kucharczyk W, Macdonald PM, Stanisz GJ, Henkelman RM (1994) Relaxivity and magnetization transfer of white matter lipids at MR imaging: importance of cerebrosides and pH. Radiology 192(2):521-529
46. Lankford CL, Does MD (2012) On the inherent precision of mcDESPOT. Magn Reson Med. doi: 10.1002/mrm.24241, Mar. 12 [Epub ahead of print]
47. Lee CC, Jack CR Jr, Grimm RC, Rossman PJ, Felmlee JP, Ehman RL, Riederer SJ (1996) Realtime adaptive motion correction in functional MRI. Magn Reson Med 36(3):436-444
48. Lee SC, Kim K, Kim J, Lee S, Han Yi J, Kim SW, Ha KS, Cheong C (2001) One micrometer resolution NMR microscopy. J Magn Reson 150(2):207-213
49. Lee J, van Gelderen P, Kuo LW, Merkle H, Silva AC, Duyn JH (2011) T2∗-based fiber orientation mapping. Neuroimage 57(1):225-234
50. Li W, Wu B, Liu C (2011) Quantitative susceptibility mapping of human brain reflects spatial variation in tissue composition. Neuroimage 55(4):1645-1656
51. MacDonald D, Kabani N, Avis D, Evans AC (2000) Automated 3-D extraction of inner and outer surfaces of cerebral cortex from MRI. Neuroimage 12(3):340-356
52. MacKay A, Laule C, Vavasour I, Bjarnason T, Kolind S, Mädler B (2006) Insights into brain microstructure from the T2 distribution. Magn Reson Imaging 24(4):515-525
53. Maclaren J, Herbst M, Speck O, Zaitsev M (2013) Prospective motion correction in brain imaging: a review. Magn Reson Med 69(3):621-636
54. Mao W, Smith MB, Collins CM (2006) Exploring the limits of RF shimming for high-field MRI of the human head. Magn Reson Med 56(4):918-922
55. Marques JP, Maddage R, Mlynarik V, Gruetter R (2009) On the origin of the MR image phase contrast: an in vivo MR microscopy study of the rat brain at 14.1T. Neuroimage 46(2):345-352
56. Marques JP, Kober T, Krueger G, van der Zwaag W, Van de Moortele PF, Gruetter R (2010) MP2RAGE, a self bias-field corrected sequence for improved segmentation and T1-mapping at high field. Neuroimage 49(2):1271-1281
57. Meyer JR, Roychowdhury S, Russell EJ, Callahan C, Gitelman D, Mesulam MM (1996) Location of the central sulcus via cortical thickness of the precentral and postcentral gyri on MR. AJNR Am J Neuroradiol 17(9):1699-1706
58. Mugler JP 3rd, Brookeman JR (1990) Three-dimensional magnetization-prepared rapid gradientecho imaging (3D MP RAGE). Magn Reson Med 15(1):152-157
59. Nishimura DG (2010) Principles of magnetic resonance imaging. Stanford University Press, Stanford
60. Ooi MB, Krueger S, Thomas WJ, Swaminathan SV, Brown TR (2009) Prospective real-time correction for arbitrary head motion using active markers. Magn Reson Med 62(4):943-954
61. Oros-Peusquens AM, Laurila M, Shah NJ (2008) Magnetic field dependence of the distribution of NMR relaxation times in the living human brain. MAGMA 21(1-2):131-147
62. Oros-Peusquens AM, Stoecker T, Amunts K, Zilles K, Shah NJ (2010) In vivo imaging of the human brain at 1.5T with 0.6-mm isotropic resolution. Magn Reson Imaging 28(3):329-340
63. Oshio K, Feinberg DA (1991) GRASE (Gradient- and spin-echo) imaging: a novel fast MRI technique. Magn Reson Med 20(2):344-349
64. Preibisch C, Deichmann R (2009) Influence of RF spoiling on the stability and accuracy of T1 mapping based on spoiled FLASH with varying flip angles. Magn Reson Med 61(1):125-135
65. Roemer PB, Edelstein WA, Hayes CE, Souza SP, Mueller OM (1990) The NMR phased array. Magn Reson Med 16(2):192-225
66. Sánchez-Panchuelo RM, Francis ST, Schluppeck D, Bowtell RW (2012) Correspondence of human visual areas identified using functional and anatomical MRI in vivo at 7T. J Magn Reson Imaging 35(2):287-299
67. Schleicher A, Amunts K, Geyer S, Morosan P, Zilles K (1999) Observer-independent method for microstructural parcellation of cerebral cortex: a quantitative approach to cytoarchitectonics. Neuroimage 9(1):165-177
68. Schulz J, Siegert T, Reimer E, Labadie C, Maclaren J, Herbst M, Zaitsev M, Turner R (2012) An embedded optical tracking system for motion-corrected magnetic resonance imaging at 7 T. MAGMA 25:443-453, Jun. 13
69. Shah NJ, Ermer V, Oros-Peusquens AM (2011) Measuring the absolute water content of the brain using quantitative MRI. Methods Mol Biol 711:29-64
70. Siegel GJ, Agranoff BW, Albers RW, Fisher SK, Uhler MD (eds) (1999) Basic neurochemistry: molecular, cellular and medical aspects, 6th edn. Lippincott-Raven, Philadelphia
71. Sigalovsky IS, Fischl B, Melcher JR (2006) Mapping an intrinsic MR property of gray matter in auditory cortex of living humans: a possible marker for primary cortex and hemispheric differences. Neuroimage 32(4):1524-1537
72. Speck O, Hennig J, Zaitsev M (2006) Prospective real-time slice-by-slice motion correction for fMRI in freely moving subjects. MAGMA 19(2):55-61
73. Thomas DL, De Vita E, Roberts S, Turner R, Yousry TA, Ordidge RJ (2004) High-resolution fast spin echo imaging of the human brain at 4.7T: implementation and sequence characteristics. Magn Reson Med 51(6):1254-1264
74. Thomas DL, De Vita E, Deichmann R, Turner R, Ordidge RJ (2005) 3D MDEFT imaging of the human brain at 4.7T with reduced sensitivity to radiofrequency inhomogeneity. Magn Reson Med 53(6):1452-1458
75. Thudichum J L W (1884) A treatise on the chemical constitution of the brain. Bailliere, Tindall & Cox, London
76. Trampel R, Heidemann RM, Turner R (2010). Anatomical imaging at 7T using 2D GRASE - a comparison with 2D TSE. Poster presented at ISMRM 18th Annual Meeting, Stockholm
77. Trampel R, Ott DV, Turner R (2011) Do the congenitally blind have a stria of Gennari? First intracortical insights in vivo. Cereb Cortex 21(9):2075-2081
78. Turner R, Oros-Peusquens AM, Romanzetti S, Zilles K, Shah NJ (2008) Optimised in vivo visualisation of cortical structures in the human brain at 3T using IR-TSE. Magn Reson Imaging 26(7):935-942
79. Van de Moortele PF, Auerbach EJ, Olman C, Yacoub E, Uʇurbil K, Moeller S (2009) T1 weighted brain images at 7 Tesla unbiased for proton density, T2∗ contrast and RF coil receive B1 sensitivity with simultaneous vessel visualization. Neuroimage 46(2):432-446
80. Vavasour IM, Whittall KP, MacKay AL, Li D K B, Vorobeychik G, Paty DW (1998) A comparison between magnetization transfer ratios and myelin water percentages in normals and multiple sclerosis patients. Magn Reson Med 40:763-768
81. Walters NB, Egan GF, Kril JJ, Kean M, Waley P, Jenkinson M, Watson JD (2003) In vivo identification of human cortical areas using high resolution MRI: an approach to cerebral structure-function correlation. Proc Natl Acad Sci USA 100:2981-2986
82. West J, Warntjes JB, Lundberg P (2012) Novel whole brain segmentation and volume estimation using quantitative MRI. Eur Radiol 22(5):998-1007
83. Whittall KP, MacKay AL, Graeb DA, Nugent RA, Li DK, Paty DW (1997) In vivo measurement of T2 distributions and water contents in normal human brain. Magn Reson Med 37(1):34-43
84. Wiggins GC, Polimeni JR, Potthast A, Schmitt M, Alagappan V, Wald LL (2009) 96-Channel receive-only head coil for 3 Tesla: design optimization and evaluation. Magn Reson Med 62(3):754-762
85. Wolff SD, Balaban RS (1989) Magnetization transfer contrast (MTC) and tissue water proton relaxation in vivo. Magn Reson Med 10(1):135-144
86. Zheng D, LaMantia AS, Purves D (1991) Specialized vascularization of the primate visual cortex. J Neurosci 11(8):2622-2629