A unified approach to diffusion direction sensitive slice registration and 3-D DTI reconstruction from moving fetal brain anatomy

IEEE Transactions on Medical Imaging

Volumn 33, Issue 2, 2014, Pages 272-289

  Fogtmann, Mads ^a,b   Seshamani, Sharmishtaa ^a   Kroenke, Christopher ^c   Cheng, Xi ^a   Chapman, Teresa ^d   Wilm, Jakob ^b   Rousseau, Francois ^e   Studholme, Colin ^a  

^a UNIVERSITY OF WASHINGTON   (United States)

^b TECHNICAL UNIVERSITY OF DENMARK   (Denmark)

^c OREGON HEALTH AND SCIENCE UNIVERSITY   (United States)

^d SEATTLE CHILDREN S HOSPITAL   (United States)

^e UNIVERSITÉ DE STRASBOURG   (France)

Author keywords

Diffusion tensor image (DTI); fetal imaging; motion estimation; multi slice MR; reconstruction

Indexed keywords

ALGORITHMS; BRAIN; DIFFUSION TENSOR IMAGING; FEMALE; FETUS; HUMANS; IMAGING, THREE-DIMENSIONAL; PREGNANCY; PRENATAL DIAGNOSIS;

EID: 84894067175     PISSN: 02780062     EISSN: None     Source Type: Journal    
DOI: 10.1109/TMI.2013.2284014     Document Type: Article

References (40)

1. T. Bui, J.-L. Daire, F. Chalard, I. Zaccaria, C. Alberti, M. Elmaleh, C. Garel, D. Luton, N. Blanc, and G. Sebag, "Microstructural development of human brain assessed in utero by diffusion tensor imaging," Pediatric Radiol. vol. 36, pp. 1133-1140, 2006.
2. D.-H. Kim, S. Chung, D. B. Vigneron, A. J. Barkovich, and O. A. Glenn, "Diffusion-weighted imaging of the fetal brain in vivo," Magn. Reson. Med., vol. 59, no. 1, pp. 216-220, 2008.
3. J. Schneider, S. Confort-Gouny, Y. Le Fur, P. Viout, M. Bennathan, F. Chapon, C. Fogliarini, P. Cozzone, and N. Girard, "Diffusion-weighted imaging in normal fetal brain maturation," Eur. Radiol. vol. 17, pp. 2422-2429, 2007. (Pubitemid 47288281)
4. M. M. Schneider, J. I. Berman, F. M. Baumer, H. C. Glass, J. S. , R. J. Jeremy, M. Esch, V. Biran, A. J. Barkovich, C. Studholme, D. Xu, and O. A. Glenn, "Normative apparent diffusion coefficient values in the developing fetal brain," Am. J. Neuroradiol., vol. 30, no. 9, pp. 1799-1803, 2009.
5. C. Baldoli, A. Righini, C. Parazzini, G. Scotti, and F. Triulzi, "Demonstration of acute ischemic lesions in the fetal brain by diffusion magnetic resonance imaging," Ann. Neurol. vol. 52, no. 2, pp. 243-246, 2002. (Pubitemid 34810610)
6. N. Girard, C. Gire, S. Sigaudy, G. Porcu, C. d'Ercole, D. Figarella- Branger, C. Raybaud, and S. Confort-Gouny, "MR imaging of acquired fetal brain disorders," Child's Nervous Syst. vol. 19, pp. 490-500, 2003. (Pubitemid 37161594)
7. E. Widjaja, S. Geibprasert, S. Blaser, T. Rayner, and P. Shannon, "Abnormal fetal cerebral laminar organization in cobblestone complex as seen on post-mortem MRI and DTI," Pediatric Radiol. vol. 39, pp. 860-864, 2009.
8. J. I. Berman, S. E. G. Hamrick, P. S. McQuillen, C. Studholme, D. Xu, R. G. Henry, L. K. Hornberger, and O. A. Glenn, "In vivoMRI of the fetal brain," Am. J. Neuroradiol., vol. 32, no. 2, pp. 21-22, 2011.
9. H. Huang, R. Xue, J. Zhang, T. Ren, L. J. Richards, P. Yarowsky, M. I. Miller, and S. Mori, "Anatomical characterization of human fetal brain development with diffusion tensor magnetic resonance imaging," J. Neurosci., vol. 29, no. 13, pp. 4263-4273, 2009.
10. S. Mori and J. Zhang, "Principles of diffusion tensor imaging and its applications to basic neuroscience research," Neuron, vol. 51, no. 5, pp. 527-539, 2006. (Pubitemid 44301829)
11. E. Zanin, J.-P. Ranjeva, S. Confort-Gouny, M. Guye, D. Denis, P. J. Cozzone, and N. Girard, "White matter maturation of normal human fetal brain. Anin vivo diffusion tensor tractography study," Brain Behav. vol. 1, no. 2, pp. 95-108, 2011.
12. G. Kasprian, P. C. Brugger, M. Weber, M. Krssak, E. Krampl, C. Herold, and D. Prayer, "In utero tractography of fetal white matter development," Neuroimage, vol. 43, no. 2, pp. 213-224, 2008.
13. M. Aksoy, C. Forman, M. Straka, S. Skare, S. Holdsworth, J. Hornegger, and R. Bammer, "Real-time optical motion correction for diffusion tensor imaging," Magn. Reson. Med. vol. 66, no. 2, pp. 366-378, 2011.
14. F. Rousseau, O. A. Glenn, B. Iordanova, C. E. Rodriguez-Carranza, D. B. Vigneron, A. J. Barkovich, and C. Studholme, "Registration-based approach for reconstruction of high-resolution in utero fetal MR brain images," Acad. Radiol., vol. 13, no. 9, pp. 1072-1081, 2006. (Pubitemid 44279445)
15. S. Jiang, H. Xue, A. Glover, M. Rutherford, D. Rueckert, and J. V. Hajnal, "MRI of moving subjects using multislice snapshot images with volume reconstruction (SVR): Application to fetal, neonatal, adult brain studies," IEEE Trans. Med. Imag., vol. 26, no. 7, pp. 967-980, Jul. 2007. (Pubitemid 47147244)
16. C. Studholme, D. Hill, and D. Hawkes, "An overlap invariant entropy measure of 3-D medical image alignment," Pattern Recognit., vol. 32, no. 1, pp. 71-86, 1999.
17. K. Kim, P. A. Habas, F. Rousseau, O. A. Glenn, A. J. Barkovich, and C. Studholme, "Intersection based motion correction ofmultisliceMRI for 3-D in utero fetal brain image formation," IEEE Trans. Med. Imag., vol. 29, no. 1, pp. 146-158, Jan. 2010.
18. S. Jiang, H. Xue, S. Counsell, M. Anjari, J. Allsop, M. Rutherford, D. Rueckert, and J. V. Hajnal, "Diffusion tensor imaging (DTI) of the brain in moving subjects: Application to in-utero fetal and ex-utero studies," Magn. Reson. Med., vol. 62, no. 3, pp. 645-655, 2009.
19. E. Oubel, M. Koob, C. Studholme, J.-L. Dietemann, and F. Rousseau, "Reconstruction of scattered data in fetal diffusion MRI," Med. Image Anal., vol. 16, pp. 28-37, 2012.
20. A. Gholipour, J. A. Estroff, and S. K. Warfield, "Robust super-resolution volume reconstruction from slice acquisitions: Application to fetal brain MRI," IEEE Trans. Med. Imag., vol. 29, no. 10, pp. 1739-1758, Oct. 2010.
21. F. Rousseau, K. Kim, C. Studholme, M. Koob, and J. Dietemann, "On super-resolution for fetal brain MRI," in Med. Image Comput. Comput.-Assist. Intervent., 2010, pp. 355-362.
22. M. Fogtmann, T. Chapman, K. Kim, S. Seshamani, and C. Studholme, "A unified approach for motion-estimation and super-resolution reconstruction from structural magnetic resonance on moving subjects," in MICCAIWorkshop Perinatal Paediatric Imag., Nice, France, 2012, pp. 9-16.
23. B. Scherrer, A. Gholipour, and S. K. Warfield, "uper-resolution in diffusion- weighted imaging," in MICCAI. New York: Springer, 2011, vol. 2, LNCS, pp. 124-132.
24. Z. Xue, H. Li, L. Guo, and S. T. Wong, "A local fast marching-based diffusion tensor image registration algorithm by simultaneously considering spatial deformation and tensor orientation," Neuroimage, vol. 52, no. 1, pp. 119-130, 2010.
25. H.-J. Park, M. Kubicki, M. E. Shenton, A. Guimond, R. W. McCarley, S. E. Maier, R. Kikinis, F. A. Jolesz, and C.-F. Westin, "Spatial normalization of diffusion tensor mri using multiple channels," Neuroimage, vol. 20, no. 4, pp. 1995-2009, 2003. (Pubitemid 37543617)
26. A. Barmpoutis, B. Jian, B. Vemuri, and T. Shepherd, "Symmetric positive 4th order tensors and their estimation from diffusion weighted mri," in Information Processing in Medical Imaging, N. Karssemeijer and B. Lelieveldt, Eds. Berlin, Germany: Springer, 2007, vol. 4584, Lecture Notes in Computer Science, pp. 308-319.
27. S. Basu, T. Fletcher, and R. Whitaker, "Rician noise removal in diffusion tensor MRI," in Medical Image Computing and Computer-Assisted Intervention. New York: Springer, 2006, vol. 9, LNCS, pp. 117-125. (Pubitemid 44609097)
28. S. H. Joshi, A. Marquina, S. J. Osher, I. Dinov, J. D. Van Horn, and A. W. Toga, "MRI resolution enhancement using total variation regularization," in Proc. 6th IEEE Int. Conf. Symp. Biomed. Imag.: From Nano to Macro, 2009, pp. 161-164.
29. K. Pearson, "The problem of the random walk," Nature, vol. 72, no. 1865, p. 294, 1905.
30. D. C. Liu and J. Nocedal, "On the limited memory BFGs method for large scale optimization," Math. Program. vol. 45, no. 3, pp. 503-528, Dec. 1989. (Pubitemid 20660315)
31. K. Kim, P. A. Habas, V. Rajagopalan, J. A. Scott, J. M. Corbett-Detig, F. Rousseau, A. J. Barkovich, O. A. Glenn, and C. Studholme, "Slimmer: Slice mri motion estimation and reconstruction tool for studies of fetal anatomy," in Proc. SPIE, 2011, vol. 7962, 79624D.
32. D. K. Jones and M. Cercignani, "Twenty-five pitfalls in the analysis of diffusion MRI data," NMR Biomed. vol. 23, no. 7, pp. 803-820, 2010.
33. B. Clancy, B. Kersh, J. Hyde, R. Darlington, K. Anand, and B. Finlay, "Web-based method for translating neurodevelopment from laboratory species to humans," Neuroinformatics, vol. 5, no. 1, pp. 79-94, 2007. (Pubitemid 46586614)
34. C. D. Kroenke, G. L. Bretthorst, T. E. Inder, and J. J. Neil, "Diffusion mr imaging characteristics of the developing primate brain," Neuroimage, vol. 25, no. 4, pp. 1205-1213, 2005. (Pubitemid 40591661)
35. C. D. Kroenke, D. C. Van Essen, T. E. Inder, S. Rees, G. L. Bretthorst, and J. J. Neil, "Microstructural changes of the baboon cerebral cortex during gestational development reflected in magnetic resonance imaging diffusion anisotropy," J. Neurosci., vol. 27, no. 46, pp. 12 506-12 515, 2007. (Pubitemid 350127812)
36. S. Mori and P. van Zijl, "Fiber tracking: Principles and strategies-A technical review," NMR Biomed., vol. 15, no. 7-8, pp. 468-480, 2002. (Pubitemid 36054510)
37. J. C. Haselgrove and J. R. Moore, "Correction for distortion of echo-planar images used to calculate the apparent diffusion coefficient," Magn. Reson. Med., vol. 36, no. 6, pp. 960-964, 2005.
38. J. F. Nielsen., N. R. Ghugre, and A. Panigrahy, "Affine and polynomial mutual information coregistration for artifact elimination in diffusion tensor imaging of newborns," Magn. Reson. Imag., vol. 22, no. 9, pp. 1319-1323, 2004. (Pubitemid 39647732)
39. G. Rohde, A. Barnett, P. Basser, S. Marenco, and C. Pierpaoli, "Comprehensive approach for correction of motion and distortion in diffusion- weighted MRI,"Magn. Reson. Med., vol. 51, no. 1, pp. 103-114, 2003. (Pubitemid 38095707)
40. C. Studholme, "Mapping fetal brain development in utero using magnetic resonance imaging: The big bang of brain mapping," Ann. Rev. Bio. Eng., vol. 13, no. 1, pp. 345-368, 2011.