TY - JOUR
T1 - DR-BUDDI (Diffeomorphic Registration for Blip-Up blip-Down Diffusion Imaging) method for correcting echo planar imaging distortions
AU - Irfanoglu, M. Okan
AU - Modi, Pooja
AU - Nayak, Amritha
AU - Hutchinson, Elizabeth B.
AU - Sarlls, Joelle
AU - Pierpaoli, Carlo
N1 - Funding Information:
This research was supported by the Intramural Research Program of the Eunice Kennedy Shriver National Institute of Child Health and Human Development (NICHD) and the National Institute of Neurological Disorders and Stroke (NINDS), National Institutes of Health (NIH). Support for this work included funding from Department of Defense in the Center for Neuroscience and Regenerative Medicine (CNRM) (HJF Award #: 30613610.0160855 ). The authors would also like to thank the Henry M. Jackson Foundation (HJF) for their administrative support and Dr. Holland for making his correction tool available to us. Finally, we would like to thank the NIH Diffusion-Weighted EPI Distortion Correction Working Group, consisting of Dr. Andrew Knutsen, Dr. Cibu Thomas, Dr. Stephano Marenco, Dr. Souheil Inati, Dr. Ziad Saad, Dr. John Butman, Dr. Dzung Pham, Dr. Govind Bhagavatheeshwaran, Dr. Vinai Roopchansingh, Dr. Sean Marrett, Dr. Lalith Talagala, and Dr. Alexandru Avram for providing a discussion environment that initiated this work. We also thank Liz Salak for editing this manuscript.
Publisher Copyright:
© 2014 Elsevier Inc.
PY - 2015/2/1
Y1 - 2015/2/1
N2 - We propose an echo planar imaging (EPI) distortion correction method (DR-BUDDI), specialized for diffusion MRI, which uses data acquired twice with reversed phase encoding directions, often referred to as blip-up blip-down acquisitions. DR-BUDDI can incorporate information from an undistorted structural MRI and also use diffusion-weighted images (DWI) to guide the registration, improving the quality of the registration in the presence of large deformations and in white matter regions. DR-BUDDI does not require the transformations for correcting blip-up and blip-down images to be the exact inverse of each other. Imposing the theoretical "blip-up blip-down distortion symmetry" may not be appropriate in the presence of common clinical scanning artifacts such as motion, ghosting, Gibbs ringing, vibrations, and low signal-to-noise. The performance of DR-BUDDI is evaluated with several data sets and compared to other existing blip-up blip-down correction approaches. The proposed method is robust and generally outperforms existing approaches. The inclusion of the DWIs in the correction process proves to be important to obtain a reliable correction of distortions in the brain stem. Methods that do not use DWIs may produce a visually appealing correction of the non-diffusion weighted images, but the directionally encoded color maps computed from the tensor reveal an abnormal anatomy of the white matter pathways.
AB - We propose an echo planar imaging (EPI) distortion correction method (DR-BUDDI), specialized for diffusion MRI, which uses data acquired twice with reversed phase encoding directions, often referred to as blip-up blip-down acquisitions. DR-BUDDI can incorporate information from an undistorted structural MRI and also use diffusion-weighted images (DWI) to guide the registration, improving the quality of the registration in the presence of large deformations and in white matter regions. DR-BUDDI does not require the transformations for correcting blip-up and blip-down images to be the exact inverse of each other. Imposing the theoretical "blip-up blip-down distortion symmetry" may not be appropriate in the presence of common clinical scanning artifacts such as motion, ghosting, Gibbs ringing, vibrations, and low signal-to-noise. The performance of DR-BUDDI is evaluated with several data sets and compared to other existing blip-up blip-down correction approaches. The proposed method is robust and generally outperforms existing approaches. The inclusion of the DWIs in the correction process proves to be important to obtain a reliable correction of distortions in the brain stem. Methods that do not use DWIs may produce a visually appealing correction of the non-diffusion weighted images, but the directionally encoded color maps computed from the tensor reveal an abnormal anatomy of the white matter pathways.
KW - Diffeomorphic image registration
KW - Diffusion tensor imaging
KW - Echo planar imaging
KW - Reversed phase encoding
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U2 - 10.1016/j.neuroimage.2014.11.042
DO - 10.1016/j.neuroimage.2014.11.042
M3 - Article
C2 - 25433212
AN - SCOPUS:84920153111
VL - 106
SP - 284
EP - 299
JO - NeuroImage
JF - NeuroImage
SN - 1053-8119
ER -