Correction of Slice Misalignment in Multi-breath-hold Cardiac MRI Scans

  • Benjamin Villard
  • Ernesto Zacur
  • Erica Dall’Armellina
  • Vicente Grau
Conference paper
Part of the Lecture Notes in Computer Science book series (LNCS, volume 10124)


Cardiac Magnetic Resonance (CMR) provides unique functional and anatomical visualisation of the macro and micro-structures of the heart. However, CMR acquisition times usually necessitate slices to be acquired at different breath holds, which results in potential misalignment of the acquired slices. Correcting for this spatial misalignment is required for accurate three-dimensional (3D) reconstruction of the heart chambers allowing robust metrics for shape analysis among populations as well as precise representations of individual geometries and scars. While several methods have been proposed to realign slices, their use in other important protocols such as late gadolinium enhancement (LGE) is yet to be demonstrated. We propose a registration framework based on local phase to correct for slice misalignment. Our registration framework is a group registration technique combining long- and short-axis slices. Validation was performed on LGE slices using expert-traced ventricular contours. For 15 clinical multi-breath-hold datasets our method reduced the median discrepancy of moderately misaligned slices from 2.19 mm to 1.63 mm, and of severely misaligned from 7.33 mm to 1.96 mm.


Slice misalignment Late gadolinium enhancement CMR 



BV acknowledges the support of the RCUK Digital Economy Programme grant number EP/G036861/1 (Oxford Centre for Doctoral Training in Healthcare Innovation). EZ acknowledges the Marie Sklodowska-Curie Individual Fellowship from the H2020 EU Framework Programme for Research and Innovation [Proposal No: 655020-DTI4micro-MSCA-IF-EF-ST]. ED acknowledges the BHF intermediate clinical research fellow grant (FS/13/71/30378) and the NIHR BRC. VG is supported by a BBSRC grant (BB/I012117/1), an EPSRC grant (EP/J013250/1) and by BHF New Horizon Grant NH/13/30238.


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Copyright information

© Springer International Publishing AG 2017

Authors and Affiliations

  • Benjamin Villard
    • 1
  • Ernesto Zacur
    • 1
  • Erica Dall’Armellina
    • 2
  • Vicente Grau
    • 1
  1. 1.Institute of Biomedical EngineeringUniversity of OxfordOxfordUK
  2. 2.Division of Cardiovascular Medicine, Radcliffe Department of Medicine, Oxford Acute Vascular Imaging CenterUniversity of OxfordOxfordUK

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