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A multi-time-point modality-agnostic patch-based method for lesion filling in Multiple Sclerosis

Ferran Prados, Manuel Jorge Cardoso, Baris Kanber, Olga Ciccarelli, Raju Kapoor, Claudia A.M. Gandini Wheeler-Kingshott, Sebastien Ourselin

NeuroImage, Volume 139, 1 October 2016, Pages 376 - 384


Multiple sclerosis lesions influence the process of image analysis, leading to tissue segmentation problems and biased morphometric estimates. Existing techniques try to reduce this bias by filling all lesions as normal-appearing white matter on T1-weighted images, considering each time-point separately. However, due to lesion segmentation errors and the presence of structures adjacent to the lesions, such as the ventricles and deep grey matter nuclei, filling all lesions with white matter-like intensities introduces errors and artefacts. In this paper, we present a novel lesion filling strategy inspired by in-painting techniques used in computer graphics applications for image completion. The proposed technique uses a five-dimensional (5D), patch-based (multi-modality and multi-time-point), Non-Local Means algorithm that fills lesions with the most plausible texture. We demonstrate that this strategy introduces less bias, fewer artefacts and spurious edges than the current, publicly available techniques. The proposed method is modality-agnostic and can be applied to multiple time-points simultaneously. In addition, it preserves anatomical structures and signal-to-noise characteristics even when the lesions are neighbouring grey matter or cerebrospinal fluid, and avoids excess of blurring or rasterisation due to the choice of the segmentation plane, shape of the lesions, and their size and/or location.

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About the Editors

  • Prof Timothy Vartanian

    Timothy Vartanian, Professor at the Brain and Mind Research Institute and the Department of Neurology, Weill Cornell Medical College, Cornell...
  • Dr Claire S. Riley

    Claire S. Riley, MD is an assistant attending neurologist and assistant professor of neurology in the Neurological Institute, Columbia University,...
  • Dr Rebecca Farber

    Rebecca Farber, MD is an attending neurologist and assistant professor of neurology at the Neurological Institute, Columbia University, in New...

This online Resource Centre has been made possible by a donation from EMD Serono, Inc., a business of Merck KGaA, Darmstadt, Germany.

Note that EMD Serono, Inc., has no editorial control or influence over the content of this Resource Centre. The Resource Centre and all content therein are subject to an independent editorial review.

The Grant for Multiple Sclerosis Innovation
supports promising translational research projects by academic researchers to improve understanding of multiple sclerosis (MS) for the ultimate benefit of patients.  For full information and application details, please click here

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