Consistent and robust 4D whole-brain segmentation: Application to traumatic brain injury

Christian Ledig, Wenzhe Shi, Antonious Makropoulos, Juha Koikkalainen, Rolf A. Heckemann, Alexander Hammers, Jyrki Lötjönen, Olli Tenovuo, Daniel Rueckert

Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

5 Scopus citations

Abstract

We propose a consistent approach to automatically segmenting longitudinal magnetic resonance scans of pathological brains. Using symmetric intra-subject registration, we align corresponding scans. In an expectation-maximization framework we exploit the availability of probabilistic segmentation estimates to perform a symmetric intensity normalisation. We introduce a novel technique to perform symmetric differential bias correction for images in presence of pathologies. To achieve a consistent multi-time-point segmentation, we propose a patch-based coupling term using a spatially and temporally varying Markov random field. We demonstrate the superior consistency of our method by segmenting repeat scans into 134 regions. Furthermore, the approach has been applied to segment baseline and six month follow-up scans from 56 patients who have sustained traumatic brain injury (TBI). We find significant correlations between regional atrophy rates and clinical outcome: Patients with poor outcome showed a much higher thalamic atrophy rate (4.9 ± 3.4%) than patients with favourable outcome (0.6 ± 1.9%).

Original languageEnglish
Title of host publication2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014
PublisherInstitute of Electrical and Electronics Engineers Inc.
Pages673-676
Number of pages4
ISBN (Electronic)9781467319591
DOIs
StatePublished - 29 Jul 2014
Externally publishedYes
Event2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014 - Beijing, China
Duration: 29 Apr 20142 May 2014

Publication series

Name2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014

Conference

Conference2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014
Country/TerritoryChina
CityBeijing
Period29/04/142/05/14

Keywords

  • Brain MRI
  • EM optimisation
  • Longitudinal segmentation
  • Temporal consistency
  • Traumatic brain injury

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