Improved labeling of subcortical brain structures in atlas-based segmentation of magnetic resonance images

Siamak Yousefi, Nasser Kehtarnavaz, Ali Gholipour

Research output: Contribution to journalArticle

12 Citations (Scopus)

Abstract

Precise labeling of subcortical structures plays a key role in functional neurosurgical applications. Labels from an atlas image are propagated to a patient image using atlas-based segmentation. Atlas-based segmentation is highly dependent on the registration framework used to guide the atlas label propagation. This paper focuses on atlas-based segmentation of subcortical brain structures and the effect of different registration methods on the generated subcortical labels. A single-step and three two-step registration methods appearing in the literature based on affine and deformable registration algorithms in the ANTS and FSL algorithms are considered. Experiments are carried out with two atlas databases of IBSR and LPBA40. Six segmentation metrics consisting of Dice overlap, relative volume error, false positive, false negative, surface distance, and spatial extent are used for evaluation. Segmentation results are reported individually and as averages for nine subcortical brain structures. Based on two statistical tests, the results are ranked. In general, among four different registration strategies investigated in this paper, a two-step registration consisting of an initial affine registration followed by a deformable registration applied to subcortical structures provides superior segmentation outcomes. This method can be used to provide an improved labeling of the subcortical brain structures in MRIs for different applications.

Original languageEnglish (US)
Article number2122306
Pages (from-to)1808-1817
Number of pages10
JournalIEEE Transactions on Biomedical Engineering
Volume59
Issue number7
DOIs
StatePublished - Jun 29 2012
Externally publishedYes

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Magnetic resonance
Labeling
Labels
Brain
Statistical tests
Magnetic resonance imaging
Experiments

All Science Journal Classification (ASJC) codes

  • Biomedical Engineering

Cite this

Improved labeling of subcortical brain structures in atlas-based segmentation of magnetic resonance images. / Yousefi, Siamak; Kehtarnavaz, Nasser; Gholipour, Ali.

In: IEEE Transactions on Biomedical Engineering, Vol. 59, No. 7, 2122306, 29.06.2012, p. 1808-1817.

Research output: Contribution to journalArticle

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