FAst Segmentation through SURface Fairing (FASTSURF): a novel semi-automatic hippocampus segmentation method.
AffiliationDepartment of Radiology and Nuclear Medicine, VU University Medical Center, Amsterdam, The Netherlands
MetadataShow full item record
AbstractOBJECTIVE: The objective is to present a proof-of-concept of a semi-automatic method to reduce hippocampus segmentation time on magnetic resonance images (MRI). MATERIALS AND METHODS: FAst Segmentation Through SURface Fairing (FASTSURF) is based on a surface fairing technique which reconstructs the hippocampus from sparse delineations. To validate FASTSURF, simulations were performed in which sparse delineations extracted from full manual segmentations served as input. On three different datasets with different diagnostic groups, FASTSURF hippocampi were compared to the original segmentations using Jaccard overlap indices and percentage volume differences (PVD). In one data set for which back-to-back scans were available, unbiased estimates of overlap and PVD were obtained. Using longitudinal scans, we compared hippocampal atrophy rates measured by manual, FASTSURF and two automatic segmentations (FreeSurfer and FSL-FIRST). RESULTS: With only seven input contours, FASTSURF yielded mean Jaccard indices ranging from 72(±4.3)% to 83(±2.6)% and PVDs ranging from 0.02(±2.40)% to 3.2(±3.40)% across the three datasets. Slightly poorer results were obtained for the unbiased analysis, but the performance was still considerably better than both tested automatic methods with only five contours. CONCLUSIONS: FASTSURF segmentations have high accuracy and require only a fraction of the delineation effort of fully manual segmentation. Atrophy rate quantification based on completely manual segmentation is well reproduced by FASTSURF. Therefore, FASTSURF is a promising tool to be implemented in clinical workflow, provided a future prospective validation confirms our findings.
CitationBartel F, Vrenken H, van Herk M, de Ruiter M, Belderbos J, Hulshof J, et al. FAst Segmentation Through SURface Fairing (FASTSURF): a novel semi-automatic hippocampus segmentation method. PLoS One. 2019;14(1):e0210641.
- Multi-atlas segmentation of the whole hippocampus and subfields using multiple automatically generated templates.
- Authors: Pipitone J, Park MT, Winterburn J, Lett TA, Lerch JP, Pruessner JC, Lepage M, Voineskos AN, Chakravarty MM, Alzheimer's Disease Neuroimaging Initiative.
- Issue date: 2014 Nov 1
- Hippocampal volume change measurement: quantitative assessment of the reproducibility of expert manual outlining and the automated methods FreeSurfer and FIRST.
- Authors: Mulder ER, de Jong RA, Knol DL, van Schijndel RA, Cover KS, Visser PJ, Barkhof F, Vrenken H, Alzheimer's Disease Neuroimaging Initiative.
- Issue date: 2014 May 15
- Regional analysis of volumes and reproducibilities of automatic and manual hippocampal segmentations.
- Authors: Bartel F, Vrenken H, Bijma F, Barkhof F, van Herk M, de Munck JC
- Issue date: 2017
- Automatic segmentation of the hippocampus for preterm neonates from early-in-life to term-equivalent age.
- Authors: Guo T, Winterburn JL, Pipitone J, Duerden EG, Park MT, Chau V, Poskitt KJ, Grunau RE, Synnes A, Miller SP, Mallar Chakravarty M
- Issue date: 2015
- Automatic thalamus and hippocampus segmentation from MP2RAGE: comparison of publicly available methods and implications for DTI quantification.
- Authors: Næss-Schmidt E, Tietze A, Blicher JU, Petersen M, Mikkelsen IK, Coupé P, Manjón JV, Eskildsen SF
- Issue date: 2016 Nov