Search

Your search keyword '"Jan C. de Munck"' showing total 2 results
Start Over Author "Jan C. de Munck" Journal plos one
2 results on '"Jan C. de Munck"'

1. FAst Segmentation Through SURface Fairing (FASTSURF): A novel semi-automatic hippocampus segmentation method

Author

Jan C. de Munck, Hugo Vrenken, Michiel B. de Ruiter, F. Bartel, Marcel van Herk, José Belderbos, Joost Hulshof, VU University medical center, Radiology and nuclear medicine, Amsterdam Neuroscience - Brain Imaging, and Mathematics

Subjects
Jaccard index, Computer science, Cancer Treatment, Pathology and Laboratory Medicine, Alzheimer's Disease, Hippocampus, Diagnostic Radiology, 0302 clinical medicine, Medicine and Health Sciences, Segmentation, Cognitive Impairment, Numerical Analysis, Multidisciplinary, medicine.diagnostic_test, Manchester Cancer Research Centre, Cognitive Neurology, Radiology and Imaging, 05 social sciences, Brain, Neurodegenerative Diseases, Magnetic Resonance Imaging, Data Acquisition, Neurology, Oncology, Physical Sciences, SDG 1 - No Poverty, Medicine, Anatomy, Algorithms, Interpolation, Research Article, Clinical Oncology, Computer and Information Sciences, Imaging Techniques, Cognitive Neuroscience, Science, Radiation Therapy, Research and Analysis Methods, 050105 experimental psychology, 03 medical and health sciences, Signs and Symptoms, Diagnostic Medicine, Mental Health and Psychiatry, medicine, Humans, 0501 psychology and cognitive sciences, Hippocampus segmentation, Atrophy rate, business.industry, ResearchInstitutes_Networks_Beacons/mcrc, Biology and Life Sciences, Magnetic resonance imaging, Pattern recognition, Models, Theoretical, Data set, Cognitive Science, Dementia, Semi automatic, Artificial intelligence, Atrophy, Clinical Medicine, business, 030217 neurology & neurosurgery, Mathematics, Neuroscience
Abstract

OBJECTIVE: 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.

Published
2019
Full Text
View/download PDF

2. Regional analysis of volumes and reproducibilities of automatic and manual hippocampal segmentations.

Author

Fabian Bartel, Hugo Vrenken, Fetsje Bijma, Frederik Barkhof, Marcel van Herk, and Jan C de Munck

Subjects
Medicine, Science
Abstract

PURPOSE:Precise and reproducible hippocampus outlining is important to quantify hippocampal atrophy caused by neurodegenerative diseases and to spare the hippocampus in whole brain radiation therapy when performing prophylactic cranial irradiation or treating brain metastases. This study aimed to quantify systematic differences between methods by comparing regional volume and outline reproducibility of manual, FSL-FIRST and FreeSurfer hippocampus segmentations. MATERIALS AND METHODS:This study used a dataset from ADNI (Alzheimer's Disease Neuroimaging Initiative), including 20 healthy controls, 40 patients with mild cognitive impairment (MCI), and 20 patients with Alzheimer's disease (AD). For each subject back-to-back (BTB) T1-weighted 3D MPRAGE images were acquired at time-point baseline (BL) and 12 months later (M12). Hippocampi segmentations of all methods were converted into triangulated meshes, regional volumes were extracted and regional Jaccard indices were computed between the hippocampi meshes of paired BTB scans to evaluate reproducibility. Regional volumes and Jaccard indices were modelled as a function of group (G), method (M), hemisphere (H), time-point (T), region (R) and interactions. RESULTS:For the volume data the model selection procedure yielded the following significant main effects G, M, H, T and R and interaction effects G-R and M-R. The same model was found for the BTB scans. For all methods volumes reduces with the severity of disease. Significant fixed effects for the regional Jaccard index data were M, R and the interaction M-R. For all methods the middle region was most reproducible, independent of diagnostic group. FSL-FIRST was most and FreeSurfer least reproducible. DISCUSSION/CONCLUSION:A novel method to perform detailed analysis of subtle differences in hippocampus segmentation is proposed. The method showed that hippocampal segmentation reproducibility was best for FSL-FIRST and worst for Freesurfer. We also found systematic regional differences in hippocampal segmentation between different methods reinforcing the need of adopting harmonized protocols.

Published
2017
Full Text
View/download PDF

Catalog

Books, media, physical & digital resources
See catalog results