High-resolution segmentations of the hypothalamus and its subregions for training of segmentation models

• URL: http://arxiv.org/abs/2406.19492v1
• Date: Thu, 27 Jun 2024 19:16:57 GMT
• Title: High-resolution segmentations of the hypothalamus and its subregions for training of segmentation models
• Authors: Livia Rodrigues, Martina Bocchetta, Oula Puonti, Douglas Greve, Ana Carolina Londe, Marcondes França, Simone Appenzeller, Leticia Rittner, Juan Eugenio Iglesias,
• Abstract summary: HELM, Hypothalamic ex vivo Label Maps is a dataset composed of label maps built from publicly available ultra-high resolution ex vivo MRI from 10 whole hemispheres. We provide a combination of manual labels for the hypothalamic regions and automated segmentations for the rest of the brain, and mirrored to simulate entire brains.
• Score: 1.0486773259892048
• License: http://creativecommons.org/licenses/by/4.0/
• Abstract: Segmentation of brain structures on magnetic resonance imaging (MRI) is a highly relevant neuroimaging topic, as it is a prerequisite for different analyses such as volumetry or shape analysis. Automated segmentation facilitates the study of brain structures in larger cohorts when compared with manual segmentation, which is time-consuming. However, the development of most automated methods relies on large and manually annotated datasets, which limits the generalizability of these methods. Recently, new techniques using synthetic images have emerged, reducing the need for manual annotation. Here we provide HELM, Hypothalamic ex vivo Label Maps, a dataset composed of label maps built from publicly available ultra-high resolution ex vivo MRI from 10 whole hemispheres, which can be used to develop segmentation methods using synthetic data. The label maps are obtained with a combination of manual labels for the hypothalamic regions and automated segmentations for the rest of the brain, and mirrored to simulate entire brains. We also provide the pre-processed ex vivo scans, as this dataset can support future projects to include other structures after these are manually segmented.

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