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000270875 037__ $$aDZNE-2024-00914
000270875 1001_ $$0P:(DE-2719)2812449$$aEstrada, Santiago$$b0$$eFirst author
000270875 245__ $$aDataset: HypVINN Checkpoints (v. 1.1.0)
000270875 260__ $$bZenodo$$c2024
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000270875 520__ $$aTraining checkpoints for HypVINN (https://github.com/Deep-MI/FastSurfer) - please cite the paper when using this resource (https://doi.org/10.1162/imag_a_00034). Abstract The hypothalamus plays a crucial role in the regulation of a broad range of physiological, behavioral, and cognitive functions. However, despite its importance, only a few small-scale neuroimaging studies have investigated its substructures, likely due to the lack of fully automated segmentation tools to address scalability and reproducibility issues of manual segmentation. While the only previous attempt to automatically sub-segment the hypothalamus with a neural network showed promise for 1.0 mm isotropic T1-weighted (T1w) magnetic resonance imaging (MRI), there is a need for an automated tool to sub-segment also high-resolutional (HiRes) MR scans, as they are becoming widely available, and include structural detail also from multi-modal MRI. We, therefore, introduce a novel, fast, and fully automated deep-learning method named HypVINN for sub-segmentation of the hypothalamus and adjacent structures on 0.8 mm isotropic T1w and T2w brain MR images that is robust to missing modalities. We extensively validate our model with respect to segmentation accuracy, generalizability, in-session test-retest reliability, and sensitivity to replicate hypothalamic volume effects (e.g., sex differences). The proposed method exhibits high segmentation performance both for standalone T1w images as well as for T1w/T2w image pairs. Even with the additional capability to accept flexible inputs, our model matches or exceeds the performance of state-of-the-art methods with fixed inputs. We, further, demonstrate the generalizability of our method in experiments with 1.0 mm MR scans from both the Rhineland Study and the UK Biobank—an independent dataset never encountered during training with different acquisition parameters and demographics. Finally, HypVINN can perform the segmentation in less than a minute (graphical processing unit [GPU]) and will be available in the open source FastSurfer neuroimaging software suite, offering a validated, efficient, and scalable solution for evaluating imaging-derived phenotypes of the hypothalamus.
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000270875 7001_ $$0P:(DE-2719)2814290$$aKügler, David$$b1$$udzne
000270875 7001_ $$0P:(DE-2719)2812803$$aBahrami Rad, Emad$$b2
000270875 7001_ $$0P:(DE-2719)9001766$$aXu, Peng$$b3$$udzne
000270875 7001_ $$0P:(DE-2719)2814343$$aMousa, Dilshad$$b4$$udzne
000270875 7001_ $$0P:(DE-2719)2810403$$aBreteler, Monique M. B.$$b5
000270875 7001_ $$0P:(DE-2719)2812578$$aAziz, N. Ahmad$$b6$$udzne
000270875 7001_ $$0P:(DE-2719)2812134$$aReuter, Martin$$b7$$eLast author
000270875 7001_ $$0P:(DE-2719)2812449$$aEstrada, Santiago$$b8$$eResearcher
000270875 7001_ $$aKügler, David$$b9$$eResearcher
000270875 7001_ $$aBahrami, Emad$$b10$$eResearcher
000270875 7001_ $$aXu, Peng$$b11$$eResearcher
000270875 7001_ $$aMousa, Dilshad$$b12$$eResearcher
000270875 7001_ $$0P:(DE-2719)2810403$$aBreteler, Monique M. B.$$b13$$eSupervisor
000270875 7001_ $$aAziz, N. Ahmad$$b14$$eSupervisor
000270875 7001_ $$0P:(DE-2719)2812134$$aReuter, Martin$$b15$$eSupervisor
000270875 773__ $$a10.5281/zenodo.11184216
000270875 7870_ $$0DZNE-2024-00227$$aEstrada, Santiago et.al.$$dZenodo, 2024$$iRelatedTo$$r$$tDataset: HypVINN Checkpoints (v. 1.0.0)
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