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Abstract #3515

Automated segmentation of midbrain structures using convolutional neural network

Weiwei Zhao1, Fangfang Zhou1, Yida Wang1, Yang Song1, Gaiying Li1, Xu Yan2, Yi Wang3, Guang Yang1, and Jianqi Li1
1Shanghai Key Laboratory of Magnetic Resonance, School of Physics and Electronic Science, East China Normal University, Shanghai, China, 2MR Collaboration NE Asia, Siemens Healthcare, Shanghai, China, Shanghai, China, 3Department of Radiology, Weill Medical College of Cornell University, New York, NY, United States

Accurate and automated segmentation of substantia nigra (SN), the subthalamic nucleus (STN), and the red nucleus (RN) in quantitative susceptibility mapping (QSM) images has great significance in many neuroimaging studies. In the present study, we present a novel segmentation method by using convolution neural networks (CNN) to produce automated segmentations of the SN, STN, and RN. The model was validated on manual segmentations from 21 healthy subjects. Average Dice scores were 0.82±0.02 for the SN, 0.70±0.07 for the STN and 0.85±0.04 for the RN.

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