U-Net Based Healthy 3D Brain Tissue Inpainting

Juexin Zhang; Ying Weng; Ke Chen

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arXiv · 2507.18126

U-Net Based Healthy 3D Brain Tissue Inpainting

Juexin Zhang·Ying Weng·Ke Chen

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Abstract

This paper introduces a novel approach to synthesize healthy 3D brain tissue from masked input images, specifically focusing on the task of 'ASNR-MICCAI BraTS Local Synthesis of Tissue via Inpainting'. Our proposed method employs a U-Net-based architecture, which is designed to effectively reconstruct the missing or corrupted regions of brain MRI scans. To enhance our model's generalization capabilities and robustness, we implement a comprehensive data augmentation strategy that involves randomly masking healthy images during training. Our model is trained on the BraTS-Local-Inpainting dataset and demonstrates the exceptional performance in recovering healthy brain tissue. The evaluation metrics employed, including Structural Similarity Index (SSIM), Peak Signal-to-Noise Ratio (PSNR), and Mean Squared Error (MSE), consistently yields impressive results. On the BraTS-Local-Inpainting validation set, our model achieved an SSIM score of 0.841, a PSNR score of 23.257, and an MSE score of 0.007. Notably, these evaluation metrics exhibit relatively low standard deviations, i.e., 0.103 for SSIM score, 4.213 for PSNR score and 0.007 for MSE score, which indicates that our model's reliability and consistency across various input scenarios. Our method also secured first place in the challenge.

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Juexin Zhang, Ying Weng, Ke Chen. 2025-07-24. U-Net Based Healthy 3D Brain Tissue Inpainting. https://arxiv.org/abs/2507.18126

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