Papers › Improved Abdominal Multi-Organ Segmentation via 3D Boundary-Constrained Deep Neural Networks

Improved Abdominal Multi-Organ Segmentation via 3D Boundary-Constrained Deep Neural Networks

9 Oct 2022arXiv:2210.04285archive 2025-07-28

Samra Irshad, Douglas P. S. Gomes, Seong Tae Kim

Quantitative assessment of the abdominal region from clinically acquired CT scans requires the simultaneous segmentation of abdominal organs. Thanks to the availability of high-performance computational resources, deep learning-based methods have resulted in state-of-the-art performance for the segmentation of 3D abdominal CT scans. However, the complex characterization of organs with fuzzy boundaries prevents the deep learning methods from accurately segmenting these anatomical organs. Specifically, the voxels on the boundary of organs are more vulnerable to misprediction due to the highly-varying intensity of inter-organ boundaries. This paper investigates the possibility of improving the abdominal image segmentation performance of the existing 3D encoder-decoder networks by leveraging organ-boundary prediction as a complementary task. To address the problem of abdominal multi-organ segmentation, we train the 3D encoder-decoder network to simultaneously segment the abdominal organs and their corresponding boundaries in CT scans via multi-task learning. The network is trained end-to-end using a loss function that combines two task-specific losses, i.e., complete organ segmentation loss and boundary prediction loss. We explore two different network topologies based on the extent of weights shared between the two tasks within a unified multi-task framework. To evaluate the utilization of complementary boundary prediction task in improving the abdominal multi-organ segmentation, we use three state-of-the-art encoder-decoder networks: 3D UNet, 3D UNet++, and 3D Attention-UNet. The effectiveness of utilizing the organs' boundary information for abdominal multi-organ segmentation is evaluated on two publically available abdominal CT datasets. A maximum relative improvement of 3.5% and 3.6% is observed in Mean Dice Score for Pancreas-CT and BTCV datasets, respectively.

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Code

samra-irshad/3d-boundary-constrained-networks officialmentioned in paperpytorch report

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Tasks

Decoder Image Segmentation Medical Image Segmentation Multi-Task Learning Organ Segmentation Segmentation Semantic Segmentation

Results from the paper archive 2025-07-28

Task	Dataset	Model	Metric	Value	Rank at snapshot	Leaderboard	Report
Medical Image Segmentation	MICCAI 2015 Multi-Atlas Abdomen Labeling Challenge	3D Att-UNet-MTL-TSOL	Avg DSC	82	#7 of 8	Archive leaderboard	report

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Methods

UNet++

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