E2ENet: Dynamic Sparse Feature Fusion for Accurate and Efficient 3D Medical Image Segmentation

Boqian Wu, Qiao Xiao, Shiwei Liu, Lu Yin, Mykola Pechenizkiy, Decebal Constantin Mocanu, Maurice Van Keulen, Elena Mocanu

Research output: Working paperPreprintAcademic

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Deep neural networks have evolved as the leading approach in 3D medical image segmentation due to their outstanding performance. However, the ever-increasing model size and computation cost of deep neural networks have become the primary barrier to deploying them on real-world resource-limited hardware. In pursuit of improving performance and efficiency, we propose a 3D medical image segmentation model, named Efficient to Efficient Network (E2ENet), incorporating two parametrically and computationally efficient designs. i. Dynamic sparse feature fusion (DSFF) mechanism: it adaptively learns to fuse informative multi-scale features while reducing redundancy. ii. Restricted depth-shift in 3D convolution: it leverages the 3D spatial information while keeping the model and computational complexity as 2D-based methods. We conduct extensive experiments on BTCV, AMOS-CT and Brain Tumor Segmentation Challenge, demonstrating that E2ENet consistently achieves a superior trade-off between accuracy and efficiency than prior arts across various resource constraints. E2ENet achieves comparable accuracy on the large-scale challenge AMOS-CT, while saving over 68\% parameter count and 29\% FLOPs in the inference phase, compared with the previous best-performing method. Our code has been made available at: https://github.com/boqian333/E2ENet-Medical.
Original languageEnglish
Number of pages20
Publication statusPublished - 7 Dec 2023


  • Deep Neural Networks
  • Sparse Training
  • Image segmentation
  • 3D medical image


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