/pdf/transforming-medical-imaging-with-transformers-a-comparative-3w3432iy.pdf

Transforming medical imaging with Transformers? A comparative review of key properties, current progresses, and future perspectives

/pdf/dual-distribution-discrepancy-with-self-supervised-cz6f0a40.pdf

Dual-distribution discrepancy with self-supervised refinement for anomaly detection in medical images

The recent 3D medical ViTs (e.g., SwinUNETR) achieve the state-of-the-art performances on several 3D volumetric data benchmarks, including 3D medical image segmentation. Hierarchical transformers (e.g., Swin Transformers) reintroduced several ConvNet priors and further enhanced the practical viability of adapting volumetric segmentation in 3D medical datasets. The effectiveness of hybrid approaches is largely credited to the large receptive field for non-local self-attention and the large number of model parameters. In this work, we propose a lightweight volumetric ConvNet, termed 3D UX-Net, which adapts the hierarchical transformer using ConvNet modules for robust volumetric segmentation. Specifically, we revisit volumetric depth-wise convolutions with large kernel size (e.g. starting from $7\times7\times7$) to enable the larger global receptive fields, inspired by Swin Transformer. We further substitute the multi-layer perceptron (MLP) in Swin Transformer blocks with pointwise depth convolutions and enhance model performances with fewer normalization and activation layers, thus reducing the number of model parameters. 3D UX-Net competes favorably with current SOTA transformers (e.g. SwinUNETR) using three challenging public datasets on volumetric brain and abdominal imaging: 1) MICCAI Challenge 2021 FLARE, 2) MICCAI Challenge 2021 FeTA, and 3) MICCAI Challenge 2022 AMOS. 3D UX-Net consistently outperforms SwinUNETR with improvement from 0.929 to 0.938 Dice (FLARE2021) and 0.867 to 0.874 Dice (Feta2021). We further evaluate the transfer learning capability of 3D UX-Net with AMOS2022 and demonstrates another improvement of $2.27\%$ Dice (from 0.880 to 0.900). The source code with our proposed model are available at https://github.com/MASILab/3DUX-Net.

pdf/3d-ux-net-a-large-kernel-volumetric-convnet-modernizing-2d8cgmuu.pdf

3D UX-Net: A Large Kernel Volumetric ConvNet Modernizing Hierarchical Transformer for Medical Image Segmentation

Transformer, one of the latest technological advances of deep learning, has gained prevalence in natural language processing or computer vision. Since medical imaging bear some resemblance to computer vision, it is natural to inquire about the status quo of Transformers in medical imaging and ask the question: can the Transformer models transform medical imaging? In this paper, we attempt to make a response to the inquiry. After a brief introduction of the fundamentals of Transformers, especially in comparison with convolutional neural networks (CNNs), and highlighting key defining properties that characterize the Transformers, we offer a comprehensive review of the state-of-the-art Transformer-based approaches for medical imaging and exhibit current research progresses made in the areas of medical image segmentation, recognition, detection, registration, reconstruction, enhancement, etc. In particular, what distinguishes our review lies in its organization based on the Transformer's key defining properties, which are mostly derived from comparing the Transformer and CNN, and its type of architecture, which specifies the manner in which the Transformer and CNN are combined, all helping the readers to best understand the rationale behind the reviewed approaches. We conclude with discussions of future perspectives.

AMSUnet: A neural network using atrous multi-scale convolution for medical image segmentation

Recently, ConvNeXts constructing from standard ConvNet modules has produced competitive performance in various image applications. In this paper, an efficient model based on the classical UNet, which can achieve promising results with a low number of parameters, is proposed for medical image segmentation. Inspired by ConvNeXt, the designed model is called ConvUNeXt and towards reduction in the amount of parameters while retaining outstanding segmentation superiority. Specifically, we firstly improved the convolution block of UNet by using large convolution kernels and depth-wise separable convolution to considerably decrease the number of parameters; then residual connections in both encoder and decoder are added and pooling is abandoned via adopting convolution for down-sampling; during skip connection, a lightweight attention mechanism is designed to filter out noise in low-level semantic information and suppress irrelevant features, so that the network can pay more attention to the target area. Compared to the standard UNet, our model has 20% fewer parameters, meanwhile, experimental results on different datasets show that it exhibits superior segmentation performance when the amount of data is scarce or sufficient. Code will be available at https://github.com/1914669687/ConvUNeXt. 

ConvUNeXt: An efficient convolution neural network for medical image segmentation

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ConvUNeXt: An efficient convolution neural network for medical image segmentation

AMSUnet: A neural network using atrous multi-scale convolution for medical image segmentation