Segmentation of livers and liver tumors is one of the most important steps in radiation therapy of hepatocellular carcinoma. The segmentation task is often done manually, making it tedious, labor intensive, and subject to intra-/inter- operator variations. While various algorithms for delineating organ-at-risks (OARs) and tumor targets have been proposed, automatic segmentation of livers and liver tumors remains intractable due to their low tissue contrast with respect to the surrounding organs and their deformable shape in CT images. The U-Net has gained increasing popularity recently for image analysis tasks and has shown promising results. Conventional U-Net architectures, however, suffer from three major drawbacks. First, skip connections allow for the duplicated transfer of low resolution information in feature maps to improve efficiency in learning, but this often leads to blurring of extracted image features. Secondly, high level features extracted by the network often do not contain enough high resolution edge information of the input, leading to greater uncertainty where high resolution edge dominantly affects the network's decisions such as liver and liver-tumor segmentation. Thirdly, it is generally difficult to optimize the number of pooling operations in order to extract high level global features, since the number of pooling operations used depends on the object size. To cope with these problems, we added a residual path with deconvolution and activation operations to the skip connection of the U-Net to avoid duplication of low resolution information of features. In the case of small object inputs, features in the skip connection are not incorporated with features in the residual path. Furthermore, the proposed architecture has additional convolution layers in the skip connection in order to extract high level global features of small object inputs as well as high level features of high resolution edge information of large object inputs. Efficacy of the modified U-Net (mU-Net) was demonstrated using the public dataset of Liver tumor segmentation (LiTS) challenge 2017. For liver-tumor segmentation, Dice similarity coefficient (DSC) of 89.72 %, volume of error (VOE) of 21.93 %, and relative volume difference (RVD) of - 0.49 % were obtained. For liver segmentation, DSC of 98.51 %, VOE of 3.07 %, and RVD of 0.26 % were calculated. For the public 3D Image Reconstruction for Comparison of Algorithm Database (3Dircadb), DSCs were 96.01 % for the liver and 68.14 % for liver-tumor segmentations, respectively. The proposed mU-Net outperformed existing state-of-art networks.

Polyp recognition in colonoscopy images is crucial for early colorectal cancer detection and treatment. However, the current manual review requires undivided concentration of the gastroenterologist and is prone to diagnostic errors. In this article, we present an effective, two-stage approach called

Vision Transformer(ViT) is one of the most widely used models in the computer vision field with its great performance on various tasks. In order to fully utilize the ViT-based architecture in various applications, proper visualization methods with a decent localization performance are necessary, but these methods employed in CNN-based models are still not available in ViT due to its unique structure. In this work, we propose an attention-guided visualization method applied to ViT that provides a high-level semantic explanation for its decision. Our method selectively aggregates the gradients directly propagated from the classification output to each self-attention, collecting the contribution of image features extracted from each location of the input image. These gradients are additionally guided by the normalized self-attention scores, which are the pairwise patch correlation scores. They are used to supplement the gradients on the patch-level context information efficiently detected by the self-attention mechanism. This approach of our method provides elaborate high-level semantic explanations with great localization performance only with the class labels. As a result, our method outperforms the previous leading explainability methods of ViT in the weakly-supervised localization task and presents great capability in capturing the full instances of the target class object. Meanwhile, our method provides a visualization that faithfully explains the model, which is demonstrated in the perturbation comparison test.

Deep learning is becoming an indispensable tool for imaging applications, such as image segmentation, classification, and detection. In this work, we reformulate a standard deep learning problem into a new neural network architecture with multi-output channels, which reflects different facets of the objective, and apply the deep neural network to improve the performance of image segmentation. By adding one or more interrelated auxiliary-output channels, we impose an effective consistency regularization for the main task of pixelated classification (i.e., image segmentation). Specifically, multi-output-channel consistency regularization is realized by residual learning via additive paths that connect main-output channel and auxiliary-output channels in the network. The method is evaluated on the detection and delineation of lung and liver tumors with public data. The results clearly show that multi-output-channel consistency implemented by residual learning improves the standard deep neural network. The proposed framework is quite broad and should find widespread applications in various deep learning problems.

Sophisticated segmentation of the craniomaxillofacial bones (the mandible and maxilla) in computed tomography (CT) is essential for diagnosis and treatment planning for craniomaxillofacial surgeries. Conventional manual segmentation is time-consuming and challenging due to intrinsic properties of craniomaxillofacial bones and head CT such as the variance in the anatomical structures, low contrast of soft tissue, and artifacts caused by metal implants. However, data-driven segmentation methods, including deep learning, require a large consistent dataset, which creates a bottleneck in their clinical applications due to limited datasets. In this study, we propose a deep learning approach for the automatic segmentation of the mandible and maxilla in CT images and enhanced the compatibility for multi-center datasets. Four multi-center datasets acquired by various conditions were applied to create a scenario where the model was trained with one dataset and evaluated with the other datasets. For the neural network, we designed a hierarchical, parallel and multi-scale residual block to the U-Net (HPMR-U-Net). To evaluate the performance, segmentation with in-house dataset and with external datasets from multi-center were conducted in comparison to three other neural networks: U-Net, Res-U-Net and mU-Net. The results suggest that the segmentation performance of HPMR-U-Net is comparable to that of other models, with superior data compatibility.

Deep learning is becoming an indispensable tool for various tasks in science and engineering. A critical step in constructing a reliable deep learning model is the selection of a loss function, which measures the discrepancy between the network prediction and the ground truth. While a variety of loss functions have been proposed in the literature, a truly optimal loss function that maximally utilizes the capacity of neural networks for deep learning-based decision-making has yet to be established. Here, we devise a generalized loss function with functional parameters determined adaptively during model training to provide a versatile framework for optimal neural network-based decision-making in small target segmentation. The method is showcased by more accurate detection and segmentation of lung and liver cancer tumors as compared with the current state-of-the-art. The proposed formalism opens new opportunities for numerous practical applications such as disease diagnosis, treatment planning, and prognosis.