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Medical Artificial Intelligence (MedAI), IEEE International Conference on

作者： Xin Xu Wenjing Lu Jiahao Lei Peng Qiu Hong-Bin Shen Yang Yang Department of Computer Science and Engineering Key Laboratory of Shanghai Education Commission for Intelligent Interaction and Cognitive Engineering Shanghai Jiao Tong University Shanghai China Department of Vascular Surgery Shanghai Ninth People's Hospital Shanghai Jiao Tong University School of Medicine Institute of Image Processing and Pattern Recognition and Key Laboratory of System Control and Information Processing Ministry of Education of China Shanghai Jiao Tong University Shanghai China

Interactive medical image segmentation methods have become increasingly popular in recent years. These methods combine manual labeling and automatic segmentation, reducing the workload of annotation while maintaining high accuracy. However, most current interactive segmentation frameworks are limited to 2D image data, and are not suitable for 3D image data due to the large size and high complexity of 3D data, as well as the challenges posed by information asymmetry and sparse annotation. In this paper, we propose SliceProp, an interactive segmentation framework that implements slice-wise Label Bidirectional Propagation (LBP) for 3D medical image segmentation. SliceProp extends the interactive 2D image segmentation algorithm to 3D image segmentation, and can handle 3D data with large size and high complexity. Moreover, equipped with a Backtracking Feedback Check (BFC) module, SliceProp effectively addresses the issues of information asymmetry and spatial sparse annotation in 3D medical image segmentation. Additionally, we adopt an uncertainty-based criterion to pri-oritize the slices to be refined interactively, which enhances the efficiency of the interaction process by enabling the model to focus on the regions with the most unreliable predictions. SliceProp is evaluated on two datasets and achieves promising results compared to state-of-the-art methods.

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Efficient spatialtemporal context modeling for action recognition?

arXiv

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arXiv 2021年

作者： Cao, Congqi Lu, Yue Zhang, Yifan Jiang, Dongmei Zhang, Yanning Natl. Engineering Laboratory for Integrated Aero-Space-Ground-Ocean Big Data Application Technology Shaanxi Provincial Key Lab on Speech and Image Information Processing School of Computer Science Northwestern Poly-technical University Xi'an710129 China National Laboratory of Pattern Recognition Institute of Automation Chinese Academy of Sciences University of Chinese Academy of Sciences Beijing100190 China

Contextual information plays an important role in action recognition. Local operations have difficulty to model the relation between two elements with a long-distance interval. However, directly modeling the contextual information between any two points brings huge cost in computation and memory, especially for action recognition, where there is an additional temporal dimension. Inspired from 2D criss-cross attention used in segmentation task, we propose a recurrent 3D criss-cross attention (RCCA-3D) module to model the dense long-range spatiotemporal contextual information in video for action recognition. The global context is factorized into sparse relation maps. We model the relationship between points in the same line along the direction of horizon, vertical and depth at each time, which forms a 3D criss-cross structure, and duplicate the same operation with recurrent mechanism to transmit the relation between points in a line to a plane finally to the whole spatiotemporal space. Compared with the non-local method, the proposed RCCA-3D module reduces the number of parameters and FLOPs by 25% and 30% for video context modeling. We evaluate the performance of RCCA-3D with two latest action recognition networks on three datasets and make a thorough analysis of the architecture, obtaining the optimal way to factorize and fuse the relation maps. Comparisons with other state-of-the-art methods demonstrate the effectiveness and efficiency of our model. Copyright © 2021, The Authors. All rights reserved.

关键词： Machine learning

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COVID-MTL: Multitask learning with shift3D and random-weighted loss for automated diagnosis and severity assessment of COVID-19

arXiv

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arXiv 2020年

作者： Bao, Guoqing Chen, Huai Liu, Tongliang Gong, Guanzhong Yin, Yong Wang, Lisheng Wang, Xiuying School of Computer Science The University of Sydney J12/1 Cleveland St Darlington SydneyNSW2008 Australia Department of Automation Institute of Image Processing and Pattern Recognition Shanghai Jiao Tong University Shanghai China Department of Radiation Oncology Shandong Cancer Hospital and Institute Shandong First Medical University Shandong Academy of Medical Sciences Jinan250117 China

There is an urgent need for automated methods to assist accurate and effective assessment of COVID-19. Radiology and nucleic acid test (NAT) are complementary COVID-19 diagnosis methods. In this paper, we present an end-to-end multitask learning (MTL) framework (COVID-MTL) that is capable of automated and simultaneous detection (against both radiology and NAT) and severity assessment of COVID-19. COVID-MTL learns different COVID-19 tasks in parallel through our novel random-weighted loss function, which assigns learning weights under Dirichlet distribution to prevent task dominance;our new 3D real-time augmentation algorithm (Shift3D) introduces space variances for 3D CNN components by shifting low-level feature representations of volumetric inputs in three dimensions;thereby, the MTL framework is able to accelerate convergence and improve joint learning performance compared to single-task models. By only using chest CT scans, COVID-MTL was trained on 930 CT scans and tested on separate 399 cases. COVID-MTL achieved AUCs of 0.939 and 0.846, and accuracies of 90.23% and 79.20% for detection of COVID-19 against radiology and NAT, respectively, which outperformed the state-of-the-art models. Meanwhile, COVID-MTL yielded AUC of 0.800 ± 0.020 and 0.813 ± 0.021 (with transfer learning) for classifying control/suspected, mild/regular, and severe/critically-ill cases. To decipher the recognition mechanism, we also identified high-throughput lung features that were significantly related (P © 2020, CC BY.

关键词： Radiology

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3D RoI-aware U-net for accurate and efficient colorectal tumor segmentation

arXiv

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arXiv 2018年

作者： Huang, Yi-Jie Dou, Qi Wang, Zi-Xian Liu, Li-Zhi Jin, Ying Li, Chao-Feng Wang, Lisheng Chen, Hao Xu, Rui-Hua Institute of Image Processing and Pattern Recognition Department of Automation Shanghai Jiao Tong University China Imsight Medical Technology Co. Ltd. China Department of Computer Science and Engineering The Chinese University of Hong Kong Hong Kong Sun Yat-sen University Cancer Center State Key Laboratory of Oncology in South China Collaborative Innovation Center for Cancer Medicine Guangzhou China

Segmentation of colorectal cancerous regions from 3D Magnetic Resonance (MR) images is a crucial procedure for radiotherapy which conventionally requires accurate delineation of tumour boundaries at an expense of labor, time and reproducibility. While deep learning based methods serve good baselines in 3D image segmentation tasks, small applicable patch size limits effective receptive field and degrades segmentation performance. In addition, Regions of interest (RoIs) localization from large whole volume 3D images serves as a preceding operation that brings about multiple benefits in terms of speed, target completeness, reduction of false positives. Distinct from sliding window or non-joint localization-segmentation based models, we propose a novel multitask framework referred to as 3D RoI-aware U-Net (3D RU-Net), for RoI localization and in-region segmentation where the two tasks share one backbone encoder network. With the region proposals from the encoder, we crop multi-level RoI in-region features from the encoder to form a GPU memory-efficient decoder for detail-preserving segmentation and therefore enlarged applicable volume size and effective receptive field. To effectively train the model, we designed a Dice formulated loss function for the global-to-local multi-task learning procedure. Based on the efficiency gains demonstrated by the proposed method, we went on to ensemble models with different receptive fields to achieve even higher performance costing minor extra computational expensiveness. Extensive experiments were subsequently conducted on 64 cancerous cases with a four-fold cross-validation, and the results showed significant superiority in terms of accuracy and efficiency over conventional state-of-the art frameworks. In conclusion, the proposed method has a huge potential for extension to other 3D object segmentation tasks from medical images due to its inherent generalizability. The code for the proposed method is publicly available. Copyright ©

关键词： Signal encoding

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Sparse generalized canonical correlation analysis: Distributed alternating iteration based approach

arXiv

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arXiv 2020年

作者： Cai, Jia Lv, Kexin Huo, Junyi Huang, Xiaolin Yang, Jie School of Statistics and Mathematics Guangdong University of Finance & Economics Big Data and Educational Statistics Application Laboratory 21 Chisha Road Guangzhou Guangdong510320 China Institute of Image Processing and Pattern Recognition Shanghai Jiao Tong University MOE Key Laboratory of System Control and Information Processing 800 Dongchuan Road Shanghai200240 China School of Electronics and Computer Science University of Southampton University Road SouthamptonSO17 1BJ United Kingdom

Sparse canonical correlation analysis (CCA) is a useful statistical tool to detect latent information with sparse structures. However, sparse CCA works only for two datasets, i.e., there are only two views or two distinct objects. To overcome this limitation, in this paper, we propose a sparse generalized canonical correlation analysis (GCCA), which could detect the latent relations of multiview data with sparse structures. Moreover, the introduced sparsity could be considered as Laplace prior on the canonical variates. Specifically, we convert the GCCA into a linear system of equations and impose 1 minimization penalty for sparsity pursuit. This results in a nonconvex problem on Stiefel manifold, which is difficult to solve. Motivated by Boyd’s consensus problem, an algorithm based on distributed alternating iteration approach is developed and theoretical consistency analysis is investigated elaborately under mild conditions. Experiments on several synthetic and real world datasets demonstrate the effectiveness of the proposed algorithm. Copyright © 2020, The Authors. All rights reserved.

关键词： Statistical mechanics

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image synthesis with adversarial networks: A comprehensive survey and case studies

arXiv

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arXiv 2020年

作者： Shamsolmoali, Pourya Zareapoor, Masoumeh Granger, Eric Zhou, Huiyu Wang, Ruili Emre Celebi, M. Yang, Jie Institute of Image Processing and Pattern Recognition Shanghai Jiao Tong University Shanghai China Laboratoire d’imagerie De vision et d’intelligence artificielle École de technologie supérieure Montreal Canada School of Informatics University of Leicester United Kingdom School of Natural and Computational Sciences Massey University Auckland New Zealand Department of Computer Science University of Central Arkansas United States

Generative Adversarial Networks (GANs) have been extremely successful in various application domains such as computer vision, medicine, and natural language processing. Moreover, transforming an object or person to a desired shape become a well-studied research in the GANs. GANs are powerful models for learning complex distributions to synthesize semantically meaningful samples. However, there is a lack of comprehensive review in this field, especially lack of a collection of GANs loss-variant, evaluation metrics, remedies for diverse image generation, and stable training. Given the current fast GANs development, in this survey, we provide a comprehensive review of adversarial models for image synthesis. We summarize the synthetic image generation methods, and discuss the categories including image-to-image translation, fusion image generation, label-to-image mapping, and text-to-image translation. We organize the literature based on their base models, developed ideas related to architectures, constraints, loss functions, evaluation metrics, and training datasets. We present milestones of adversarial models, review an extensive selection of previous works in various categories, and present insights on the development route from the model-based to data-driven methods. Further, we highlight a range of potential future research directions. One of the unique features of this review is that all software implementations of these GAN methods and datasets have been collected and made available in one place at https://***/pshams55/GAN-CaseStudy. © 2020, CC BY-NC-ND.

关键词： Generative adversarial networks

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Constructing multi-modality and multi-classifier radiomics predictive models through reliable classifier fusion

arXiv

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arXiv 2017年

作者： Zhou, Zhiguo Zhou, Zhi-Jie Hao, Hongxia Li, Shulong Chen, Xi Zhang, You Folkert, Michael Wang, Jing Department of Radiation Oncology UT Southwestern Medical Center DallasTX United States High-Tech Institute of Xi'an Xi'an China Department of Information and Control Engineering Xi'an University of Technology Xi'an China School of Computer Science and Technology Key Laboratory of Intelligent Perception and Image Understanding of Ministry of Education Xidian University Xi'an China School of Biomedical Engineering Southern Medical Unversity Guangzhou China Institute of Image Processing and Pattern Recognition Xi'an Jiaotong Unversity Xi'an China

Radiomics aims to extract and analyze large numbers of quantitative features from medical images and is highly promising in staging, diagnosing, and predicting outcomes of cancer treatments. Nevertheless, several challenges need to be addressed to construct an optimal radiomics predictive model. First, the predictive performance of the model may be reduced when features extracted from an individual imaging modality (e.g. PET, CT, MRI) are blindly combined into a single predictive model. Second, because many different types of classifiers are available to construct a predictive model, selecting an "optimal" classifier for a particular application is still challenging. In this work, we developed multi-modality and multi-classifier radiomics predictive models that address the aforementioned issues in currently available models. Specifically, a new reliable classifier fusion strategy was proposed to optimally combine output from different modalities and classifiers. In this strategy, modality-specific classifiers were first trained, and an analytic evidential reasoning (ER) rule was developed to fuse the output score from each modality to construct an optimal predictive model. One public datasets and two clinical case studies were performed to validate model performance. The experimental results indicated that the proposed ER rule based radiomics models outperformed the traditional models that rely on a single classifier or simply use combined features from different modalities. Copyright © 2017, The Authors. All rights reserved.

关键词： Diagnosis

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CNN-based invertible wavelet scattering for the investigation of diffusion properties of the in vivo human heart in diffusion tensor imaging

arXiv

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arXiv 2019年

作者： Deng, Zeyu Wang, Lihui Kuai, Zixiang Chen, Qijian Cheng, Xinyu Yang, Feng Yang, Jie Zhu, Yuemin Key Laboratory of Intelligent Medical Image Analysis and Precise Diagnosis of Guizhou Province College of Computer Science and Technology Guizhou University Guiyang550025 China Imaging Center Harbin Medical University Cancer Hospital Harbin150081 China School of Computer and Information Technology Beijing Jiaotong University Beijing100044 China Institute of Image Processing and Pattern Recognition Shanghai Jiao Tong University Shanghai200240 China University Lyon INSA Lyon CNRS Inserm IRP Metislab CREATIS UMR5220 U1206 LyonF-69621 France

In vivo diffusion tensor imaging (DTI) is a promising technique to investigate noninvasively the fiber structures of the in vivo human heart. However, signal loss due to motions remains a persistent problem in in vivo cardiac DTI. We propose a novel motion-compensation method for investigating in vivo myocardium structures in DTI with free-breathing acquisitions. The method is based on an invertible Wavelet Scattering achieved by means of Convolutional Neural Network (WSCNN). It consists of first extracting translation-invariant wavelet scattering features from DW images acquired at different trigger delays and then mapping the fused scattering features into motion-compensated spatial DW images by performing an inverse wavelet scattering transform achieved using CNN. The results on both simulated and acquired in vivo cardiac DW images showed that the proposed WSCNN method effectively compensates for motion-induced signal loss and produces in vivo cardiac DW images with better quality and more coherent fiber structures with respect to existing methods, which makes it an interesting method for measuring correctly the diffusion properties of the in vivo human heart in DTI under free breathing. Copyright © 2019, The Authors. All rights reserved.

关键词： Diffusion tensor imaging

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Low dose CT image denoising using a generative adversarial network with wasserstein distance and perceptual loss

arXiv

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arXiv 2017年

作者： Yang, Qingsong Yan, Pingkun Zhang, Yanbo Yu, Hengyong Shi, Yongyi Mou, Xuanqin Kalra, Mannudeep K. Zhang, Yi Sun, Ling Wang, Ge Department of Biomedical Engineering Rensselaer Polytechnic Institute TroyNY12180 United States Department of Electrical and Computer Engineering University of Massachusetts Lowell LowellMA01854 United States Institute of Image Processing and Pattern Recognition Xian Jiaotong University Xian Shaanxi710049 China Department of Radiology Massachusetts General Hospital Harvard Medical School BostonMA United States College of Computer Science Sichuan Universiyt Chengdu610065 China Department of Radiology West China Hospital Sichuan University Chengdu610041 China

The continuous development and extensive use of CT in medical practice has raised a public concern over the associated radiation dose to the patient. Reducing the radiation dose may lead to increased noise and artifacts, which can adversely affect the radiologists judgement and confidence. Hence, advanced image reconstruction from low-dose CT data is needed to improve the diagnostic performance, which is a challenging problem due to its ill-posed nature. Over the past years, various low-dose CT methods have produced impressive results. However, most of the algorithms developed for this application, including the recently popularized deep learning techniques, aim for minimizing the mean-squared-error (MSE) between a denoised CT image and the ground truth under generic penalties. Although the peak signal-to-noise ratio (PSNR) is improved, MSE-or weighted-MSE-based methods can compromise the visibility of important structural details after aggressive denoising. This paper introduces a new CT image denoising method based on the generative adversarial network (GAN) with Wasserstein distance and perceptual similarity. The Wasserstein distance is a key concept of the optimal transport theory, and promises to improve the performance of GAN. The perceptual loss suppresses noise by comparing the perceptual features of a denoised output against those of the ground truth in an established feature space, while the GAN focuses more on migrating the data noise distribution from strong to weak statistically. Therefore, our proposed method transfers our knowledge of visual perception to the image denoising task and is capable of not only reducing the image noise level but also trying to keep the critical information at the same time. Promising results have been obtained in our experiments with clinical CT images. Copyright © 2017, The Authors. All rights reserved.

关键词： image denoising

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Relationship between pulmonary nodule malignancy and surrounding pleurae, airways and vessels: a quantitative study using the public LIDC-IDRI dataset

arXiv

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arXiv 2021年

作者： Qin, Yulei Gu, Yun Zhang, Hanxiao Yang, Jie Wang, Lihui Wang, Zhexin Yao, Feng Zhu, Yue-Min Institute of Image Processing and Pattern Recognition Shanghai Jiao Tong University Shanghai200240 China Institute of Medical Robotics Shanghai Jiao Tong University Shanghai200240 China CREATIS INSA Lyon CNRS UMR 5220 INSERM U1206 Université de Lyon Villeurbanne69621 France Key Laboratory of Intelligent Medical Image Analysis and Precise Diagnosis of Guizhou Province School of Computer Science and Technology Guizhou University Guiyang550025 China Department of Thoracic Surgery Shanghai Chest Hospital Shanghai Jiao Tong University Shanghai200025 China

Objectives: To investigate whether the pleurae, airways and vessels surrounding a nodule on non-contrast computed tomography (CT) can discriminate benign and malignant pulmonary nodules. Materials and Methods: The LIDC-IDRI dataset, one of the largest publicly available CT database, was exploited for study. A total of 1556 nodules from 694 patients were involved in statistical analysis, where nodules with average scorings 3 were respectively denoted as benign and malignant. Besides, 339 nodules from 113 patients with diagnosis ground-truth were independently evaluated. computer algorithms were developed to segment pulmonary structures and quantify the distances to pleural surface, airways and vessels, as well as the counting number and normalized volume of airways and vessels near a nodule. Odds ratio (OR) and Chi-square (χ2) testing were performed to assess the correlation between features of surrounding structures and nodule malignancy. A non-parametric receiver operating characteristic (ROC) analysis was conducted in logistic regression to evaluate discrimination ability of each structure. Results: For the benign and malignant groups, the average distances from nodules to pleural surface, airways and vessels are respectively (6.56, 5.19), (37.08, 26.43) and (1.42, 1.07) mm. The correlation between nodules and the counting number of airways and vessels that contact or project towards nodules are respectively (OR=22.96, χ2=105.04) and (OR=7.06, χ2=290.11). The correlation between nodules and the volume of airways and vessels are (OR=9.19, χ2=159.02) and (OR=2.29, χ2=55.89). The areas-under-curves (AUCs) for pleurae, airways and vessels are respectively 0.5202, 0.6943 and 0.6529. Conclusion: Our results show that malignant nodules are often surrounded by more pulmonary structures compared with benign ones, suggesting that features of these structures could be viewed as lung cancer biomarkers. © 2021, CC BY.

关键词： computerized tomography

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