COVID-19 infection caused by SARS-CoV-2 pathogen is a catastrophic pandemic outbreak all over the world with exponential increasing of confirmed cases and, unfortunately, deaths. In this work we propose an AI-powered pipeline, based on the deep-learning paradigm, for automated COVID-19 detection and lesion categorization from CT scans. We first propose a new segmentation module aimed at identifying automatically lung parenchyma and lobes. Next, we combined such segmentation network with classification networks for COVID-19 identification and lesion categorization. We compare the obtained classification results with those obtained by three expert radiologists on a dataset consisting of 162 CT scans. Results showed a sensitivity of 90\% and a specificity of 93.5% for COVID-19 detection, outperforming those yielded by the expert radiologists, and an average lesion categorization accuracy of over 84%. Results also show that a significant role is played by prior lung and lobe segmentation that allowed us to enhance performance by over 20 percent points. The interpretation of the trained AI models, moreover, reveals that the most significant areas for supporting the decision on COVID-19 identification are consistent with the lesions clinically associated to the virus, i.e., crazy paving, consolidation and ground glass. This means that the artificial models are able to discriminate a positive patient from a negative one (both controls and patients with interstitial pneumonia tested negative to COVID) by evaluating the presence of those lesions into CT scans. Finally, the AI models are integrated into a user-friendly GUI to support AI explainability for radiologists, which is publicly available at http://perceivelab.com/covid-ai.
National Institutes of Health Clinical Center（美国国立卫生研究院临床中心）
Extracting, harvesting and building large-scale annotated radiological image datasets is a greatly important yet challenging problem. It is also the bottleneck to designing more effective data-hungry computing paradigms (e.g., deep learning) for medical image analysis. Yet, vast amounts of clinical annotations (usually associated with disease image findings and marked using arrows, lines, lesion diameters, segmentation, etc.) have been collected over several decades and stored in hospitals' Picture Archiving and Communication Systems. In this paper, we mine and harvest one major type of clinic…
Universidade da Coruña（拉科鲁尼亚大学）；Instituto de Investigación Biomédica de A Coruña (INIBIC)（拉科鲁尼亚生物医学研究所）；Hospital Clínico San Carlos（圣卡洛斯临床医院）；Instituto de Investigación Sanitaria (IdISSC)（圣卡洛斯健康研究所）；Centro Internacional de Oftalmología Avanzada（国际高级眼科中心）
Age-related macular degeneration (AMD) is a degenerative disorder affecting the macula, a key area of the retina for visual acuity. Nowadays, it is the most frequent cause of blindness in developed countries. Although some promising treatments have been developed, their effectiveness is low in advanced stages. This emphasizes the importance of large-scale screening programs. Nevertheless, implementing such programs for AMD is usually unfeasible, since the population at risk is large and the diagnosis is challenging. All this motivates the development of automatic methods. In this sense, severa…
Medical images are widely used in clinical practice for diagnosis. Automatically generating interpretable medical reports can reduce radiologists' burden and facilitate timely care. However, most existing approaches to automatic report generation require sufficient labeled data for training. In addition, the learned model can only generate reports for the training classes, lacking the ability to adapt to previously unseen novel diseases. To this end, we propose a lesion guided explainable few weak-shot medical report generation framework that learns correlation between seen and novel classes t…
TWLR: Text-Guided Weakly-Supervised Lesion Localization and Severity Regression for Explainable Diabetic Retinopathy Grading
Guangdong Provincial Key Laboratory of Interdisciplinary Research and Application for Data Science（广东省级交叉学科研究与数据科学应用重点实验室）；Department of Statistics and Data Science, Beijing Normal-Hong Kong Baptist University（北京师范大学-香港 Baptist大学统计与数据科学系）；Faculty of Science, Hong Kong Baptist University（香港 Baptist大学科学学院）；Data Science Research Center, Duke Kunshan University（杜克-昆山大学数据科学研究中心）；Shanxi Provincial People’s Hospital（山西人民医院）；The Fifth Clinical Medical school of Shanxi Medical University（山西医科大学第五临床医学院）；Research Center for Mathematics, Beijing Normal University（北京师范大学数学研究中心）；Department of Mathematics and Statistics, York University（约克大学数学与统计学系）
VinUniversity（文大大学）；VinBigData JSC（Vin大数据公司）；Vingroup Big Data Institute（Vingroup大数据研究院）；Hanoi Medical University Hospital（河内医科大学附属医院）；Hospital 108（108医院）
Recent artificial intelligence (AI) algorithms have achieved radiologist-level performance on various medical classification tasks. However, only a few studies addressed the localization of abnormal findings from CXR scans, which is essential in explaining the image-level classification to radiologists. We introduce in this paper an explainable deep learning system called VinDr-CXR that can classify a CXR scan into multiple thoracic diseases and, at the same time, localize most types of critical findings on the image. VinDr-CXR was trained on 51,485 CXR scans with radiologist-provided bounding…
University of Electronic Science and Technology of China（电子科技大学）；SenseTime Research（商汤科技研究院）；University Hospitals Leuven（鲁汶大学医院）；King’s College London（伦敦国王学院）；University College London（伦敦大学学院）
Accurate medical image segmentation is essential for diagnosis and treatment planning of diseases. Convolutional Neural Networks (CNNs) have achieved state-of-the-art performance for automatic medical image segmentation. However, they are still challenged by complicated conditions where the segmentation target has large variations of position, shape and scale, and existing CNNs have a poor explainability that limits their application to clinical decisions. In this work, we make extensive use of multiple attentions in a CNN architecture and propose a comprehensive attention-based CNN (CA-Net) f…
Concept-Attention Whitening for Interpretable Skin Lesion Diagnosis
The Hong Kong University of Science and Technology（香港科技大学）；Fudan University（复旦大学）；HKUST Shenzhen-Hong Kong Collaborative Innovation Research Institute（香港科技大学深圳研究院）
Daegu Gyeongbuk Institute of Science & Technology（大邱庆北科学技术院）；Yonsei University College of Medicine（延世大学医学院）
Background and Objective: Incomplete Kawasaki disease (KD) has often been misdiagnosed due to a lack of the clinical manifestations of classic KD. However, it is associated with a markedly higher prevalence of coronary artery lesions. Identifying coronary artery lesions by echocardiography is important for the timely diagnosis of and favorable outcomes in KD. Moreover, similar to KD, coronavirus disease 2019, currently causing a worldwide pandemic, also manifests with fever; therefore, it is crucial at this moment that KD should be distinguished clearly among the febrile diseases in children. …
EXACT: an explainable anomaly-aware vision foundation model for analysis of 3D chest CT
School of Biomedical Engineering, Tsinghua University（清华大学生物医学工程学院）；Department of Radiology, Mianyang Central Hospital（绵阳市中心医院放射科）；Center for Biomedical Imaging Research, Tsinghua University（清华大学生物医学成像研究中心）
An Explainable Non-local Network for COVID-19 Diagnosis
Chengdu University of Information Technology（成都信息工程大学）；Southwest Jiaotong University（西南交通大学）；University at Albany, State University of New York（纽约州立大学奥尔巴尼分校）；Purdue University（普渡大学）；University at Buffalo, SUNY（纽约州立大学布法罗分校）；West China Hospital, Sichuan University（四川大学华西医院）
University of Sydney（悉尼大学）；University of New South Wales（新南威尔士大学）；Sydney Neuroimaging Analysis Centre（悉尼神经影像分析中心）
Multiple sclerosis (MS) is a chronic inflammatory and degenerative disease of the central nervous system, characterized by the appearance of focal lesions in the white and gray matter that topographically correlate with an individual patient's neurological symptoms and signs. Magnetic resonance imaging (MRI) provides detailed in-vivo structural information, permitting the quantification and categorization of MS lesions that critically inform disease management. Traditionally, MS lesions have been manually annotated on 2D MRI slices, a process that is inefficient and prone to inter-/intra-obser…
Boston Children’s Hospital（波士顿儿童医院）；Harvard Medical School（哈佛医学院）；Massachusetts General Hospital（麻省总医院）
Deep convolutional neural networks (CNNs) have been widely used for medical image segmentation. In most studies, only the output layer is exploited to compute the final segmentation results and the hidden representations of the deep learned features have not been well understood. In this paper, we propose a prototype segmentation (ProtoSeg) method to compute a binary segmentation map based on deep features. We measure the segmentation abilities of the features by computing the Dice between the feature segmentation map and ground-truth, named as the segmentation ability score (SA score for shor…
Beihang University（北京航空航天大学）；The University of Melbourne（墨尔本大学）；National Institute of Informatics（国立信息学研究所）；Shanghai Jiao Tong University（上海交通大学）；Chinese Academy of Sciences（中国科学院）
Deep neural networks (DNNs) have become popular for medical image analysis tasks like cancer diagnosis and lesion detection. However, a recent study demonstrates that medical deep learning systems can be compromised by carefully-engineered adversarial examples/attacks with small imperceptible perturbations. This raises safety concerns about the deployment of these systems in clinical settings. In this paper, we provide a deeper understanding of adversarial examples in the context of medical images. We find that medical DNN models can be more vulnerable to adversarial attacks compared to models…
Beihang University（北京航空航天大学）；Peng Cheng Laboratory（鹏城实验室）；RIKEN AIP（理化学研究所人工智能研究中心）；University of Tokyo（东京大学）；Ningbo Institute of Industrial Technology, CAS（中国科学院宁波工业技术研究院）
Though deep learning has shown successful performance in classifying the label and severity stage of certain diseases, most of them give few explanations on how to make predictions. Inspired by Koch's Postulates, the foundation in evidence-based medicine (EBM) to identify the pathogen, we propose to exploit the interpretability of deep learning application in medical diagnosis. By determining and isolating the neuron activation patterns on which diabetic retinopathy (DR) detector relies to make decisions, we demonstrate the direct relation between the isolated neuron activation and lesions for…
University of Haifa（海法大学）；IBM Research（IBM研究院）；Bar-Ilan University（巴伊兰大学）
This study presents a novel deep learning architecture for multi-class classification and localization of abnormalities in medical imaging illustrated through experiments on mammograms. The proposed network combines two learning branches. One branch is for region classification with a newly added normal-region class. Second branch is region detection branch for ranking regions relative to one another. Our method enables detection of abnormalities at full mammogram resolution for both weakly and semi-supervised settings. A novel objective function allows for the incorporation of local annotatio…
Exploiting XAI maps to improve MS lesion segmentation and detection in MRI
University Hospital Basel（巴塞尔大学医院）；University of Basel（巴塞尔大学）；Research Center for Clinical Neuroimmunology and Neuroscience Basel (RC2NB)（巴塞尔临床神经免疫学与神经科学研究中心）；HES-SO Valais-Wallis University of Applied Sciences and Arts Western Switzerland（瑞士西部高等专业学院瓦莱州瓦利斯分校）；CIBM Center for Biomedical Imaging（生物医学成像中心（CIBM））
本文提出从 MS 病灶显著性映射中提取放射组学特征，并训练逻辑回归区分 TP/FP，显著提升 3D U-Net 的 MRI 病灶分割检测性能。
Here Comes the Explanation: A Shapley Perspective on Multi-contrast Medical Image Segmentation
University of Washington（华盛顿大学）；Paul G. Allen School of Computer Science, University of Washington（华盛顿大学保罗·G·艾伦计算机科学学院）；Department of Neurological Surgery, University of Washington（华盛顿大学神经外科（注：此处按要求提取到学院/大学级别，实际原文该机构属于华盛顿大学，故提取为华盛顿大学））
Faculty of Biology and Medicine, University of Lausanne (UNIL)（日内瓦大学生物医学学院）；Radiology Department, Lausanne University Hospital (CHUV)（拉索恩大学医院放射科）；MedGIFT, Institute of Informatics, School of Management, HES--SO Valais--Wallis University of Applied Sciences and Arts Western Switzerland（应用科学与艺术西瓦利斯-瓦利斯大学信息学院）；CIBM Center for Biomedical Imaging（生物医学成像中心）；Department of Radiology and Medical Informatics, University of Geneva（日内瓦大学放射科与医学信息学系）；Translational Imaging in Neurology (ThINK) Basel, Department of Medicine and Biomedical Engineering, University Hospital Basel and University of Basel（神经学转化成像（ThINK）巴塞尔，医学与生物医学工程系，巴塞尔大学医院和巴塞尔大学）；Multiple Sclerosis Center, Department of Neurology, University Hospital Basel（多发性硬化中心，神经科，巴塞尔大学医院）；Research Center for Clinical Neuroimmunology and Neuroscience Basel (RC2NB), University Hospital Basel and University of Basel（临床神经免疫学和神经科学巴塞尔研究中心（RC2NB），巴塞尔大学医院和巴塞尔大学）；Department of Neurology, Icahn School of Medicine at Mount Sinai（伊坎医学院 Mount Sinai 神经科）；Translational Neuroradiology Section, National Institute of Neurological Disorders and Stroke, National Institutes of Health（神经学转化放射学部门，国家神经疾病与中风研究所，国家卫生研究院）；Neuroinflammation Imaging Lab (NIL), Université catholique de Louvain（神经炎症成像实验室（NIL），卢瓦纳大学）；EPFL+ECAL Lab, École polytechnique fédérale de Lausanne (EPFL)（EPFL+ECAL 实验室，日内瓦联邦理工学院（EPFL））
Lung cancer has the highest mortality rate of deadly cancers in the world. Early detection is essential to treatment of lung cancer. However, detection and accurate diagnosis of pulmonary nodules depend heavily on the experiences of radiologists and can be a heavy workload for them. Computer-aided diagnosis (CAD) systems have been developed to assist radiologists in nodule detection and diagnosis, greatly easing the workload while increasing diagnosis accuracy. Recent development of deep learning, greatly improved the performance of CAD systems. However, lack of model reliability and interpret…
Explainable Multimodal Deep Learning Integrating Imaging and Clinical Data for Oral Potentially Malignant Disorder Detection
Wyant College of Optical Sciences, University of Arizona（亚利桑那大学怀恩特光学科学学院）；Beckman Laser Institute & Medical Clinic, University of California Irvine（加州大学尔湾分校贝克曼激光研究所与医学诊所）
Instance-level quantitative saliency in multiple sclerosis lesion segmentation
Translational Imaging in Neurology (ThINk)（神经学转化成像（ThINk））；Department of Medicine and Biomedical Engineering, University Hospital Basel and University of Basel（医学与生物医学工程系，巴塞尔大学医院和巴塞尔大学）；Department of Neurology, University Hospital Basel（神经病学系，巴塞尔大学医院）；Research Center for Clinical Neuroimmunology and Neuroscience Basel (RC2NB)（巴塞尔临床神经免疫学和神经科学研究中心（RC2NB））；MedGIFT, Institute of Informatics, School of Management, HES-SO Valais-Wallis University of Applied Sciences and Arts Western Switzerland（MedGIFT，信息学院，管理学院，瓦莱-迪-瓦尔省应用科学与艺术西方瑞士大学）；CIBM Center for Biomedical Imaging, Lausanne, Switzerland（洛桑瑞士生物医学成像中心）；Radiology Department, Lausanne University Hospital (CHUV) and University of Lausanne（放射科，洛桑大学医院（CHUV）和洛桑大学）
Carnegie Mellon University（卡内基梅隆大学）；Faculty of Engineering of the University of Porto（波尔图大学工程学院）；INESC TEC（葡萄牙国家工程与系统创新研究所科技中心）
Advances in data-driven deep learning for chest X-ray image analysis underscore the need for explainability, privacy, large datasets and significant computational resources. We frame privacy and explainability as a lossy single-image compression problem to reduce both computational and data requirements without training. For Cardiomegaly detection in chest X-ray images, we propose HeartSpot and four spatial bias priors. HeartSpot priors define how to sample pixels based on domain knowledge from medical literature and from machines. HeartSpot privatizes chest X-ray images by discarding up to 97…
Recently, the coronavirus disease 2019 (COVID-19) has caused a pandemic disease in over 200 countries, influencing billions of humans. To control the infection, identifying and separating the infected people is the most crucial step. The main diagnostic tool is the Reverse Transcription Polymerase Chain Reaction (RT-PCR) test. Still, the sensitivity of the RT-PCR test is not high enough to effectively prevent the pandemic. The chest CT scan test provides a valuable complementary tool to the RT-PCR test, and it can identify the patients in the early-stage with high sensitivity. However, the che…
In the light of the COVID-19 pandemic, deep learning methods have been widely investigated in detecting COVID-19 from chest X-rays. However, a more pragmatic approach to applying AI methods to a medical diagnosis is designing a framework that facilitates human-machine interaction and expert decision making. Studies have shown that categorization can play an essential rule in accelerating real-world decision making. Inspired by descriptive document clustering, we propose a domain-independent explanatory clustering framework to group contextually related instances and support radiologists' decis…
Stony Brook University（石溪大学）；Stony Brook University Hospital（石溪大学医院）
Significant work has been done towards deep learning (DL) models for automatic lung and lesion segmentation and classification of COVID-19 on chest CT data. However, comprehensive visualization systems focused on supporting the dual visual+DL diagnosis of COVID-19 are non-existent. We present COVID-view, a visualization application specially tailored for radiologists to diagnose COVID-19 from chest CT data. The system incorporates a complete pipeline of automatic lungs segmentation, localization/ isolation of lung abnormalities, followed by visualization, visual and DL analysis, and measuremen…
German Research Center for Artificial Intelligence（德国人工智能研究中心）；School of Computing, Dublin City University（都柏林城市大学计算学院）；University of California, Berkeley（加利福尼亚大学伯克利分校）；VNUHCM-University of Science（胡志明市国家大学自然科学大学）；Max Planck Institute for Informatics（马克斯·普朗克信息学研究所）；Oldenburg University（奥尔登堡大学）
Until now, Coronavirus SARS-CoV-2 has caused more than 850,000 deaths and infected more than 27 million individuals in over 120 countries. Besides principal polymerase chain reaction (PCR) tests, automatically identifying positive samples based on computed tomography (CT) scans can present a promising option in the early diagnosis of COVID-19. Recently, there have been increasing efforts to utilize deep networks for COVID-19 diagnosis based on CT scans. While these approaches mostly focus on introducing novel architectures, transfer learning techniques, or construction large scale data, we pro…
