Deep Transformers for Fast Small Intestine Grounding in Capsule Endoscope Video
School of Data and Computer Science, Sun Yat-Sen University, Guangzhou, China（中国广州中山大学数据科学与计算机学院）；The Sixth Affiliated Hospital, Sun Yat-sen University, Guangzhou, China（中国广州中山大学附属第六医院）
Capsule endoscopy is an evolutional technique for examining and diagnosing intractable gastrointestinal diseases. Because of the huge amount of data, analyzing capsule endoscope videos is very time-consuming and labor-intensive for gastrointestinal medicalists. The development of intelligent long video analysis algorithms for regional positioning and analysis of capsule endoscopic video is therefore essential to reduce the workload of clinicians and assist in improving the accuracy of disease diagnosis. In this paper, we propose a deep model to ground shooting range of small intestine from a capsule endoscope video which has duration of tens of hours. This is the first attempt to attack the small intestine grounding task using deep neural network method. We model the task as a 3-way classification problem, in which every video frame is categorized into esophagus/stomach, small intestine or colorectum. To explore long-range temporal dependency, a transformer module is built to fuse features of multiple neighboring frames. Based on the classification model, we devise an efficient search algorithm to efficiently locate the starting and ending shooting boundaries of the small intestine. Without searching the small intestine exhaustively in the full video, our method is implemented via iteratively separating the video segment along the direction to the target boundary in the middle. We collect 113 videos from a local hospital to validate our method. In the 5-fold cross validation, the average IoU between the small intestine segments located by our method and the ground-truths annotated by broad-certificated gastroenterologists reaches 0.945.
University of Coimbra（科英布拉大学）；CHUC（科英布拉大学医院中心）；The University of Texas at Austin（得克萨斯大学奥斯汀分校）；KTH Royal Institute of Technology（瑞典皇家理工学院）
Wireless Capsule Endoscope (WCE) is an innovative imaging device that permits physicians to examine all the areas of the Gastrointestinal (GI) tract. It is especially important for the small intestine, where traditional invasive endoscopies cannot reach. Although WCE represents an extremely important advance in medical imaging, a major drawback that remains unsolved is the WCE precise location in the human body during its operating time. This is mainly due to the complex physiological environment and the inherent capsule effects during its movement. When an abnormality is detected, in the WCE …
Magnetically controlled capsule endoscope (MCCE) is an emerging tool for the diagnosis of gastric diseases with the advantages of comfort, safety, and no anesthesia. In this paper, we develop algorithms to detect and measure human gastric peristalsis (contraction wave) using video sequences acquired by MCCE. We develop a spatial-temporal deep learning algorithm to detect gastric contraction waves and measure human gastric peristalsis periods. The quality of MCCE video sequences is prone to camera motion. We design a camera motion detector (CMD) to process the MCCE video sequences, mitigating t…
Max Planck Institute for Intelligent Systems（马克斯·普朗克智能系统研究所）；Computer Vision Laboratory, ETH Zurich（苏黎世联邦理工学院计算机视觉实验室）；University of Coimbra（科英布拉大学）
In the gastrointestinal (GI) tract endoscopy field, ingestible wireless capsule endoscopy is considered as a minimally invasive novel diagnostic technology to inspect the entire GI tract and to diagnose various diseases and pathologies. Since the development of this technology, medical device companies and many groups have made significant progress to turn such passive capsule endoscopes into robotic active capsule endoscopes to achieve almost all functions of current active flexible endoscopes. However, the use of robotic capsule endoscopy still has some challenges. One such challenge is the …
In the gastrointestinal (GI) tract endoscopy field, ingestible wireless capsule endoscopy is emerging as a novel, minimally invasive diagnostic technology for inspection of the GI tract and diagnosis of a wide range of diseases and pathologies. Since the development of this technology, medical device companies and many research groups have made substantial progress in converting passive capsule endoscopes to robotic active capsule endoscopes with most of the functionality of current active flexible endoscopes. However, robotic capsule endoscopy still has some challenges. In particular, the use…
Max Planck Institute for Intelligent Systems（马克斯·普朗克智能系统研究所）；ETH Zurich（苏黎世联邦理工学院）；Middle East Technical University（中东技术大学）；Sabanci University（萨班哲大学）；University of Coimbra（科英布拉大学）
Since the development of capsule endoscopcy technology, substantial progress were made in converting passive capsule endoscopes to robotic active capsule endoscopes which can be controlled by the doctor. However, robotic capsule endoscopy still has some challenges. In particular, the use of such devices to generate a precise and globally consistent three-dimensional (3D) map of the entire inner organ remains an unsolved problem. Such global 3D maps of inner organs would help doctors to detect the location and size of diseased areas more accurately, precisely, and intuitively, thus permitting m…
Seeing More with Less: Video Capsule Endoscopy with Multi-Task Learning
Department of Computer Science, University of Tübingen, Tübingen, Germany（图宾根大学计算机科学系）；Else Kröner Fresenius Center for Digital Health, TU Dresden, Dresden, Germany（德累斯顿技术大学数字健康研究中心）；Department of Medicine I, University Hospital Dresden, TU Dresden, Dresden, Germany（德累斯顿大学医院第一医学系）
Bogazici University（博阿齐奇大学）；University of Oxford（牛津大学）；Brigham and Women’s Hospital（布莱根妇女医院）；Harvard Medical School（哈佛医学院）；Dana Farber Cancer Institute（丹娜-法伯癌症研究所）；Broad Institute of Harvard and MIT（哈佛-麻省理工学院布罗德研究所）；Johns Hopkins University（约翰斯·霍普金斯大学）；Louisiana State University（路易斯安那州立大学）
Current capsule endoscopes and next-generation robotic capsules for diagnosis and treatment of gastrointestinal diseases are complex cyber-physical platforms that must orchestrate complex software and hardware functions. The desired tasks for these systems include visual localization, depth estimation, 3D mapping, disease detection and segmentation, automated navigation, active control, path realization and optional therapeutic modules such as targeted drug delivery and biopsy sampling. Data-driven algorithms promise to enable many advanced functionalities for capsule endoscopes, but real-worl…
Small intestinal capsule endoscopy is the mainstream method for inspecting small intestinal lesions,but a single small intestinal capsule endoscopy will produce 60,000 - 120,000 images, the majority of which are similar and have no diagnostic value. It takes 2 - 3 hours for doctors to identify lesions from these images. This is time-consuming and increase the probability of misdiagnosis and missed diagnosis since doctors are likely to experience visual fatigue while focusing on a large number of similar images for an extended period of time.In order to solve these problems, we proposed a simil…
Max Planck Institute for Intelligent Systems（马克斯·普朗克智能系统研究所）；ETH Zurich（苏黎世联邦理工学院）；Universidade de Coimbra（科英布拉大学）
Ingestible wireless capsule endoscopy is an emerging minimally invasive diagnostic technology for inspection of the GI tract and diagnosis of a wide range of diseases and pathologies. Medical device companies and many research groups have recently made substantial progresses in converting passive capsule endoscopes to active capsule robots, enabling more accurate, precise, and intuitive detection of the location and size of the diseased areas. Since a reliable real time pose estimation functionality is crucial for actively controlled endoscopic capsule robots, in this study, we propose a monoc…
Universitat de Barcelona（巴塞罗那大学）；Computer Vision Center (CVC)（计算机视觉中心）；Medtronic GI（美敦力胃肠部门）；Hospital Vall d’Hebron（巴尔德希伯伦医院）
The interpretation and analysis of the wireless capsule endoscopy recording is a complex task which requires sophisticated computer aided decision (CAD) systems in order to help physicians with the video screening and, finally, with the diagnosis. Most of the CAD systems in the capsule endoscopy share a common system design, but use very different image and video representations. As a result, each time a new clinical application of WCE appears, new CAD system has to be designed from scratch. This characteristic makes the design of new CAD systems a very time consuming. Therefore, in this paper…
Capsule Endoscopy Image Enhancement for Small Intestinal Villi Clarity
School of Artificial Intelligence and Computer Science, Jiangnan University（江南大学人工智能与计算机学院）；Engineering Research Center of Intelligent Technology for Healthcare, Ministry of Education（教育部智慧医疗技术工程研究中心）；School of C（C学院）
The University of Texas at Austin（德克萨斯大学奥斯汀分校）；University of Coimbra（科英布拉大学）；University Hospital of Coimbra（科英布拉大学医院）
Colorectal polyps are important precursors to colon cancer, a major health problem. Colon capsule endoscopy (CCE) is a safe and minimally invasive examination procedure, in which the images of the intestine are obtained via digital cameras on board of a small capsule ingested by a patient. The video sequence is then analyzed for the presence of polyps. We propose an algorithm that relieves the labor of a human operator analyzing the frames in the video sequence. The algorithm acts as a binary classifier, which labels the frame as either containing polyps or not, based on the geometrical analys…
Exploring Self-Supervised Learning with U-Net Masked Autoencoders and EfficientNet-B7 for Improved Gastrointestinal Abnormality Classification in Video Capsule Endoscopy
International Institute of Information Technology, Bangalore（国际信息技术学院，班加罗尔）；Indian Institute of Technology, Hyderabad（印度理工学院，海得拉巴）
Enhanced Anomaly Detection for Capsule Endoscopy Using Ensemble Learning Strategies
Department of Computer Science, University of Tübingen（图宾根大学计算机科学系）；Seminar of Applied Mathematics, ETH Zürich（苏黎世联邦理工学院应用数学研讨班）；Else Kröner Fresenius Center for Digital Health, TU Dresden（德累斯顿技术大学数字健康研究中心）；Department of Medicine I, University Hospital Dresden, TU Dresden（德累斯顿大学医院第一医学部，德累斯顿技术大学）
Institute of Biomedical Engineering, Bogazici University（波加兹奇大学生物医学工程研究所）；Computer Science Department, University of Oxford（牛津大学计算机科学系）；Brigham and Women’s Hospital, Harvard Medical School（哈佛医学院布莱根妇女医院）；Cancer Data Science, Dana Farber Cancer Institute（丹娜-法伯癌症研究所癌症数据科学部）；Cancer Program, Broad Institute of Harvard and MIT（哈佛-麻省理工学院布罗德研究所癌症项目）；Institute for Systems and Robotics, University of Coimbra（科英布拉大学系统与机器人研究所）；Faculty of Medicine, Clinical Academic Center of Coimbra, University of Coimbra（科英布拉大学科英布拉临床学术中心医学院）；Department of Biomedical Engineering, Johns Hopkins University（约翰霍普金斯大学生物医学工程系）
Deep learning techniques hold promise to develop dense topography reconstruction and pose estimation methods for endoscopic videos. However, currently available datasets do not support effective quantitative benchmarking. In this paper, we introduce a comprehensive endoscopic SLAM dataset consisting of 3D point cloud data for six porcine organs, capsule and standard endoscopy recordings as well as synthetically generated data. A Panda robotic arm, two commercially available capsule endoscopes, two conventional endoscopes with different camera properties, and two high precision 3D scanners were…
SimulaMet；UiT The Arctic University of Norway（挪威北极大学）；Oslo Metropolitan University（奥斯陆城市大学）；Institute of Biomedical Engineering, University of Oxford（牛津大学生物医学工程研究所）；Bærum Hospital（贝鲁姆医院）；Augere Medical AS（Augere Medical 公司）；Sahlgrenska University Hospital-Mölndal Hospital（萨尔格伦斯卡大学医院-默恩达尔医院）；Sahlgrenska Academy, University of Gothenburg（哥德堡大学萨尔格伦斯卡学院）
Deep learning in gastrointestinal endoscopy can assist to improve clinical performance and be helpful to assess lesions more accurately. To this extent, semantic segmentation methods that can perform automated real-time delineation of a region-of-interest, e.g., boundary identification of cancer or precancerous lesions, can benefit both diagnosis and interventions. However, accurate and real-time segmentation of endoscopic images is extremely challenging due to its high operator dependence and high-definition image quality. To utilize automated methods in clinical settings, it is crucial to de…
South Central University for Nationalities（中南民族大学）；Nanjing Eastern Theater General Hospital（南京东部战区总医院）
Wireless Capsule Endoscopy(WCE) has been widely used for the screening of gastrointestinal(GI) diseases, especially the small intestine, due to its advantages of non-invasive and painless imaging of the entire digestive tract.However, the huge amount of image data captured by WCE makes manual reading a process that requires a huge amount of tasks and can easily lead to missed detection and false detection of lesions.Therefore, In this paper, we propose a \textbf{T}wo-stage \textbf{M}ulti-scale \textbf{F}eature-fusion learning network(\textbf{TMFNet}) to automatically detect small intestinal po…
