Though analysis of Medical Images by Deep Learning achieves unprecedented results across various applications, the effect of \emph{noisy training annotations} is rarely studied in a systematic manner. In Medical Image Analysis, most reports addressing this question concentrate on studying segmentation performance of deep learning classifiers. The absence of continuous ground truth annotations in these studies limits the value of conclusions for applications, where regression is the primary method of choice. In the application of surgical instrument pose estimation, where precision has a direct clinical impact on patient outcome, studying the effect of \emph{noisy annotations} on deep learning pose estimation techniques is of supreme importance. Real x-ray images are inadequate for this evaluation due to the unavailability of ground truth annotations. We circumvent this problem by generating synthetic radiographs, where the ground truth pose is known and therefore the pose estimation error made by the medical-expert can be estimated from experiments. Furthermore, this study shows the property of deep neural networks to learn dominant signals from noisy annotations with sufficient data in a regression setting.
Surgical tool segmentation in endoscopic images is an important problem: it is a crucial step towards full instrument pose estimation and it is used for integration of pre- and intra-operative images into the endoscopic view. While many recent approaches based on convolutional neural networks have shown great results, a key barrier to progress lies in the acquisition of a large number of manually-annotated images which is necessary for an algorithm to generalize and work well in diverse surgical scenarios. Unlike the surgical image data itself, annotations are difficult to acquire and may be o…
WaveFuse-AL: Cyclical and Performance-Adaptive Multi-Strategy Active Learning for Medical Images
Department of Computer Science \& Engineering, Indian Institute of Technology Ropar, India Department of Biomedical Engineering, Indian Institute of Technology Ropar, India
Producing manual, pixel-accurate, image segmentation labels is tedious and time-consuming. This is often a rate-limiting factor when large amounts of labeled images are required, such as for training deep convolutional networks for instrument-background segmentation in surgical scenes. No large datasets comparable to industry standards in the computer vision community are available for this task. To circumvent this problem, we propose to automate the creation of a realistic training dataset by exploiting techniques stemming from special effects and harnessing them to target training performanc…
The Chinese University of Hong Kong（香港中文大学）；Imperial College London（帝国理工学院）；National University of Singapore（新加坡国立大学）；Shun Hing Institute of Advanced Engineering（信兴高等工程研究所）
Data diversity and volume are crucial to the success of training deep learning models, while in the medical imaging field, the difficulty and cost of data collection and annotation are especially huge. Specifically in robotic surgery, data scarcity and imbalance have heavily affected the model accuracy and limited the design and deployment of deep learning-based surgical applications such as surgical instrument segmentation. Considering this, we rethink the surgical instrument segmentation task and propose a one-to-many data generation solution that gets rid of the complicated and expensive pr…
Digital Surgery Ltd, Medtronic（美敦力数字外科有限公司）；ICube, University of Strasbourg, CNRS, IHU Strasbourg（斯特拉斯堡大学ICube实验室、法国国家科学研究中心、斯特拉斯堡大学医院）；Institute of Automation, Chinese Academy of Sciences（中国科学院自动化研究所）；Hutom（Hutom公司）；Xiamen University（厦门大学）；University of Electronic Science and Technology of China（电子科技大学）；National University of Singapore（新加坡国立大学）；National Institute of Technology, Raipur（赖布尔国家理工学院）；King’s College London（伦敦国王学院）；University College London（伦敦大学学院）
Surgical scene segmentation is essential for anatomy and instrument localization which can be further used to assess tissue-instrument interactions during a surgical procedure. In 2017, the Challenge on Automatic Tool Annotation for cataRACT Surgery (CATARACTS) released 50 cataract surgery videos accompanied by instrument usage annotations. These annotations included frame-level instrument presence information. In 2020, we released pixel-wise semantic annotations for anatomy and instruments for 4670 images sampled from 25 videos of the CATARACTS training set. The 2020 CATARACTS Semantic Segmen…
Intuitive Surgical Inc.（直觉外科公司）；Massachusetts Institute of Technology（麻省理工学院）；University of Bern（伯尔尼大学）；University of Alberta（阿尔伯塔大学）；Georgia Institute of Technology（佐治亚理工学院）；University of Washington（华盛顿大学）；NVIDIA GmbH.（英伟达有限公司）；National Center for Tumor Diseases (NCT)（国家肿瘤疾病中心）；Wellcome/EPSRC Centre for Interventional and Surgical Sciences (WEISS) UCL（伦敦大学学院韦尔科姆/工程和物理科学研究委员会介入与外科科学中心）；Lyft Inc.（来福车公司）；Shenzhen Institute of Advanced Technology（深圳先进技术研究院）；Beijing Institute of Technology（北京理工大学）；Technical University of Munich（慕尼黑工业大学）；German Cancer Research Center（德国癌症研究中心）；Kings College London（伦敦国王学院）
In mainstream computer vision and machine learning, public datasets such as ImageNet, COCO and KITTI have helped drive enormous improvements by enabling researchers to understand the strengths and limitations of different algorithms via performance comparison. However, this type of approach has had limited translation to problems in robotic assisted surgery as this field has never established the same level of common datasets and benchmarking methods. In 2015 a sub-challenge was introduced at the EndoVis workshop where a set of robotic images were provided with automatically generated annotati…
Zuse Institute Berlin (ZIB)（柏林祖斯研究所）；TU Darmstadt（达姆施塔特工业大学）
Purpose: Segmentation of surgical instruments in endoscopic videos is essential for automated surgical scene understanding and process modeling. However, relying on fully supervised deep learning for this task is challenging because manual annotation occupies valuable time of the clinical experts. Methods: We introduce a teacher-student learning approach that learns jointly from annotated simulation data and unlabeled real data to tackle the erroneous learning problem of the current consistency-based unsupervised domain adaptation framework. Results: Empirical results on three datasets highlig…
Good Scores, Bad Data: A Metric for Multimodal Coherence
AI Architect（人工智能架构师）；Author, Data Engineering for Multimodal AI (O’Reilly)（多模态AI数据工程作者（O’Reilly））；Stanford School of Engineering, Graduate Certificate (in progress)（斯坦福工程学院，研究生证书（在读））
Eindhoven University of Technology（埃因霍温理工大学）；Shandong University of Science and Technology（山东科技大学）；Catharina Hospital（凯瑟琳娜医院）；Philips Research（飞利浦研究院）
Medical instrument segmentation in 3D ultrasound is essential for image-guided intervention. However, to train a successful deep neural network for instrument segmentation, a large number of labeled images are required, which is expensive and time-consuming to obtain. In this article, we propose a semi-supervised learning (SSL) framework for instrument segmentation in 3D US, which requires much less annotation effort than the existing methods. To achieve the SSL learning, a Dual-UNet is proposed to segment the instrument. The Dual-UNet leverages unlabeled data using a novel hybrid loss functio…
German Cancer Research Center (DKFZ)（德国癌症研究中心）；Heidelberg University（海德堡大学）；University of Calabria（卡拉布里亚大学）；Scuola Superiore Sant’Anna（圣安娜高等科学院）；Heidelberg University Hospital（海德堡大学医院）
Challenges have become the state-of-the-art approach to benchmark image analysis algorithms in a comparative manner. While the validation on identical data sets was a great step forward, results analysis is often restricted to pure ranking tables, leaving relevant questions unanswered. Specifically, little effort has been put into the systematic investigation on what characterizes images in which state-of-the-art algorithms fail. To address this gap in the literature, we (1) present a statistical framework for learning from challenges and (2) instantiate it for the specific task of instrument …
In interventional radiology, short video sequences of vein structure in motion are captured in order to help medical personnel identify vascular issues or plan intervention. Semantic segmentation can greatly improve the usefulness of these videos by indicating exact position of vessels and instruments, thus reducing the ambiguity. We propose a real-time segmentation method for these tasks, based on U-Net network trained in a Siamese architecture from automatically generated annotations. We make use of noisy low level binary segmentation and optical flow to generate multi class annotations that…
LivePyxel: Accelerating image annotations with a Python-integrated webcam live streaming
Department of Chemistry and Chemical Biology, McMaster University（化学与生物化学系，麦斯特大学）；School of Computational Science and Engineering, McMaster University（计算科学与工程学院，麦斯特大学）；Brockhouse Institute for Materials Research, McMaster University（材料研究布鲁克斯研究所，麦斯特大学）
Balgrist University Hospital, University of Zurich（苏黎世大学巴尔格利斯特大学医院）；ETH Zurich（苏黎世联邦理工学院）；OR-X Translational Center for Surgery, Balgrist University Hospital, University of Zurich（苏黎世大学巴尔格利斯特大学医院OR-X外科转化中心）；Technical University Munich（慕尼黑工业大学）
Cataract-LMM Large-Scale Multi-Source Multi-Task Benchmark for Deep Learning in Surgical Video Analysis
Applied Robotics and AI Solutions (ARAS)（应用机器人与人工智能解决方案）；Faculties of Electrical and Computer Engineering（电气与计算机工程学院）；K.N. Toosi University of Technology（卡里姆·纳尼·托西技术大学）；Translational Ophthalmology Research Center（转化眼科研究中心）；Farabi Eye Hospital（法拉比眼科医院）；Tehran University of Medical Sciences（德黑兰医科大学）；Noor Ophthalmology Research Center（努尔眼科研究中心）；University of Alberta（阿尔伯塔大学）；Departments of Electrical and Computer Engineering & Biomedical Engineering（电气与计算机工程及生物医学工程系）
German Cancer Research Center (DKFZ)（德国癌症研究中心）；Heidelberg University Hospital（海德堡大学医院）；University of Heidelberg（海德堡大学）；National Center for Tumor Diseases, Partner Site Dresden（国家肿瘤疾病中心德累斯顿分中心）；HIDSS4Health – Helmholtz Information and Data Science School for Health（亥姆霍兹健康信息与数据科学学院）；University of Calabria（卡拉布里亚大学）；understandAI GmbH（understandAI 有限公司）；University of Tübingen（蒂宾根大学）；BMW Group（宝马集团）；KARL STORZ SE & Co. KG（卡尔史托斯公司）；TU Dresden（德累斯顿工业大学）
Image-based tracking of medical instruments is an integral part of surgical data science applications. Previous research has addressed the tasks of detecting, segmenting and tracking medical instruments based on laparoscopic video data. However, the proposed methods still tend to fail when applied to challenging images and do not generalize well to data they have not been trained on. This paper introduces the Heidelberg Colorectal (HeiCo) data set - the first publicly available data set enabling comprehensive benchmarking of medical instrument detection and segmentation algorithms with a speci…
University of North Carolina at Chapel Hill（北卡罗来纳大学教堂山分校）；Korea University（高丽大学）
In this paper, we introduce an image quality assessment (IQA) method for pediatric T1- and T2-weighted MR images. IQA is first performed slice-wise using a nonlocal residual neural network (NR-Net) and then volume-wise by agglomerating the slice QA results using random forest. Our method requires only a small amount of quality-annotated images for training and is designed to be robust to annotation noise that might occur due to rater errors and the inevitable mix of good and bad slices in an image volume. Using a small set of quality-assessed images, we pre-train NR-Net to annotate each image …
Generalizing Surgical Instruments Segmentation to Unseen Domains with One-to-Many Synthesis
Shun Hing Institute of Advanced Engineering（顺兴高等研究院）；CUHK（香港中文大学）；Wellcome / EPSRC Centre for Interventional and Surgical Sciences（惠康/英国工程与自然科学研究委员会介入与外科科学中心）；UCL（伦敦大学学院）；NUS（新加坡国立大学）
ICube, University of Strasbourg（斯特拉斯堡大学ICube研究所）；CNRS（法国国家科学研究中心）；IHU Strasbourg（斯特拉斯堡大学医院研究所）；Politecnico di Milano（米兰理工大学）
3-D pose estimation of instruments is a crucial step towards automatic scene understanding in robotic minimally invasive surgery. Although robotic systems can potentially directly provide joint values, this information is not commonly exploited inside the operating room, due to its possible unreliability, limited access and the time-consuming calibration required, especially for continuum robots. For this reason, standard approaches for 3-D pose estimation involve the use of external tracking systems. Recently, image-based methods have emerged as promising, non-invasive alternatives. While man…
Due to the expensive and time-consuming annotations (e.g., segmentation) for real-world images, recent works in computer vision resort to synthetic data. However, the performance on the real image often drops significantly because of the domain shift between the synthetic data and the real images. In this setting, domain adaptation brings an appealing option. The effective approaches of domain adaptation shape the representations that (1) are discriminative for the main task and (2) have good generalization capability for domain shift. To this end, we propose a novel loss function, i.e., Conse…
SegMatch: A semi-supervised learning method for surgical instrument segmentation
School of Biomedical Engineering & Imaging Sciences, King’s College London（生物医学工程与影像科学学院，伦敦国王学院）；Harvard Medical School, Harvard University（哈佛医学院，哈佛大学）；College of Electronic and Information Engineering, Tongji University（同济大学电子与信息工程学院）
Datasets in the computer vision academic research community are primarily static. Once a dataset is accepted as a benchmark for a computer vision task, researchers working on this task will not alter it in order to make their results reproducible. At the same time, when exploring new tasks and new applications, datasets tend to be an ever changing entity. A practitioner may combine existing public datasets, filter images or objects in them, change annotations or add new ones to fit a task at hand, visualize sample images, or perhaps output statistics in the form of text or plots. In fact, data…
RBAD: A Dataset and Benchmark for Retinal Vessels Branching Angle Detection
School of Computing and Augmented Intelligence, Arizona State University（亚利桑那州立大学计算与增强智能学院）；Mayo Clinic（梅奥诊所）；School of Computing, Clemson University（克莱姆森大学计算学院）；Department of Electrical and Computer Engineering, Stevens Institute of Technology（史蒂文斯理工学院电气与计算机工程系）
