Automated risk classification of colon biopsies based on semantic segmentation of histopathology images
Radboud University Medical Center（拉德堡德大学医学中心）；Ospedale Cannizzaro（坎尼扎罗医院）；Leids Universitair Medisch Centrum（莱顿大学医学中心）；University of Bayreuth（拜罗伊特大学）；Linköping University（林雪平大学）
John-Melle Bokhorst, Iris D. Nagtegaal, Filippo Fraggetta, Simona Vatrano, Wilma Mesker, Michael Vieth, Jeroen van der Laak, Francesco Ciompi
Artificial Intelligence (AI) can potentially support histopathologists in the diagnosis of a broad spectrum of cancer types. In colorectal cancer (CRC), AI can alleviate the laborious task of characterization and reporting on resected biopsies, including polyps, the numbers of which are increasing as a result of CRC population screening programs, ongoing in many countries all around the globe. Here, we present an approach to address two major challenges in automated assessment of CRC histopathology whole-slide images. First, we present an AI-based method to segment multiple tissue compartments in the H\&E-stained whole-slide image, which provides a different, more perceptible picture of tissue morphology and composition. We test and compare a panel of state-of-the-art loss functions available for segmentation models, and provide indications about their use in histopathology image segmentation, based on the analysis of a) a multi-centric cohort of CRC cases from five medical centers in the Netherlands and Germany, and b) two publicly available datasets on segmentation in CRC. Second, we use the best performing AI model as the basis for a computer-aided diagnosis system (CAD) that classifies colon biopsies into four main categories that are relevant pathologically. We report the performance of this system on an independent cohort of more than 1,000 patients. The results show the potential of such an AI-based system to assist pathologists in diagnosis of CRC in the context of population screening. We have made the segmentation model available for research use on https://grand-challenge.org/algorithms/colon-tissue-segmentation/.
NanoNet: Real-Time Polyp Segmentation in Video Capsule Endoscopy and Colonoscopy
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）
Interpretable histopathology-based prediction of disease relevant features in Inflammatory Bowel Disease biopsies using weakly-supervised deep learning
Semantic Segmentation of Colon Glands with Deep Convolutional Neural Networks and Total Variation Segmentation
Institute of Biophysics, Center for Physiological Medicine, Medical University of Graz（格拉茨医科大学医学生物物理研究所）；Institute of Neuroinformatics, University of Zurich and ETH Zurich（苏黎世大学与苏黎世联邦理工学院神经信息学研究所）；Institute for Computer Graphics and Vision, Graz University of Technology（格拉茨技术大学计算机图形与视觉研究所）；Ludwig Boltzmann Institute for Clinical Forensic Imaging（路德维希·玻尔兹曼临床法医影像研究所）；BioTechMed-Graz（格拉茨生物技术医学联盟）
MILD-Net: Minimal Information Loss Dilated Network for Gland Instance Segmentation in Colon Histology Images
University of Warwick（华威大学）；The Chinese University of Hong Kong（香港中文大学）；University Hospitals Coventry and Warwickshire（考文垂与华威大学医院）；The Alan Turing Institute（艾伦·图灵研究所）
Photon Absorption Remote Sensing Virtual Histopathology: A Preliminary Exploration of Diagnostic Equivalence to Gold-Standard H&E Staining in Skin Cancer Excisional Biopsies
University of Waterloo（滑铁卢大学）；University of Calgary（卡尔加里大学）；University of Toronto（多伦多大学）；Indiana University School of Medicine（印第安纳大学医学院）；SkinMD LLC（SkinMD有限责任公司）；University of Alberta（阿尔伯塔大学）；illumiSonics Inc（illumiSonics公司）
Efficient Self-Supervised Barlow Twins from Limited Tissue Slide Cohorts for Colonic Pathology Diagnostics
University of Concordia（康考迪亚大学）；University of Montreal（蒙特利尔大学）；Sunnybrook Health Science Centre（桑尼布鲁克健康科学中心）；Kingston General Hospital（金斯顿总医院）；Mila–Quebec Artificial Intelligence Institute（米拉-魁北克人工智能研究所）
Between Generating Noise and Generating Images: Noise in the Correct Frequency Improves the Quality of Synthetic Histopathology Images for Digital Pathology
Technion - IIT（以色列理工学院）；Rambam Health Care Campus（兰巴姆医疗中心）
Primary Tumor and Inter-Organ Augmentations for Supervised Lymph Node Colon Adenocarcinoma Metastasis Detection
Department of Science and Technology, Linkoping University（林雪平大学科技学院）；Sectra AB（Sectra公司）；Center for Medical Image Science and Visualization, Linkoping University（林雪平大学医学影像科学与可视化中心）
Staining normalization in histopathology: Method benchmarking using multicenter dataset
University of Turku, Institute of Biomedicine（图尔库大学生物医学研究所）；Department of Pathology, Hospital Nova of Central Finland（中央芬兰医院病理科部）；University of Eastern Finland, Institute of Biomedicine（东部芬兰大学生物医学研究所）；Tampere University, Faculty of Medicine and Health Technology（塔皮奥拉大学医学与健康技术学院）；InFlames Research Flagship, University of Turku（InFlames研究旗舰，图尔库大学）
ADPv2: A Hierarchical Histological Tissue Type-Annotated Dataset for Potential Biomarker Discovery of Colorectal Disease
Department of Computer Science \& Software Engineering, Concordia University, 2155 Guy St, Montreal, QC H3H 2L9, Canada；Department of Electrical \& Computer Engineering, University of Toronto, 10 King's College Rd, Toronto, ON M5S 3G8, Canada；Department of Chemistry \& Biology, Toronto Metropolitan University, 350 Victoria St. Toronto, ON M5B 2K3, Canada；Department of Medicine, Université de Montréal, Pavillon Roger-Gaudry, 2900 Edouard Montpetit Blvd, Montreal, QC H3T 1J4, Canada；Axe Cancer, Centre de recherche du CHUM, 900 Saint-Denis St, Montréal, QC H2X 0A9, Canada；Anatomic Pathology, Sunnybrook Health Sciences Centre, 2075 Bayview Ave, Toronto, ON M4N 3M5, Canada；Department of Laboratory Medicine \& Pathobiology, University of Toronto, Simcoe Hall, 1 King's College Circle, Toronto, ON M5S 3K3, Canada；Department of Pathology \& Molecular Medicine, Queen’s University, 88 Stuart Street Queen's University Kingston, ON K7L 3N6 Canada；Department of Pathology \& Molecular Medicine, Université de Montréal, 2900 Édouard-Montpetit Blvd, Montréal, QC H3T 1J4, Canada
EBHI:A New Enteroscope Biopsy Histopathological H&E Image Dataset for Image Classification Evaluation
Northeastern University（东北大学）；Cancer Hospital, China Medical University（中国医科大学肿瘤医院）；Liaoning Cancer Hospital and Institute（辽宁省肿瘤医院暨研究所）；University of New South Wales（新南威尔士大学）；Stevens Institute of Technology（史蒂文斯理工学院）；Shengjing Hospital, China Medical University（中国医科大学附属盛京医院）；Liaoning Shihua University（辽宁石油化工大学）；University of Luebeck（吕贝克大学）
Phi-SegNet: Phase-Integrated Supervision for Medical Image Segmentation
mHealth Lab, Department of Biomedical Engineering, Bangladesh University of Engineering and Technology（孟加拉工程与技术大学生物医学工程系mHealth实验室）；Department of Electrical and Computer Engineering, Johns Hopkins University（约翰霍普金斯大学电气与计算机工程系）；Center for Bioengineering Innovation and Design, Department of Biomedical Engineering, Johns Hopkins University（约翰霍普金斯大学生物工程创新与设计中心，生物医学工程系）
A Multicentric Dataset for Training and Benchmarking Breast Cancer Segmentation in H&E Slides
Department of Pathology, Radboud University Medical Center（病理学系，拉德堡德大学医学中心）；Fondazione Bruno Kessler（布鲁诺·凯塞勒基金会）；Department of Cellular, Computational and Integrative Biology, University of Trento（细胞、计算与整合生物学系，特伦托大学）；Biopticka Laboratory Ltd.（Biopticka实验室有限公司）；Department of Pathology, Faculty of Medicine in Pilsen, Charles University（病理学系，皮尔森医学院，查尔斯大学）；University of Washington Medical Center（华盛顿大学医学中心）；Department of Surgical Pathology, Santa Chiara Hospital, APSS（外科病理学系，圣查理医院，APSS）；CISMed - Centre for Medical Sciences, University of Trento（CISMed医学研究中心，特伦托大学）；Pathology Unit, University and Hospital Trust of Verona（病理学部，韦罗纳大学与医院信托）；IRCCS Sacro Cuore Don Calabria Hospital（IRCCS圣心多玛利亚医院）
Label- and slide-free tissue histology using 3D epi-mode quantitative phase imaging and virtual H&E staining
University of California, Davis（加利福尼亚大学戴维斯分校）；Georgia Institute of Technology（佐治亚理工学院）；Emory University（埃默里大学）；Emory University School of Medicine（埃默里大学医学院）；UC Davis Health（加州大学戴维斯分校医疗系统）
Kvasir-Instrument: Diagnostic and therapeutic tool segmentation dataset in gastrointestinal endoscopy
SimulaMet；UIT The Arctic University of Norway（挪威北极大学）；University of Oxford（牛津大学）；Simula Research Laboratory（Simula研究实验室）；Oslo Metropolitan University（奥斯陆城市大学）；Sintef Digital（SINTEF数字研究所）；Augere Medical AS（Augere Medical公司）；Sahlgrenska University Hospital-Mölndal（萨尔格伦斯卡大学医院-默恩达尔）；Bærum Hospital（贝鲁姆医院）；Karolinska University Hospital（卡罗林斯卡大学医院）
