Method and System for Image Analysis to Detect Cancer
Faculty of Computers and Information, Helwan University（赫尔万大学计算机与信息学院）；Helwan University（赫尔万大学）；Human Computer Interaction Laboratory (HCI Lab.)（人机交互实验室（HCI Lab.））；TeraData（泰睿数据）；School of Informatics and Computing, Indiana University Bloomington（印第安纳大学伯明顿分校信息与计算学院）；Indiana University Bloomington（印第安纳大学伯明顿分校）；KTH（皇家理工学院）
Waleed A. Yousef, Ahmed A. Abouelkahire, Deyaaeldeen Almahallawi, Omar S. Marzouk, Sameh K. Mohamed, Waleed A. Mustafa, Omar M. Osama, Ali A. Saleh, Naglaa M. Abdelrazek
Breast cancer is the most common cancer and is the leading cause of cancer death among women worldwide. Detection of breast cancer, while it is still small and confined to the breast, provides the best chance of effective treatment. Computer Aided Detection (CAD) systems that detect cancer from mammograms will help in reducing the human errors that lead to missing breast carcinoma. Literature is rich of scientific papers for methods of CAD design, yet with no complete system architecture to deploy those methods. On the other hand, commercial CADs are developed and deployed only to vendors' mammography machines with no availability to public access. This paper presents a complete CAD; it is complete since it combines, on a hand, the rigor of algorithm design and assessment (method), and, on the other hand, the implementation and deployment of a system architecture for public accessibility (system). (1) We develop a novel algorithm for image enhancement so that mammograms acquired from any digital mammography machine look qualitatively of the same clarity to radiologists' inspection; and is quantitatively standardized for the detection algorithms. (2) We develop novel algorithms for masses and microcalcifications detection with accuracy superior to both literature results and the majority of approved commercial systems. (3) We design, implement, and deploy a system architecture that is computationally effective to allow for deploying these algorithms to cloud for public access.
Synthetic generation of three-dimensional cell models from histopathological images aims to enhance understanding of cell mutation, and progression of cancer, necessary for clinical assessment and optimal treatment. Classical reconstruction algorithms based on image registration of consecutive slides of stained tissues are prone to errors and often not suitable for the training of three-dimensional segmentation algorithms. We propose a novel framework to generate synthetic three-dimensional histological models based on a generator-discriminator pattern optimizing constrained features that cons…
A Generative Approach for Image Registration of Visible-Thermal (VT) Cancer Faces
Booz Allen Hamilton（博思艾伦汉密尔顿公司）；University of Maryland Baltimore County（马里兰大学巴尔的摩县分校）；National Cancer Institute, National Institutes of Health（美国国立卫生研究院国家癌症研究所）
KTH Royal Institute of Technology（瑞典皇家理工学院）；Science for Life Laboratory（生命科学实验室）；Karolinska Institutet（卡罗林斯卡学院）；Karolinska University Hospital（卡罗林斯卡大学医院）
The ability to accurately estimate risk of developing breast cancer would be invaluable for clinical decision-making. One promising new approach is to integrate image-based risk models based on deep neural networks. However, one must take care when using such models, as selection of training data influences the patterns the network will learn to identify. With this in mind, we trained networks using three different criteria to select the positive training data (i.e. images from patients that will develop cancer): an inherent risk model trained on images with no visible signs of cancer, a cance…
Application of deep learning in digital pathology shows promise on improving disease diagnosis and understanding. We present a deep generative model that learns to simulate high-fidelity cancer tissue images while mapping the real images onto an interpretable low dimensional latent space. The key to the model is an encoder trained by a previously developed generative adversarial network, PathologyGAN. We study the latent space using 249K images from two breast cancer cohorts. We find that the latent space encodes morphological characteristics of tissues (e.g. patterns of cancer, lymphocytes, a…
Nagoya Institute of Technology（名古屋工业大学）；Nagoya University Hospital（名古屋大学医院）；RIKEN（理化学研究所）
We propose a new method for cancer subtype classification from histopathological images, which can automatically detect tumor-specific features in a given whole slide image (WSI). The cancer subtype should be classified by referring to a WSI, i.e., a large-sized image (typically 40,000x40,000 pixels) of an entire pathological tissue slide, which consists of cancer and non-cancer portions. One difficulty arises from the high cost associated with annotating tumor regions in WSIs. Furthermore, both global and local image features must be extracted from the WSI by changing the magnifications of th…
University of Minnesota（明尼苏达大学）；University of Cincinnati（辛辛那提大学）
Image classification is widely used to build predictive models for breast cancer diagnosis. Most existing approaches overwhelmingly rely on deep convolutional networks to build such diagnosis pipelines. These model architectures, although remarkable in performance, are black-box systems that provide minimal insight into the inner logic behind their predictions. This is a major drawback as the explainability of prediction is vital for applications such as cancer diagnosis. In this paper, we address this issue by proposing an explainable machine learning pipeline for breast cancer diagnosis base…
School of Bioengineering Sciences and Research, MIT ADT University（MIT ADT大学生物工程科学与研究学院）；Department of Oral and Maxillofacial Pathology, Sinhgad Dental College and Hospital（辛加德牙科学院与医院口腔颌面病理学系）；Department of Computer Science, Stony Brook University（石溪大学计算机科学系）
Oral cancer has more than 83% survival rate if detected in its early stages, however, only 29% of cases are currently detected early. Deep learning techniques can detect patterns of oral cancer cells and can aid in its early detection. In this work, we present the first results of neural networks for oral cancer detection using microscopic images. We compare numerous state-of-the-art models via transfer learning approach and collect and release an augmented dataset of high-quality microscopic images of oral cancer. We present a comprehensive study of different models and report their performan…
Netaji Subhas University of Technology（内塔吉·苏巴斯理工大学）
Skin cancer is the most common human malignancy(American Cancer Society) which is primarily diagnosed visually, starting with an initial clinical screening and followed potentially by dermoscopic(related to skin) analysis, a biopsy and histopathological examination. Skin cancer occurs when errors (mutations) occur in the DNA of skin cells. The mutations cause the cells to grow out of control and form a mass of cancer cells. The aim of this study was to try to classify images of skin lesions with the help of convolutional neural networks. The deep neural networks show humongous potential for im…
Marshall University（马歇尔大学）；Troy University（特洛伊大学）；Virginia State University（弗吉尼亚州立大学）
Detecting cancer manually in whole slide images requires significant time and effort on the laborious process. Recent advances in whole slide image analysis have stimulated the growth and development of machine learning-based approaches that improve the efficiency and effectiveness in the diagnosis of cancer diseases. In this paper, we propose an unsupervised learning approach for detecting cancer in breast invasive carcinoma (BRCA) whole slide images. The proposed method is fully automated and does not require human involvement during the unsupervised learning procedure. We demonstrate the ef…
INSA Centre Val de Loire（卢瓦尔河谷国立应用科学学院）；PRISME（PRISME实验室）
This paper addresses the problem of liver cancer segmentation in Whole Slide Image (WSI). We propose a multi-scale image processing method based on automatic end-to-end deep neural network algorithm for segmentation of cancer area. A seven-levels gaussian pyramid representation of the histopathological image was built to provide the texture information in different scales. In this work, several neural architectures were compared using the original image level for the training procedure. The proposed method is based on U-Net applied to seven levels of various resolutions (pyramidal subsumpling)…
Generally, human epidermal growth factor 2 (HER2) breast cancer is more aggressive than other kinds of breast cancer. Currently, HER2 breast cancer is detected using expensive medical tests are most expensive. Therefore, the aim of this study was to develop a computational model named convoHER2 for detecting HER2 breast cancer with image data using convolution neural network (CNN). Hematoxylin and eosin (H&E) and immunohistochemical (IHC) stained images has been used as raw data from the Bayesian information criterion (BIC) benchmark dataset. This dataset consists of 4873 images of H&E and IHC…
Recent breakthroughs in object detection and image classification using Convolutional Neural Networks (CNNs) are revolutionizing the state of the art in medical imaging, and microscopy in particular presents abundant opportunities for computer vision algorithms to assist medical professionals in diagnosis of diseases ranging from malaria to cancer. High resolution scans of microscopy slides called Whole Slide Images (WSIs) offer enough information for a cancer pathologist to come to a conclusion regarding cancer presence, subtype, and severity based on measurements of features within the slide…
Breast Cancer Image Classification Method Based on Deep Transfer Learning
The Hong Kong University of Science and Technology（香港科技大学）；University of Southampton（南安普顿大学）；Trine University（特莱恩大学）；Southwest Jiaotong University（西南交通大学）
The distribution and appearance of nuclei are essential markers for the diagnosis and study of cancer. Despite the importance of nuclear morphology, there is a lack of large scale, accurate, publicly accessible nucleus segmentation data. To address this, we developed an analysis pipeline that segments nuclei in whole slide tissue images from multiple cancer types with a quality control process. We have generated nucleus segmentation results in 5,060 Whole Slide Tissue images from 10 cancer types in The Cancer Genome Atlas. One key component of our work is that we carried out a multi-level qual…
Histopathological images of tumors contain abundant information about how tumors grow and how they interact with their micro-environment. Better understanding of tissue phenotypes in these images could reveal novel determinants of pathological processes underlying cancer, and in turn improve diagnosis and treatment options. Advances of Deep learning makes it ideal to achieve those goals, however, its application is limited by the cost of high quality labels from patients data. Unsupervised learning, in particular, deep generative models with representation learning properties provides an alter…
Research Computing Center at the University of Chicago（芝加哥大学研究计算中心）
Prostate cancer is one of the most common causes of cancer deaths in men. There is a growing demand for noninvasively and accurately diagnostic methods that facilitate the current standard prostate cancer risk assessment in clinical practice. Still, developing computer-aided classification tools in prostate cancer diagnostics from multiparametric magnetic resonance images continues to be a challenge. In this work, we propose a novel deep learning approach for automatic classification of prostate lesions in the corresponding magnetic resonance images by constructing a two-stage multimodal multi…
Jalpaiguri Government Engineering College（贾尔派古里政府工程学院）
Invasive ductal carcinoma (IDC), which is also sometimes known as the infiltrating ductal carcinoma, is the most regular form of breast cancer. It accounts for about 80% of all breast cancers. According to the American Cancer Society, more than 180,000 women in the United States are diagnosed with invasive breast cancer each year. The survival rate associated with this form of cancer is about 77% to 93% depending on the stage at which they are being diagnosed. The invasiveness and the frequency of the occurrence of these disease makes it one of the difficult cancers to be diagnosed. Our propos…
Umm Al-Qura University（乌姆·库拉大学）；King Abdulaziz University（阿卜杜勒阿齐兹国王大学）；University of Tabuk（塔布克大学）；King Faisal Specialist Hospital and Research Center（费萨尔国王专科医院和研究中心）；University of Nevada（内华达大学）
Breast cancer is the most common cancer in the world and the second most common type of cancer that causes death in women. The timely and accurate diagnosis of breast cancer using histopathological images is crucial for patient care and treatment. Pathologists can make more accurate diagnoses with the help of a novel approach based on image processing. This approach is an ensemble model of two types of pre-trained vision transformer models, namely, Vision Transformer and Data-Efficient Image Transformer. The proposed ensemble model classifies breast cancer histopathology images into eight clas…
This paper presents results of applying Inception v4 deep convolutional neural network to ICIAR-2018 Breast Cancer Classification Grand Challenge, part a. The Challenge task is to classify breast cancer biopsy results, presented in form of hematoxylin and eosin stained images. Breast cancer classification is of primary interest to the medical practitioners and thus binary classification of breast cancer images have been under investigation by many researchers, but multi-class categorization of histology breast images have been challenging due to the subtle differences among the categories. In …
The past years have seen a considerable increase in cancer cases. However, a cancer diagnosis is often complex and depends on the types of images provided for analysis. It requires highly skilled practitioners but is often time-consuming and error-prone. If Machine Learning and deep learning algorithms have been widely used, a comprehensive review of the techniques used from the pre-processing steps to the final prediction is lacking. With this review, we aim to provide a comprehensive overview of the current steps required in building efficient and accurate machine learning algorithm for canc…
Tarbiat Modares University（塔比亚特莫达雷斯大学）；Islamic Azad University Science and Research Branch（伊斯兰阿扎德大学科学与研究分校）
At present, cancer is one of the most important health issues in the world. Because early detection and appropriate treatment in cancer are very effective in the recovery and survival of patients, image processing as a diagnostic tool can help doctors to diagnose in the first recognition of cancer. One of the most important steps in diagnosing a skin lesion is to automatically detect the border of the skin image because the accuracy of the next steps depends on it. If these subtleties are identified, they can have a great impact on the diagnosis of the disease. Therefore, there is a good oppor…
University of Saskatchewan（萨斯喀彻温大学）；University of Tulane（杜兰大学）
Breast cancer is one of the most common causes of cancer-related death in women worldwide. Early and accurate diagnosis of breast cancer may significantly increase the survival rate of patients. In this study, we aim to develop a fully automatic, deep learning-based, method using descriptor features extracted by Deep Convolutional Neural Network (DCNN) models and pooling operation for the classification of hematoxylin and eosin stain (H&E) histological breast cancer images provided as a part of the International Conference on Image Analysis and Recognition (ICIAR) 2018 Grand Challenge on BreAs…
University of Toronto（多伦多大学）；National Cancer Research Centre（国家癌症研究中心）；Institute for Oncology and Radiology（肿瘤与放射学研究所）
Accurate diagnosis of breast cancer in histopathology images is challenging due to the heterogeneity of cancer cell growth as well as of a variety of benign breast tissue proliferative lesions. In this paper, we propose a practical and self-interpretable invasive cancer diagnosis solution. With minimum annotation information, the proposed method mines contrast patterns between normal and malignant images in unsupervised manner and generates a probability map of abnormalities to verify its reasoning. Particularly, a fully convolutional autoencoder is used to learn the dominant structural patter…
Cancer is the uncontrollable cell division of abnormal cells inside the human body, which can spread to other body organs. It is one of the non-communicable diseases (NCDs) and NCDs accounts for 71% of total deaths worldwide whereas lung cancer is the second most diagnosed cancer after female breast cancer. Cancer survival rate of lung cancer is only 19%. There are various methods for the diagnosis of lung cancer, such as X-ray, CT scan, PET-CT scan, bronchoscopy and biopsy. However, to know the subtype of lung cancer based on the tissue type H and E staining is widely used, where the staining…
Over the last decades, the incidence of skin cancer, melanoma and non-melanoma, has increased at a continuous rate. In particular for melanoma, the deadliest type of skin cancer, early detection is important to increase patient prognosis. Recently, deep neural networks (DNNs) have become viable to deal with skin cancer detection. In this work, we present a smartphone-based application to assist on skin cancer detection. This application is based on a Convolutional Neural Network(CNN) trained on clinical images and patients demographics, both collected from smartphones. Also, as skin cancer dat…
University of Ljubljana（卢布尔雅那大学）；XLAB d.o.o.（XLAB 有限责任公司）
Detection of visual anomalies refers to the problem of finding patterns in different imaging data that do not conform to the expected visual appearance and is a widely studied problem in different domains. Due to the nature of anomaly occurrences and underlying generating processes, it is hard to characterize them and obtain labeled data. Obtaining labeled data is especially difficult in biomedical applications, where only trained domain experts can provide labels, which often come in large diversity and complexity. Recently presented approaches for unsupervised detection of visual anomalies a…
East Delta University（东三角洲大学）；University of Chittagong（吉大港大学）
Breast cancer has become a symbol of tremendous concern in the modern world, as it is one of the major causes of cancer mortality worldwide. In this regard, breast ultrasonography images are frequently utilized by doctors to diagnose breast cancer at an early stage. However, the complex artifacts and heavily noised breast ultrasonography images make diagnosis a great challenge. Furthermore, the ever-increasing number of patients being screened for breast cancer necessitates the use of automated end-to-end technology for highly accurate diagnosis at a low cost and in a short time. In this conce…
School of Information Technology（信息技术学院）；University of Cincinnati（辛辛那提大学）
Lung cancer is the leading cause of death among different types of cancers. Every year, the lives lost due to lung cancer exceed those lost to pancreatic, breast, and prostate cancer combined. The survival rate for lung cancer patients is very low compared to other cancer patients due to late diagnostics. Thus, early lung cancer diagnostics is crucial for patients to receive early treatments, increasing the survival rate or even becoming cancer-free. This paper proposed a deep-learning model for early lung cancer prediction and diagnosis from Computed Tomography (CT) scans. The proposed mode a…
Recently, large, high-quality public datasets have led to the development of convolutional neural networks that can detect lymph node metastases of breast cancer at the level of expert pathologists. Many cancers, regardless of the site of origin, can metastasize to lymph nodes. However, collecting and annotating high-volume, high-quality datasets for every cancer type is challenging. In this paper we investigate how to leverage existing high-quality datasets most efficiently in multi-task settings for closely related tasks. Specifically, we will explore different training and domain adaptation…
Queen Mary University of London（伦敦玛丽女王大学）；Communication University of Zhejiang（浙江传媒学院）；University of Leicester（莱斯特大学）
Cancer segmentation in whole-slide images is a fundamental step for viable tumour burden estimation, which is of great value for cancer assessment. However, factors like vague boundaries or small regions dissociated from viable tumour areas make it a challenging task. Considering the usefulness of multi-scale features in various vision-related tasks, we present a structure-aware scale-adaptive feature selection method for efficient and accurate cancer segmentation. Based on a segmentation network with a popular encoder-decoder architecture, a scale-adaptive module is proposed for selecting mor…
Harnessing Transformers: A Leap Forward in Lung Cancer Image Detection
Laboratoire LITAN École supérieure en Sciences et Technologies de l’Informatique et du Numérique（高等计算机与数字科学技术学院 LITAN 实验室）；College of Engineering and Information Technology, University of Dubai（迪拜大学工程与信息技术学院）；Department of Computer Science, University of Sharjah（沙迦大学计算机科学系）；Institute of Artificial Intelligence, De Montfort University（德蒙福特大学人工智能研究所）
Uppsala University（乌普萨拉大学）；Karolinska Universitetsjukhuset（卡罗林斯卡大学医院）
Oral cancer incidence is rapidly increasing worldwide. The most important determinant factor in cancer survival is early diagnosis. To facilitate large scale screening, we propose a fully automated pipeline for oral cancer detection on whole slide cytology images. The pipeline consists of fully convolutional regression-based nucleus detection, followed by per-cell focus selection, and CNN based classification. Our novel focus selection step provides fast per-cell focus decisions at human-level accuracy. We demonstrate that the pipeline provides efficient cancer classification of whole slide cy…
Cancer is one of the most common and fatal diseases in the world. Breast cancer affects one in every eight women and one in every eight hundred men. Hence, our prime target should be early detection of cancer because the early detection of cancer can be helpful to cure cancer effectively. Therefore, we propose a saliency detection system with the help of advanced deep learning techniques, such that the machine will be taught to emulate actions of pathologists for localization of diagnostically pertinent regions. We study identification of five diagnostic categories of breast cancer by training…
University of Connecticut（康涅狄格大学）；University of Connecticut Health Center（康涅狄格大学健康中心）
Prostate cancer is the most common cancer in men worldwide and the second leading cause of cancer death in the United States. One of the prognostic features in prostate cancer is the Gleason grading of histopathology images. The Gleason grade is assigned based on tumor architecture on Hematoxylin and Eosin (H&E) stained whole slide images (WSI) by the pathologists. This process is time-consuming and has known interobserver variability. In the past few years, deep learning algorithms have been used to analyze histopathology images, delivering promising results for grading prostate cancer. Howev…
University of Warwick（华威大学）；National University of Sciences and Technology（国立科技大学）；University Hospitals Coventry（考文垂大学医院）；The Alan Turing Institute（艾伦·图灵研究所）
Digital histology images are amenable to the application of convolutional neural network (CNN) for analysis due to the sheer size of pixel data present in them. CNNs are generally used for representation learning from small image patches (e.g. 224x224) extracted from digital histology images due to computational and memory constraints. However, this approach does not incorporate high-resolution contextual information in histology images. We propose a novel way to incorporate larger context by a context-aware neural network based on images with a dimension of 1,792x1,792 pixels. The proposed fr…
Traditional breast cancer image classification methods require manual extraction of features from medical images, which not only require professional medical knowledge, but also have problems such as time-consuming and labor-intensive and difficulty in extracting high-quality features. Therefore, the paper proposes a computer-based feature fusion Convolutional neural network breast cancer image classification and detection method. The paper pre-trains two convolutional neural networks with different structures, and then uses the convolutional neural network to automatically extract the charact…
Lung and Colon cancer are one of the leading causes of mortality and morbidity in adults. Histopathological diagnosis is one of the key components to discern cancer type. The aim of the present research is to propose a computer aided diagnosis system for diagnosing squamous cell carcinomas and adenocarcinomas of lung as well as adenocarcinomas of colon using convolutional neural networks by evaluating the digital pathology images for these cancers. Hereby, rendering artificial intelligence as useful technology in the near future. A total of 2500 digital images were acquired from LC25000 datase…
University of Toronto（多伦多大学）；University of British Columbia（不列颠哥伦比亚大学）；Sunnybrook Health Science Center（森尼布鲁克健康科学中心）；Sunnybrook Research Institute（森尼布鲁克研究所）
Whole slide images (WSIs) pose unique challenges when training deep learning models. They are very large which makes it necessary to break each image down into smaller patches for analysis, image features have to be extracted at multiple scales in order to capture both detail and context, and extreme class imbalances may exist. Significant progress has been made in the analysis of these images, thanks largely due to the availability of public annotated datasets. We postulate, however, that even if a method scores well on a challenge task, this success may not translate to good performance in a…
This paper presents U-net based breast cancer metastases detection and classification in lymph nodes, as well as patient-level classification based on metastases detection. The whole pipeline can be divided into five steps: preprocessing and data argumentation, patch-based segmentation, post processing, slide-level classification, and patient-level classification. In order to reduce overfitting and speedup convergence, we applied batch normalization and dropout into U-Net. The final Kappa score reaches 0.902 on training data.
School of Mathematics (Zhuhai), Sun Yat-sen University（中山大学（珠海）数学学院）
Rapid diagnosis of gastric cancer is a great challenge for clinical doctors. Dramatic progress of computer vision on gastric cancer has been made recently and this review focuses on advances during the past five years. Different methods for data generation and augmentation are presented, and various approaches to extract discriminative features compared and evaluated. Classification and segmentation techniques are carefully discussed for assisting more precise diagnosis and timely treatment. For classification, various methods have been developed to better proceed specific images, such as imag…
National Chiao Tung University（国立交通大学）；Liouying Chi Mei Hospital（柳营奇美医院）；National Pingtung University of Science and Technology（国立屏东科技大学）
Ki-67 is a nuclear protein that can be produced during cell proliferation. The Ki67 index is a valuable prognostic variable in several kinds of cancer. In breast cancer, the index is even routinely checked in many patients. Currently, pathologists use the immunohistochemistry method to calculate the percentage of Ki-67 positive malignant cells as Ki-67 index. The higher score usually means more aggressive tumor behavior. In clinical practice, the measurement of Ki-67 index relies on visual identifying method and manual counting. However, visual and manual assessment method is timeconsuming and…
