A Comparative Study on Polyp Classification using Convolutional Neural Networks
School of Engineering, University of Kansas（堪萨斯大学工程学院）；The First Hospital of Jilin University（吉林大学第一医院）；The University of Kansas Medical Center（堪萨斯大学医学中心）
Krushi Patel, Kaidong Li, Ke Tao, Quan Wang, Ajay Bansal, Amit Rastogi, Guanghui Wang
Colorectal cancer is the third most common cancer diagnosed in both men and women in the United States. Most colorectal cancers start as a growth on the inner lining of the colon or rectum, called 'polyp'. Not all polyps are cancerous, but some can develop into cancer. Early detection and recognition of the type of polyps is critical to prevent cancer and change outcomes. However, visual classification of polyps is challenging due to varying illumination conditions of endoscopy, variant texture, appearance, and overlapping morphology between polyps. More importantly, evaluation of polyp patterns by gastroenterologists is subjective leading to a poor agreement among observers. Deep convolutional neural networks have proven very successful in object classification across various object categories. In this work, we compare the performance of the state-of-the-art general object classification models for polyp classification. We trained a total of six CNN models end-to-end using a dataset of 157 video sequences composed of two types of polyps: hyperplastic and adenomatous. Our results demonstrate that the state-of-the-art CNN models can successfully classify polyps with an accuracy comparable or better than reported among gastroenterologists. The results of this study can guide future research in polyp classification.
Colorectal polyps are important precursors to colon cancer, the third most common cause of cancer mortality for both men and women. It is a disease where early detection is of crucial importance. Colonoscopy is commonly used for early detection of cancer and precancerous pathology. It is a demanding procedure requiring significant amount of time from specialized physicians and nurses, in addition to a significant miss-rates of polyps by specialists. Automated polyp detection in colonoscopy videos has been demonstrated to be a promising way to handle this problem. {However, polyps detection is …
The University of Kansas（堪萨斯大学）；The University of Kansas Medical Center（堪萨斯大学医学中心）；Washington University School of Medicine（华盛顿大学医学院）；Ryerson University（瑞尔森大学）
Colorectal cancer (CRC) is one of the most common types of cancer with a high mortality rate. Colonoscopy is the preferred procedure for CRC screening and has proven to be effective in reducing CRC mortality. Thus, a reliable computer-aided polyp detection and classification system can significantly increase the effectiveness of colonoscopy. In this paper, we create an endoscopic dataset collected from various sources and annotate the ground truth of polyp location and classification results with the help of experienced gastroenterologists. The dataset can serve as a benchmark platform to trai…
Convolutional neural networks lack shift equivariance due to the presence of downsampling layers. In image classification, adaptive polyphase downsampling (APS-D) was recently proposed to make CNNs perfectly shift invariant. However, in networks used for image reconstruction tasks, it can not by itself restore shift equivariance. We address this problem by proposing adaptive polyphase upsampling (APS-U), a non-linear extension of conventional upsampling, which allows CNNs with symmetric encoder-decoder architecture (for example U-Net) to exhibit perfect shift equivariance. With MRI and CT reco…
Indira Gandhi National Open University（英迪拉·甘地国立开放大学）
Colorectal cancer is one of fatal cancer worldwide. Colonoscopy is the standard treatment for examination, localization, and removal of colorectal polyps. However, it has been shown that the miss-rate of colorectal polyps during colonoscopy is between 6 to 27%. The use of an automated, accurate, and real-time polyp segmentation during colonoscopy examinations can help the clinicians to eliminate missing lesions and prevent further progression of colorectal cancer. The ``Medico automatic polyp segmentation challenge'' provides an opportunity to study polyp segmentation and build a fast segmenta…
Computerized detection of colonic polyps remains an unsolved issue because of the wide variation in the appearance, texture, color, size, and presence of the multiple polyp-like imitators during colonoscopy. In this paper, we propose a deep convolutional neural network based model for the computerized detection of polyps within colonoscopy images. The proposed model comprises 16 convolutional layers with 2 fully connected layers, and a Softmax layer, where we implement a unique approach using different convolutional kernels within the same hidden layer for deeper feature extraction. We applied…
Convolutional Neural Networks (CNNs) are propelling advances in a range of different computer vision tasks such as object detection and object segmentation. Their success has motivated research in applications of such models for medical image analysis. If CNN-based models are to be helpful in a medical context, they need to be precise, interpretable, and uncertainty in predictions must be well understood. In this paper, we develop and evaluate recent advances in uncertainty estimation and model interpretability in the context of semantic segmentation of polyps from colonoscopy images. We evalu…
University of Saskatchewan（萨斯喀彻温大学）；University of Stanford（斯坦福大学）
Colorectal cancer is the third most common cancer-related death after lung cancer and breast cancer worldwide. The risk of developing colorectal cancer could be reduced by early diagnosis of polyps during a colonoscopy. Computer-aided diagnosis systems have the potential to be applied for polyp screening and reduce the number of missing polyps. In this paper, we compare the performance of different deep learning architectures as feature extractors, i.e. ResNet, DenseNet, InceptionV3, InceptionResNetV2 and SE-ResNeXt in the encoder part of a U-Net architecture. We validated the performance of p…
University of Illinois at Urbana-Champaign（伊利诺伊大学厄巴纳-香槟分校）；Purdue University（普渡大学）
We propose learnable polyphase sampling (LPS), a pair of learnable down/upsampling layers that enable truly shift-invariant and equivariant convolutional networks. LPS can be trained end-to-end from data and generalizes existing handcrafted downsampling layers. It is widely applicable as it can be integrated into any convolutional network by replacing down/upsampling layers. We evaluate LPS on image classification and semantic segmentation. Experiments show that LPS is on-par with or outperforms existing methods in both performance and shift consistency. For the first time, we achieve true shi…
Hanoi University of Science and Technology（河内理工大学）；Vietnam National University of Agriculture（越南国立农业大学）；Vietnam National University Ho Chi Minh City（越南胡志明市国立大学）
Identifying polyps is challenging for automatic analysis of endoscopic images in computer-aided clinical support systems. Models based on convolutional networks (CNN), transformers, and their combinations have been proposed to segment polyps with promising results. However, those approaches have limitations either in modeling the local appearance of the polyps only or lack of multi-level features for spatial dependency in the decoding process. This paper proposes a novel network, namely ColonFormer, to address these limitations. ColonFormer is an encoder-decoder architecture capable of modelin…
Purpose: Colorectal cancer (CRC) is the second most common cause of cancer mortality worldwide. Colonoscopy is a widely used technique for colon screening and polyp lesions diagnosis. Nevertheless, manual screening using colonoscopy suffers from a substantial miss rate of polyps and is an overwhelming burden for endoscopists. Computer-aided diagnosis (CAD) for polyp detection has the potential to reduce human error and human burden. However, current polyp detection methods based on object detection framework need many handcrafted pre-processing and post-processing operations or user guidance t…
Polyp segmentation within colonoscopy video frames using deep learning models has the potential to automate the workflow of clinicians. This could help improve the early detection rate and characterization of polyps which could progress to colorectal cancer. Recent state-of-the-art deep learning polyp segmentation models have combined the outputs of Fully Convolutional Network architectures and Transformer Network architectures which work in parallel. In this paper we propose modifications to the current state-of-the-art polyp segmentation model FCBFormer. The transformer architecture of the F…
Seoul National University（首尔大学）；Advanced Institutes of Convergence Technology（融合技术先进研究院）
Identifying musical instruments in polyphonic music recordings is a challenging but important problem in the field of music information retrieval. It enables music search by instrument, helps recognize musical genres, or can make music transcription easier and more accurate. In this paper, we present a convolutional neural network framework for predominant instrument recognition in real-world polyphonic music. We train our network from fixed-length music excerpts with a single-labeled predominant instrument and estimate an arbitrary number of predominant instruments from an audio signal with a…
Neural Network Pruning for Real-time Polyp Segmentation
NepAl Applied Mathematics and Informatics Institute (NAAMII)（尼泊尔应用数学与信息学研究所（NAAMII））；Fogsphere (Redev AI Ltd)（Fogsphere（Redev AI有限公司））；University of Aberdeen（阿伯丁大学）
Norwegian University of Science and Technology (NTNU)（挪威科技大学（NTNU））；Oslo University Hospital（奥斯陆大学医院）；University of Oslo (UiO)（奥斯陆大学（UiO））
Automatic detection of colonic polyps is still an unsolved problem due to the large variation of polyps in terms of shape, texture, size, and color, and the existence of various polyp-like mimics during colonoscopy. In this study, we apply a recent region based convolutional neural network (CNN) approach for the automatic detection of polyps in images and videos obtained from colonoscopy examinations. We use a deep-CNN model (Inception Resnet) as a transfer learning scheme in the detection system. To overcome the polyp detection obstacles and the small number of polyp images, we examine image …
Colorectal cancer is a leading cause of cancer death for both men and women. For this reason, histopathological characterization of colorectal polyps is the major instrument for the pathologist in order to infer the actual risk for cancer and to guide further follow-up. Colorectal polyps diagnosis includes the evaluation of the polyp type, and more importantly, the grade of dysplasia. This latter evaluation represents a critical step for the clinical follow-up. The proposed deep learning-based classification pipeline is based on state-of-the-art convolutional neural network, trained using prop…
University of Science, VNU-HCM（胡志明市国家大学科学大学）；John von Neumann Institute, VNU-HCM（胡志明市国家大学约翰·冯·诺依曼研究所）；Vietnam National University, Ho Chi Minh city（越南国家大学胡志明市分校）
The Medico: Multimedia Task 2020 focuses on developing an efficient and accurate computer-aided diagnosis system for automatic segmentation [3]. We participate in task 1, Polyps segmentation task, which is to develop algorithms for segmenting polyps on a comprehensive dataset. In this task, we propose methods combining Residual module, Inception module, Adaptive Convolutional neural network with U-Net model, and PraNet for semantic segmentation of various types of polyps in endoscopic images. We select 5 runs with different architecture and parameters in our methods. Our methods show potential…
SimulaMet（西穆拉梅特研究所）；UIT The Arctic University of Norway（挪威北极大学）；University of Oxford（牛津大学）；Oslo Metropolitan University（奥斯陆城市大学）
Colonoscopy is the gold standard for examination and detection of colorectal polyps. Localization and delineation of polyps can play a vital role in treatment (e.g., surgical planning) and prognostic decision making. Polyp segmentation can provide detailed boundary information for clinical analysis. Convolutional neural networks have improved the performance in colonoscopy. However, polyps usually possess various challenges, such as intra-and inter-class variation and noise. While manual labeling for polyp assessment requires time from experts and is prone to human error (e.g., missed lesions)…
Shanghai Jiao Tong University（上海交通大学）；Renji Hospital, School of Medicine, Shanghai Jiao Tong University（上海交通大学医学院附属仁济医院）；Deepwise Artificial Intelligence Laboratory（深睿人工智能实验室）
Automatic detection of polyps is challenging because different polyps vary greatly, while the changes between polyps and their analogues are small. The state-of-the-art methods are based on convolutional neural networks (CNNs). However, they may fail due to lack of training data, resulting in high rates of missed detection and false positives (FPs). In order to solve these problems, our method combines the two-dimensional (2-D) CNN-based real-time object detector network with spatiotemporal information. Firstly, we use a 2-D detector network to detect static images and frames, and based on the…
Computer Vision Center（计算机视觉中心）；Universitat Autonoma de Barcelona（巴塞罗那自治大学）；Montreal Institute for Learning Algorithms（蒙特利尔学习算法研究所）；Université de Montréal（蒙特利尔大学）；École Polytechnique de Montréal（蒙特利尔理工学院）；Hospital Clinic（临床医院）；Universidad de Barcelona（巴塞罗那大学）；Imagia Inc.（Imagia公司）
Colorectal cancer (CRC) is the third cause of cancer death worldwide. Currently, the standard approach to reduce CRC-related mortality is to perform regular screening in search for polyps and colonoscopy is the screening tool of choice. The main limitations of this screening procedure are polyp miss-rate and inability to perform visual assessment of polyp malignancy. These drawbacks can be reduced by designing Decision Support Systems (DSS) aiming to help clinicians in the different stages of the procedure by providing endoluminal scene segmentation. Thus, in this paper, we introduce an extend…
Hamburg University of Technology（汉堡工业大学）；Universitätsklinikum Hamburg-Eppendorf（汉堡-埃彭多夫大学医学中心）
Colorectal Cancer(CRC) poses a great risk to public health. It is the third most common cause of cancer in the US. Development of colorectal polyps is one of the earliest signs of cancer. Early detection and resection of polyps can greatly increase survival rate to 90%. Manual inspection can cause misdetections because polyps vary in color, shape, size and appearance. To this end, Computer-Aided Diagnosis systems(CADx) has been proposed that detect polyps by processing the colonoscopic videos. The system acts a secondary check to help clinicians reduce misdetections so that polyps may be resec…
University of Central Florida（中佛罗里达大学）；Mayo Clinic（妙佑医疗国际（梅奥诊所））；University of Catania（卡塔尼亚大学）
Colorectal cancer, largely arising from precursor lesions called polyps, remains one of the leading causes of cancer-related death worldwide. Current clinical standards require the resection and histopathological analysis of polyps due to test accuracy and sensitivity of optical biopsy methods falling substantially below recommended levels. In this study, we design a novel capsule network architecture (D-Caps) to improve the viability of optical biopsy of colorectal polyps. Our proposed method introduces several technical novelties including a novel capsule architecture with a capsule-average …
Accurate and fast segmentation of medical images is clinically essential, yet current research methods include convolutional neural networks with fast inference speed but difficulty in learning image contextual features, and transformer with good performance but high hardware requirements. In this paper, we present a Patch Network (PNet) that incorporates the Swin Transformer notion into a convolutional neural network, allowing it to gather richer contextual information while achieving the balance of speed and accuracy. We test our PNet on Polyp(CVC-ClinicDB and ETIS- LaribPolypDB), Skin(ISIC-…
Microscopic Image and Medical Image Analysis Group, MBIE College, Northeastern University（东北大学MBIE学院显微图像与医学图像分析组）；School of Control Engineering, Chengdu University of Information Technology（成都信息工程大学控制工程学院）；University of Lübeck（吕贝克大学）；China Medical University（中国医科大学）
In recent years, deep learning has made brilliant achievements in Environmental Microorganism (EM) image classification. However, image classification of small EM datasets has still not obtained good research results. Therefore, researchers need to spend a lot of time searching for models with good classification performance and suitable for the current equipment working environment. To provide reliable references for researchers, we conduct a series of comparison experiments on 21 deep learning models. The experiment includes direct classification, imbalanced training, and hyperparameter tuni…
Large Language Model Evaluated Stand-alone Attention-Assisted Graph Neural Network with Spatial and Structural Information Interaction for Precise Endoscopic Image Segmentation
Department of Mathematics, The Chinese University of Hong Kong（香港中文大学数学系）；Department of Electronic and Computer Engineering, University of Massachusetts, Lowell（马萨诸塞大学低罗分校电子与计算机工程系）；Department of Radiology, Northwestern University（西北大学放射科）
National Institutes of Health Clinical Center（美国国立卫生研究院临床中心）
Automated computer-aided detection (CADe) in medical imaging has been an important tool in clinical practice and research. State-of-the-art methods often show high sensitivities but at the cost of high false-positives (FP) per patient rates. We design a two-tiered coarse-to-fine cascade framework that first operates a candidate generation system at sensitivities of $\sim$100% but at high FP levels. By leveraging existing CAD systems, coordinates of regions or volumes of interest (ROI or VOI) for lesion candidates are generated in this step and function as input for a second tier, which is our …
In this paper we study the application of convolutional neural networks for jointly detecting objects depicted in still images and estimating their 3D pose. We identify different feature representations of oriented objects, and energies that lead a network to learn this representations. The choice of the representation is crucial since the pose of an object has a natural, continuous structure while its category is a discrete variable. We evaluate the different approaches on the joint object detection and pose estimation task of the Pascal3D+ benchmark using Average Viewpoint Precision. We show…
The Hong Kong University of Science and Technology（香港科技大学）；The Tongji University（同济大学）
Convolutional neural networks (CNNs) are widely used in many image recognition tasks due to their extraordinary performance. However, training a good CNN model can still be a challenging task. In a training process, a CNN model typically learns a large number of parameters over time, which usually results in different performance. Often, it is difficult to explore the relationships between the learned parameters and the model performance due to a large number of parameters and different random initializations. In this paper, we present a visual analytics approach to compare two different snaps…
Dartmouth College（达特茅斯学院）；Dartmouth-Hitchcock Medical Center（达特茅斯-希区柯克医疗中心）
We present an image translation approach to generate augmented data for mitigating data imbalances in a dataset of histopathology images of colorectal polyps, adenomatous tumors that can lead to colorectal cancer if left untreated. By applying cycle-consistent generative adversarial networks (CycleGANs) to a source domain of normal colonic mucosa images, we generate synthetic colorectal polyp images that belong to diagnostically less common polyp classes. Generated images maintain the general structure of their source image but exhibit adenomatous features that can be enhanced with our propose…
University of Gour Banga（古尔班加大学）；Visva-Bharati University（维斯瓦巴拉蒂大学）
From the autonomous car driving to medical diagnosis, the requirement of the task of image segmentation is everywhere. Segmentation of an image is one of the indispensable tasks in computer vision. This task is comparatively complicated than other vision tasks as it needs low-level spatial information. Basically, image segmentation can be of two types: semantic segmentation and instance segmentation. The combined version of these two basic tasks is known as panoptic segmentation. In the recent era, the success of deep convolutional neural networks (CNN) has influenced the field of segmentation…
University of Illinois at Urbana-Champaign（伊利诺伊大学厄巴纳-香槟分校）；University of Basel（巴塞尔大学）
Thanks to the use of convolution and pooling layers, convolutional neural networks were for a long time thought to be shift-invariant. However, recent works have shown that the output of a CNN can change significantly with small shifts in input: a problem caused by the presence of downsampling (stride) layers. The existing solutions rely either on data augmentation or on anti-aliasing, both of which have limitations and neither of which enables perfect shift invariance. Additionally, the gains obtained from these methods do not extend to image patterns not seen during training. To address thes…
2D and 3D Deep Learning Models for MRI-based Parkinson's Disease Classification: A Comparative Analysis of Convolutional Kolmogorov-Arnold Networks, Convolutional Neural Networks, and Graph Convolutional Networks
University of Oxford（牛津大学）；King’s College London（伦敦国王学院）；Guy’s and St Thomas’ NHS Foundation Trust（盖伊和圣托马斯国民保健服务基金会信托）
Faculty of Computers and Information, Cairo University（开罗大学计算机与信息学院）；National Research Institute of Astronomy and Geophysics（国家天文与地球物理研究所）；Integrated Thebes Institutes（底比斯综合学院）
In this paper, a deep convolutional neural network architecture for galaxies classification is presented. The galaxy can be classified based on its features into main three categories Elliptical, Spiral, and Irregular. The proposed deep galaxies architecture consists of 8 layers, one main convolutional layer for features extraction with 96 filters, followed by two principles fully connected layers for classification. It is trained over 1356 images and achieved 97.272% in testing accuracy. A comparative result is made and the testing accuracy was compared with other related works. The proposed …
In this paper, we develop a 2D and 3D segmentation pipelines for fully automated cardiac MR image segmentation using Deep Convolutional Neural Networks (CNN). Our models are trained end-to-end from scratch using the ACD Challenge 2017 dataset comprising of 100 studies, each containing Cardiac MR images in End Diastole and End Systole phase. We show that both our segmentation models achieve near state-of-the-art performance scores in terms of distance metrics and have convincing accuracy in terms of clinical parameters. A comparative analysis is provided by introducing a novel dice loss functio…
From ACR O-RADS 2022 to Explainable Deep Learning: Comparative Performance of Expert Radiologists, Convolutional Neural Networks, Vision Transformers, and Fusion Models in Ovarian Masses
Danube Private University（多瑙河私立大学）；Urmia University of Medical Science（乌尔米耶医科大学）；Universiti Malaya（马来亚大学）；Universiti Teknologi MARA Selangor（玛拉工艺大学雪兰莪分校）；University of Southern Queensland（南昆士兰大学）；Austrian Center for Medical Innovation and Technology（奥地利医学创新与技术中心）；Medical University of Vienna（维也纳医科大学）
