PSCNN: PatchShuffle Convolutional Neural Network for COVID-19 Explainable Diagnosis
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ABSTRACT:
SUBMITTER: Wang S
PROVIDER: S-EPMC8585997 | biostudies-literature |
REPOSITORIES: biostudies-literature
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Project description:COVID-19 infection was reported in December 2019 at Wuhan, China. This virus critically affects several countries such as the USA, Brazil, India and Italy. Numerous research units are working at their higher level of effort to develop novel methods to prevent and control this pandemic scenario. The main objective of this paper is to propose a medical decision support system using the implementation of a convolutional neural network (CNN). This CNN has been developed using EfficientNet architecture. To the best of the authors' knowledge, there is no similar study that proposes an automated method for COVID-19 diagnosis using EfficientNet. Therefore, the main contribution is to present the results of a CNN developed using EfficientNet and 10-fold stratified cross-validation. This paper presents two main experiments. First, the binary classification results using images from COVID-19 patients and normal patients are shown. Second, the multi-class results using images from COVID-19, pneumonia and normal patients are discussed. The results show average accuracy values for binary and multi-class of 99.62% and 96.70%, respectively. On the one hand, the proposed CNN model using EfficientNet presents an average recall value of 99.63% and 96.69% concerning binary and multi-class, respectively. On the other hand, 99.64% is the average precision value reported by binary classification, and 97.54% is presented in multi-class. Finally, the average F1-score for multi-class is 97.11%, and 99.62% is presented for binary classification. In conclusion, the proposed architecture can provide an automated medical diagnostics system to support healthcare specialists for enhanced decision making during this pandemic scenario.
| S-EPMC7836808 | biostudies-literature
Project description:Reverse-Transcription Polymerase Chain Reaction (RT-PCR) method is currently the gold standard method for detection of viral strains in human samples, but this technique is very expensive, take time and often leads to misdiagnosis. The recent outbreak of COVID-19 has led scientists to explore other options such as the use of artificial intelligence driven tools as an alternative or a confirmatory approach for detection of viral pneumonia. In this paper, we utilized a Convolutional Neural Network (CNN) approach to detect viral pneumonia in x-ray images using a pretrained AlexNet model thereby adopting a transfer learning approach. The dataset used for the study was obtained in the form of optical Coherence Tomography and chest X-ray images made available by Kermany et al. (2018, https://doi.org/10.17632/rscbjbr9sj.3) with a total number of 5853 pneumonia (positive) and normal (negative) images. To evaluate the average efficiency of the model, the dataset was split into on 50:50, 60:40, 70:30, 80:20 and 90:10 for training and testing respectively. To evaluate the performance of the model, 10 K Cross-validation was carried out. The performance of the model using overall dataset was compared with the means of cross-validation and the currents state of arts. The classification model has shown high performance in terms of accuracy, sensitivity and specificity. 70:30 split performed better compare to other splits with accuracy of 98.73%, sensitivity of 98.59% and specificity of 99.84%.
| S-EPMC8209916 | biostudies-literature
Project description:As SARS-CoV-2 has spread quickly throughout the world, the scientific community has spent major efforts on better understanding the characteristics of the virus and possible means to prevent, diagnose, and treat COVID-19. A valid approach presented in the literature is to develop an image-based method to support COVID-19 diagnosis using convolutional neural networks (CNN). Because the availability of radiological data is rather limited due to the novelty of COVID-19, several methodologies consider reduced datasets, which may be inadequate, biasing the model. Here, we performed an analysis combining six different databases using chest X-ray images from open datasets to distinguish images of infected patients while differentiating COVID-19 and pneumonia from 'no-findings' images. In addition, the performance of models created from fewer databases, which may imperceptibly overestimate their results, is discussed. Two CNN-based architectures were created to process images of different sizes (512 × 512, 768 × 768, 1024 × 1024, and 1536 × 1536). Our best model achieved a balanced accuracy (BA) of 87.7% in predicting one of the three classes ('no-findings', 'COVID-19', and 'pneumonia') and a specific balanced precision of 97.0% for 'COVID-19' class. We also provided binary classification with a precision of 91.0% for detection of sick patients (i.e., with COVID-19 or pneumonia) and 98.4% for COVID-19 detection (i.e., differentiating from 'no-findings' or 'pneumonia'). Indeed, despite we achieved an unrealistic 97.2% BA performance for one specific case, the proposed methodology of using multiple databases achieved better and less inflated results than from models with specific image datasets for training. Thus, this framework is promising for a low-cost, fast, and noninvasive means to support the diagnosis of COVID-19.
| S-EPMC7920391 | biostudies-literature
Project description:Till August 17, 2020, COVID-19 has caused 21.59 million confirmed cases in more than 227 countries and territories, and 26 naval ships. Chest CT is an effective way to detect COVID-19. This study proposed a novel deep learning model that can diagnose COVID-19 on chest CT more accurately and swiftly. Based on traditional deep convolutional neural network (DCNN) model, we proposed three improvements: (i) We introduced stochastic pooling to replace average pooling and max pooling; (ii) We combined conv layer with batch normalization layer and obtained the conv block (CB); (iii) We combined dropout layer with fully connected layer and obtained the fully connected block (FCB). Our algorithm achieved a sensitivity of 93.28%?±?1.50%, a specificity of 94.00%?±?1.56%, and an accuracy of 93.64%?±?1.42%, in identifying COVID-19 from normal subjects. We proved using stochastic pooling yields better performance than average pooling and max pooling. We compared different structure configurations and proved our 3CB?+?2FCB yields the best performance. The proposed model is effective in detecting COVID-19 based on chest CT images.
| S-EPMC7609373 | biostudies-literature
Project description:Background and objectiveSARS-CoV-2, a novel strain of coronavirus' also called coronavirus disease 19 (COVID-19), a highly contagious pathogenic respiratory viral infection emerged in December 2019 in Wuhan, a city in China's Hubei province without an obvious cause. Very rapidly it spread across the globe (over 200 countries and territories) and finally on 11 March 2020 World Health Organisation characterized it as a "pandemic". Although it has low mortality of around 3% as of 18 May 2021 it has already infected 164,316,270 humans with 3,406,027 unfortunate deaths. Undoubtedly the world was rocked by the COVID-19 pandemic, but researchers rose to all manner of challenges to tackle this pandemic by adopting the shreds of evidence of ML and AI in previous epidemics to develop novel models, methods, and strategies. We aim to provide a deeper insight into the convolutional neural network which is the most notable and extensively adopted technique on radiographic visual imagery to help expert medical practitioners and researchers to design and finetune their state-of-the-art models for their applicability in the arena of COVID-19.MethodIn this study, a deep convolutional neural network, its layers, activation and loss functions, regularization techniques, tools, methods, variants, and recent developments were explored to find its applications for COVID-19 prognosis. The pipeline of a general architecture for COVID-19 prognosis has also been proposed.ResultThis paper highlights recent studies of deep CNN and its applications for better prognosis, detection, classification, and screening of COVID-19 to help researchers and expert medical community in multiple directions. It also addresses a few challenges, limitations, and outlooks while using such methods for COVID-19 prognosis.ConclusionThe recent and ongoing developments in AI, MI, and deep learning (Deep CNN) has shown promising results and significantly improved performance metrics for screening, prediction, detection, classification, forecasting, medication, treatment, contact tracing, etc. to curtail the manual intervention in medical practice. However, the research community of medical experts is yet to recognize and label the benchmark of the deep learning framework for effective detection of COVID-19 positive cases from radiology imagery.
| S-EPMC8162826 | biostudies-literature
Project description:Recently, coronavirus disease (COVID-19) has caused a serious effect on the healthcare system and the overall global economy. Doctors, researchers, and experts are focusing on alternative ways for the rapid detection of COVID-19, such as the development of automatic COVID-19 detection systems. In this paper, an automated detection scheme named EMCNet was proposed to identify COVID-19 patients by evaluating chest X-ray images. A convolutional neural network was developed focusing on the simplicity of the model to extract deep and high-level features from X-ray images of patients infected with COVID-19. With the extracted features, binary machine learning classifiers (random forest, support vector machine, decision tree, and AdaBoost) were developed for the detection of COVID-19. Finally, these classifiers' outputs were combined to develop an ensemble of classifiers, which ensures better results for the dataset of various sizes and resolutions. In comparison with other recent deep learning-based systems, EMCNet showed better performance with 98.91% accuracy, 100% precision, 97.82% recall, and 98.89% F1-score. The system could maintain its great importance on the automatic detection of COVID-19 through instant detection and low false negative rate.
| S-EPMC7752710 | biostudies-literature
Project description:Interventions: None
Primary outcome(s): The primary outcome of the study is the accuracy of the CAD-CNN system for predicting histology of diminutive colorectal polyps (1-5mm) compared with the accuracy of the prediction of the endoscopist. Both the CAD-CNN system and the endoscopist will use NBI for their predictions.
Accuracy is defined as the percentage of correctly predicted optical diagnoses of the CAD-CNN system and/or endoscopist compared to the gold standard pathology. For the calculation of the accuracy, adenomas and SSLs will be dichotomised as neoplastic polyps, while HPs and other non-neoplastic histology are considered non-neoplastic.
Study Design: N/A: single arm study, Open (masking not used), N/A , unknown, Other
| 2443187 | ecrin-mdr-crc
Project description:During the COVID-19 pandemic, dermatologists reported an array of different cutaneous manifestations of the disease. It is challenging to discriminate COVID-19-related cutaneous manifestations from other closely resembling skin lesions. The aim of this study was to generate and evaluate a novel CNN (Convolutional Neural Network) ensemble architecture for detection of COVID-19-associated skin lesions from clinical images. An ensemble model of three different CNN-based algorithms was trained with clinical images of skin lesions from confirmed COVID-19 positive patients, healthy controls as well as 18 other common skin conditions, which included close mimics of COVID-19 skin lesions such as urticaria, varicella, pityriasis rosea, herpes zoster, bullous pemphigoid and psoriasis. The multi-class model demonstrated an overall top-1 accuracy of 86.7% for all 20 diseases. The sensitivity and specificity of COVID-19-rash detection were found to be 84.2 ± 5.1% and 99.5 ± 0.2%, respectively. The positive predictive value, NPV and area under curve values for COVID-19-rash were 88.0 ± 5.6%, 99.4 ± 0.2% and 0.97 ± 0.25, respectively. The binary classifier had a mean sensitivity, specificity and accuracy of 76.81 ± 6.25%, 99.77 ± 0.14% and 98.91 ± 0.17%, respectively for COVID-19 rash. The model was robust in detection of all skin lesions on both white and skin of color, although only a few images of COVID-19-associated skin lesions from skin of color were available. To our best knowledge, this is the first machine learning-based study for automated detection of COVID-19 based on skin images and may provide a useful decision support tool for physicians to optimize contact-free COVID-19 triage, differential diagnosis of skin lesions and patient care.
| S-EPMC7995139 | biostudies-literature
Project description:The COVID-19 epidemic has a catastrophic impact on global well-being and public health. More than 27 million confirmed cases have been reported worldwide until now. Due to the growing number of confirmed cases, and challenges to the variations of the COVID-19, timely and accurate classification of healthy and infected patients is essential to control and treat COVID-19. We aim to develop a deep learning-based system for the persuasive classification and reliable detection of COVID-19 using chest radiography. Firstly, we evaluate the performance of various state-of-the-art convolutional neural networks (CNNs) proposed over recent years for medical image classification. Secondly, we develop and train CNN from scratch. In both cases, we use a public X-Ray dataset for training and validation purposes. For transfer learning, we obtain 100% accuracy for binary classification (i.e., Normal/COVID-19) and 87.50% accuracy for tertiary classification (Normal/COVID-19/Pneumonia). With the CNN trained from scratch, we achieve 93.75% accuracy for tertiary classification. In the case of transfer learning, the classification accuracy drops with the increased number of classes. The results are demonstrated by comprehensive receiver operating characteristics (ROC) and confusion metric analysis with 10-fold cross-validation.
| S-EPMC8782355 | biostudies-literature
Project description:Alzheimer's disease (AD) is one of the most common neurodegenerative diseases. In the last decade, studies on AD diagnosis has attached great significance to artificial intelligence-based diagnostic algorithms. Among the diverse modalities of imaging data, T1-weighted MR and FDG-PET are widely used for this task. In this paper, we propose a convolutional neural network (CNN) to integrate all the multi-modality information included in both T1-MR and FDG-PET images of the hippocampal area, for the diagnosis of AD. Different from the traditional machine learning algorithms, this method does not require manually extracted features, instead, it utilizes 3D image-processing CNNs to learn features for the diagnosis or prognosis of AD. To test the performance of the proposed network, we trained the classifier with paired T1-MR and FDG-PET images in the ADNI datasets, including 731 cognitively unimpaired (labeled as CN) subjects, 647 subjects with AD, 441 subjects with stable mild cognitive impairment (sMCI) and 326 subjects with progressive mild cognitive impairment (pMCI). We obtained higher accuracies of 90.10% for CN vs. AD task, 87.46% for CN vs. pMCI task, and 76.90% for sMCI vs. pMCI task. The proposed framework yields a state-of-the-art performance. Finally, the results have demonstrated that (1) segmentation is not a prerequisite when using a CNN for the classification, (2) the combination of two modality imaging data generates better results.
| S-EPMC6555226 | biostudies-literature