pt-sk/ml_research_abs huggingface dataset:
Diagnosis of COVID-19 using CT scan images and deep learning techniques.
Authors: VruddhiShah, RinkalKeniya, AkankshaShridharani, ManavPunjabi, JainamShah, NinadMehendale
Journal: Emergency radiology

Early diagnosis of the coronavirus disease in 2019 (COVID-19) is essential for controlling this pandemic. COVID-19 has been spreading rapidly all over the world. There is no vaccine available for this virus yet. Fast and accurate COVID-19 screening is possible using computed tomography (CT) scan images. The deep learning techniques used in the proposed method is based on a convolutional neural network (CNN). Our manuscript focuses on differentiating the CT scan images of COVID-19 and non-COVID 19 CT using different deep learning techniques. A self-developed model named CTnet-10 was designed for the COVID-19 diagnosis, having an accuracy of 82.1%. Also, other models that we tested are DenseNet-169, VGG-16, ResNet-50, InceptionV3, and VGG-19. The VGG-19 proved to be superior with an accuracy of 94.52% as compared to all other deep learning models. Automated diagnosis of COVID-19 from the CT scan pictures can be used by the doctors as a quick and efficient method for COVID-19 screening.
Convolutional neural network use chest radiography images for identification of COVID-19.
Authors: DMurali, EBhuvaneswari, SParvathi, A NSanjeev Kumar
Journal: Materials today. Proceedings

The epic Covid sickness 2019 (COVID-19) has turned into the significant danger to humankind in year 2020. The pandemic COVID-19 flare-up has influenced more than 2.7 million individuals and caused around 187 thousand fatalities worldwide [1] inside scarcely any months of its first appearance in Wuhan city of China and the number is developing quickly in various pieces of world. As researcher everywhere on the world are battling to discover the fix and treatment for COVID-19, the urgent advance fighting against COVID-19 is the screening of immense number of associated cases for disconnection and isolate with the patients. One of the key methodologies in screening of COVID-19 can be chest radiological imaging. The early investigations on the patients influenced by COVID-19 shows the attributes variations from the norm in chest radiography pictures. This introduced a chance to utilize distinctive counterfeit clever (AI) frameworks dependent on profound picking up utilizing chest radiology pictures for the recognition of COVID-19 and numerous such framework were proposed indicating promising outcomes. In this paper, we proposed a profound learning based convolution neural organization to characterize COVID-19, Pneumonia and Normal cases from chest radiology pictures. The proposed convolution neural organization (CNN) grouping model had the option to accomplish exactness of 94.85% on test dataset. The trial was completed utilizing the subset of information accessible in GitHub and Kaggle.
Automatic Screening of COVID-19 Using an Optimized Generative Adversarial Network.
Authors: TriptiGoel, RMurugan, SeyedaliMirjalili, Deba KumarChakrabartty
Journal: Cognitive computation

The quick spread of coronavirus disease (COVID-19) has resulted in a global pandemic and more than fifteen million confirmed cases. To battle this spread, clinical imaging techniques, for example, computed tomography (CT), can be utilized for diagnosis. Automatic identification software tools are essential for helping to screen COVID-19 using CT images. However, there are few datasets available, making it difficult to train deep learning (DL) networks. To address this issue, a generative adversarial network (GAN) is proposed in this work to generate more CT images. The Whale Optimization Algorithm (WOA) is used to optimize the hyperparameters of GAN's generator. The proposed method is tested and validated with different classification and meta-heuristics algorithms using the SARS-CoV-2 CT-Scan dataset, consisting of COVID-19 and non-COVID-19 images. The performance metrics of the proposed optimized model, including accuracy (99.22%), sensitivity (99.78%), specificity (97.78%), F1-score (98.79%), positive predictive value (97.82%), and negative predictive value (99.77%), as well as its confusion matrix and receiver operating characteristic (ROC) curves, indicate that it performs better than state-of-the-art methods. This proposed model will help in the automatic screening of COVID-19 patients and decrease the burden on medicinal services frameworks.
COVID-19 classification by CCSHNet with deep fusion using transfer learning and discriminant correlation analysis.
Authors: Shui-HuaWang, Deepak RanjanNayak, David SGuttery, XinZhang, Yu-DongZhang
Journal: An international journal on information fusion

: COVID-19 is a disease caused by a new strain of coronavirus. Up to 18th October 2020, worldwide there have been 39.6 million confirmed cases resulting in more than 1.1 million deaths. To improve diagnosis, we aimed to design and develop a novel advanced AI system for COVID-19 classification based on chest CT (CCT) images.
: Our dataset from local hospitals consisted of 284 COVID-19 images, 281 community-acquired pneumonia images, 293 secondary pulmonary tuberculosis images; and 306 healthy control images. We first used pretrained models (PTMs) to learn features, and proposed a novel (L, 2) transfer feature learning algorithm to extract features, with a hyperparameter of number of layers to be removed (NLR, symbolized as 
: On the test set, CCSHNet achieved sensitivities of four classes of 95.61%, 96.25%, 98.30%, and 97.86%, respectively. The precision values of four classes were 97.32%, 96.42%, 96.99%, and 97.38%, respectively. The F1 scores of four classes were 96.46%, 96.33%, 97.64%, and 97.62%, respectively. The MA F1 score was 97.04%. In addition, CCSHNet outperformed 12 state-of-the-art COVID-19 detection methods.
: CCSHNet is effective in detecting COVID-19 and other lung infectious diseases using first-line clinical imaging and can therefore assist radiologists in making accurate diagnoses based on CCTs.
Deep COVID DeteCT: an international experience on COVID-19 lung detection and prognosis using chest CT.
Authors: Edward HLee, JimmyZheng, ErrolColak, MaryamMohammadzadeh, GolnazHoushmand, NicholasBevins, FelipeKitamura, EmreAltinmakas, Eduardo PontesReis, Jae-KwangKim, ChadKlochko, MichelleHan, SadeghMoradian, AliMohammadzadeh, HashemSharifian, HassanHashemi, KavousFirouznia, HossienGhanaati, MasoumehGity, HakanDoğan, HojjatSalehinejad, HenriqueAlves, JayneSeekins, NitamarAbdala, ÇetinAtasoy, HamidrezaPouraliakbar, MajidMaleki, S SimonWong, Kristen WYeom
Journal: NPJ digital medicine

The Coronavirus disease 2019 (COVID-19) presents open questions in how we clinically diagnose and assess disease course. Recently, chest computed tomography (CT) has shown utility for COVID-19 diagnosis. In this study, we developed Deep COVID DeteCT (DCD), a deep learning convolutional neural network (CNN) that uses the entire chest CT volume to automatically predict COVID-19 (COVID+) from non-COVID-19 (COVID-) pneumonia and normal controls. We discuss training strategies and differences in performance across 13 international institutions and 8 countries. The inclusion of non-China sites in training significantly improved classification performance with area under the curve (AUCs) and accuracies above 0.8 on most test sites. Furthermore, using available follow-up scans, we investigate methods to track patient disease course and predict prognosis.
Chest Imaging of Patients with Sarcoidosis and SARS-CoV-2 Infection. Current Evidence and Clinical Perspectives.
Authors: ClaudioTana, CesareMantini, FrancescoCipollone, Maria AdeleGiamberardino
Journal: Diagnostics (Basel, Switzerland)

The recent COVID-19 pandemic has dramatically changed the world in the last months, leading to a serious global emergency related to a novel coronavirus infection that affects both sexes of all ages ubiquitously. Advanced age, cardiovascular comorbidity, and viral load have been hypothesized as some of the risk factors for severity, but their role in patients affected with other diseases, in particular immune disorders, such as sarcoidosis, and the specific interaction between these two diseases remains unclear. The two conditions might share similar imaging findings but have distinctive features that are here described. The recent development of complex imaging softwares, called deep learning techniques, opens new scenarios for the diagnosis and management.
Integrating deep learning CT-scan model, biological and clinical variables to predict severity of COVID-19 patients.
Authors: NathalieLassau, SamyAmmari, EmilieChouzenoux, HugoGortais, PaulHerent, MatthieuDevilder, SamerSoliman, OlivierMeyrignac, Marie-PaulineTalabard, Jean-PhilippeLamarque, RemyDubois, NicolasLoiseau, PaulTrichelair, EtienneBendjebbar, GabrielGarcia, CorinneBalleyguier, MansouriaMerad, AnnabelleStoclin, SimonJegou, FranckGriscelli, NicolasTetelboum, YingpingLi, SagarVerma, MatthieuTerris, TasnimDardouri, KavyaGupta, AnaNeacsu, FrankChemouni, MeriemSefta, PaulJehanno, ImadBousaid, YannickBoursin, EmmanuelPlanchet, MikaelAzoulay, JocelynDachary, FabienBrulport, AdrianGonzalez, OlivierDehaene, Jean-BaptisteSchiratti, KathrynSchutte, Jean-ChristophePesquet, HuguesTalbot, ElodiePronier, GillesWainrib, ThomasClozel, FabriceBarlesi, Marie-FranceBellin, Michael G BBlum
Journal: Nature communications

The SARS-COV-2 pandemic has put pressure on intensive care units, so that identifying predictors of disease severity is a priority. We collect 58 clinical and biological variables, and chest CT scan data, from 1003 coronavirus-infected patients from two French hospitals. We train a deep learning model based on CT scans to predict severity. We then construct the multimodal AI-severity score that includes 5 clinical and biological variables (age, sex, oxygenation, urea, platelet) in addition to the deep learning model. We show that neural network analysis of CT-scans brings unique prognosis information, although it is correlated with other markers of severity (oxygenation, LDH, and CRP) explaining the measurable but limited 0.03 increase of AUC obtained when adding CT-scan information to clinical variables. Here, we show that when comparing AI-severity with 11 existing severity scores, we find significantly improved prognosis performance; AI-severity can therefore rapidly become a reference scoring approach.
A Novel Block Imaging Technique Using Nine Artificial Intelligence Models for COVID-19 Disease Classification, Characterization and Severity Measurement in Lung Computed Tomography Scans on an Italian Cohort.
Authors: MohitAgarwal, LucaSaba, Suneet KGupta, AlessandroCarriero, ZenoFalaschi, AlessioPaschè, PietroDanna, AymanEl-Baz, SubbaramNaidu, Jasjit SSuri
Journal: Journal of medical systems

Computer Tomography (CT) is currently being adapted for visualization of COVID-19 lung damage. Manual classification and characterization of COVID-19 may be biased depending on the expert's opinion. Artificial Intelligence has recently penetrated COVID-19, especially deep learning paradigms. There are nine kinds of classification systems in this study, namely one deep learning-based CNN, five kinds of transfer learning (TL) systems namely VGG16, DenseNet121, DenseNet169, DenseNet201 and MobileNet, three kinds of machine-learning (ML) systems, namely artificial neural network (ANN), decision tree (DT), and random forest (RF) that have been designed for classification of COVID-19 segmented CT lung against Controls. Three kinds of characterization systems were developed namely (a) Block imaging for COVID-19 severity index (CSI); (b) Bispectrum analysis; and (c) Block Entropy. A cohort of Italian patients with 30 controls (990 slices) and 30 COVID-19 patients (705 slices) was used to test the performance of three types of classifiers. Using K10 protocol (90% training and 10% testing), the best accuracy and AUC was for DCNN and RF pairs were 99.41 ± 5.12%, 0.991 (p < 0.0001), and 99.41 ± 0.62%, 0.988 (p < 0.0001), respectively, followed by other ML and TL classifiers. We show that diagnostics odds ratio (DOR) was higher for DL compared to ML, and both, Bispecturm and Block Entropy shows higher values for COVID-19 patients. CSI shows an association with Ground Glass Opacities (0.9146, p < 0.0001). Our hypothesis holds true that deep learning shows superior performance compared to machine learning models. Block imaging is a powerful novel approach for pinpointing COVID-19 severity and is clinically validated.
Synergistic learning of lung lobe segmentation and hierarchical multi-instance classification for automated severity assessment of COVID-19 in CT images.
Authors: KeleiHe, WeiZhao, XingzhiXie, WenJi, MingxiaLiu, ZhenyuTang, YinghuanShi, FengShi, YangGao, JunLiu, JunfengZhang, DinggangShen
Journal: Pattern recognition

Understanding chest CT imaging of the coronavirus disease 2019 (COVID-19) will help detect infections early and assess the disease progression. Especially, automated severity assessment of COVID-19 in CT images plays an essential role in identifying cases that are in great need of intensive clinical care. However, it is often challenging to accurately assess the severity of this disease in CT images, due to variable infection regions in the lungs, similar imaging biomarkers, and large inter-case variations. To this end, we propose a synergistic learning framework for automated severity assessment of COVID-19 in 3D CT images, by jointly performing lung lobe segmentation and multi-instance classification. Considering that only a few infection regions in a CT image are related to the severity assessment, we first represent each input image by a bag that contains a set of 2D image patches (with each cropped from a specific slice). A multi-task multi-instance deep network (called M
Computer aid screening of COVID-19 using X-ray and CT scan images: An inner comparison.
Authors: Prabira KumarSethy, Santi KumariBehera, KommaAnitha, ChankiPandey, M RKhan
Journal: Journal of X-ray science and technology

The objective of this study is to conduct a critical analysis to investigate and compare a group of computer aid screening methods of COVID-19 using chest X-ray images and computed tomography (CT) images. The computer aid screening method includes deep feature extraction, transfer learning, and machine learning image classification approach. The deep feature extraction and transfer learning method considered 13 pre-trained CNN models. The machine learning approach includes three sets of handcrafted features and three classifiers. The pre-trained CNN models include AlexNet, GoogleNet, VGG16, VGG19, Densenet201, Resnet18, Resnet50, Resnet101, Inceptionv3, Inceptionresnetv2, Xception, MobileNetv2 and ShuffleNet. The handcrafted features are GLCM, LBP & HOG, and machine learning based classifiers are KNN, SVM & Naive Bayes. In addition, the different paradigms of classifiers are also analyzed. Overall, the comparative analysis is carried out in 65 classification models, i.e., 13 in deep feature extraction, 13 in transfer learning, and 39 in the machine learning approaches. Finally, all classification models perform better when applying to the chest X-ray image set as comparing to the use of CT scan image set. Among 65 classification models, the VGG19 with SVM achieved the highest accuracy of 99.81%when applying to the chest X-ray images. In conclusion, the findings of this analysis study are beneficial for the researchers who are working towards designing computer aid tools for screening COVID-19 infection diseases.
Deep Ensemble Model for Classification of Novel Coronavirus in Chest X-Ray Images.
Authors: FareedAhmad, AmjadFarooq, Muhammad UsmanGhani
Journal: Computational intelligence and neuroscience

The novel coronavirus, SARS-CoV-2, can be deadly to people, causing COVID-19. The ease of its propagation, coupled with its high capacity for illness and death in infected individuals, makes it a hazard to the community. Chest X-rays are one of the most common but most difficult to interpret radiographic examination for early diagnosis of coronavirus-related infections. They carry a considerable amount of anatomical and physiological information, but it is sometimes difficult even for the expert radiologist to derive the related information they contain. Automatic classification using deep learning models can help in better assessing these infections swiftly. Deep CNN models, namely, MobileNet, ResNet50, and InceptionV3, were applied with different variations, including training the model from the start, fine-tuning along with adjusting learned weights of all layers, and fine-tuning with learned weights along with augmentation. Fine-tuning with augmentation produced the best results in pretrained models. Out of these, two best-performing models (MobileNet and InceptionV3) selected for ensemble learning produced accuracy and FScore of 95.18% and 90.34%, and 95.75% and 91.47%, respectively. The proposed hybrid ensemble model generated with the merger of these deep models produced a classification accuracy and FScore of 96.49% and 92.97%. For test dataset, which was separately kept, the model generated accuracy and FScore of 94.19% and 88.64%. Automatic classification using deep ensemble learning can help radiologists in the correct identification of coronavirus-related infections in chest X-rays. Consequently, this swift and computer-aided diagnosis can help in saving precious human lives and minimizing the social and economic impact on society.
Association of AI quantified COVID-19 chest CT and patient outcome.
Authors: XiFang, UweKruger, FatemehHomayounieh, HanqingChao, JiajinZhang, Subba RDigumarthy, Chiara DArru, Mannudeep KKalra, PingkunYan
Journal: International journal of computer assisted radiology and surgery

Severity scoring is a key step in managing patients with COVID-19 pneumonia. However, manual quantitative analysis by radiologists is a time-consuming task, while qualitative evaluation may be fast but highly subjective. This study aims to develop artificial intelligence (AI)-based methods to quantify disease severity and predict COVID-19 patient outcome.
We develop an AI-based framework that employs deep neural networks to efficiently segment lung lobes and pulmonary opacities. The volume ratio of pulmonary opacities inside each lung lobe gives the severity scores of the lobes, which are then used to predict ICU admission and mortality with three different machine learning methods. The developed methods were evaluated on datasets from two hospitals (site A: Firoozgar Hospital, Iran, 105 patients; site B: Massachusetts General Hospital, USA, 88 patients).
AI-based severity scores are strongly associated with those evaluated by radiologists (Spearman's rank correlation 0.837, [Formula: see text]). Using AI-based scores produced significantly higher ([Formula: see text]) area under the ROC curve (AUC) values. The developed AI method achieved the best performance of AUC = 0.813 (95% CI [0.729, 0.886]) in predicting ICU admission and AUC = 0.741 (95% CI [0.640, 0.837]) in mortality estimation on the two datasets.
Accurate severity scores can be obtained using the developed AI methods over chest CT images. The computed severity scores achieved better performance than radiologists in predicting COVID-19 patient outcome by consistently quantifying image features. Such developed techniques of severity assessment may be extended to other lung diseases beyond the current pandemic.
Automated Detection and Quantification of COVID-19 Airspace Disease on Chest Radiographs: A Novel Approach Achieving Expert Radiologist-Level Performance Using a Deep Convolutional Neural Network Trained on Digital Reconstructed Radiographs From Computed Tomography-Derived Ground Truth.
Authors: Eduardo JMortani Barbosa, Warren BGefter, Florin CGhesu, SiqiLiu, BorisMailhe, AwaisMansoor, SasaGrbic, SebastianVogt
Journal: Investigative radiology

The aim of this study was to leverage volumetric quantification of airspace disease (AD) derived from a superior modality (computed tomography [CT]) serving as ground truth, projected onto digitally reconstructed radiographs (DRRs) to (1) train a convolutional neural network (CNN) to quantify AD on paired chest radiographs (CXRs) and CTs, and (2) compare the DRR-trained CNN to expert human readers in the CXR evaluation of patients with confirmed COVID-19.
We retrospectively selected a cohort of 86 COVID-19 patients (with positive reverse transcriptase-polymerase chain reaction test results) from March to May 2020 at a tertiary hospital in the northeastern United States, who underwent chest CT and CXR within 48 hours. The ground-truth volumetric percentage of COVID-19-related AD (POv) was established by manual AD segmentation on CT. The resulting 3-dimensional masks were projected into 2-dimensional anterior-posterior DRR to compute area-based AD percentage (POa). A CNN was trained with DRR images generated from a larger-scale CT dataset of COVID-19 and non-COVID-19 patients, automatically segmenting lungs, AD, and quantifying POa on CXR. The CNN POa results were compared with POa quantified on CXR by 2 expert readers and to the POv ground truth, by computing correlations and mean absolute errors.
Bootstrap mean absolute error and correlations between POa and POv were 11.98% (11.05%-12.47%) and 0.77 (0.70-0.82) for average of expert readers and 9.56% to 9.78% (8.83%-10.22%) and 0.78 to 0.81 (0.73-0.85) for the CNN, respectively.
Our CNN trained with DRR using CT-derived airspace quantification achieved expert radiologist level of accuracy in the quantification of AD on CXR in patients with positive reverse transcriptase-polymerase chain reaction test results for COVID-19.
ADOPT: automatic deep learning and optimization-based approach for detection of novel coronavirus COVID-19 disease using X-ray images.
Authors: GauravDhiman, VictorChang, KrishnaKant Singh, AchyutShankar
Journal: Journal of biomolecular structure & dynamics

In the hospital, because of the rise in cases daily, there are a small number of COVID-19 test kits available. For this purpose, a rapid alternative diagnostic choice to prevent COVID-19 spread among individuals must be implemented as an automatic detection method. In this article, the multi-objective optimization and deep learning-based technique for identifying infected patients with coronavirus using X-rays is proposed. J48 decision tree approach classifies the deep feature of corona affected X-ray images for the efficient detection of infected patients. In this study, 11 different convolutional neural network-based (CNN) models (AlexNet, VGG16, VGG19, GoogleNet, ResNet18, ResNet50, ResNet101, InceptionV3, InceptionResNetV2, DenseNet201 and XceptionNet) are developed for detection of infected patients with coronavirus pneumonia using X-ray images. The efficiency of the proposed model is tested using k-fold cross-validation method. Moreover, the parameters of CNN deep learning model are tuned using multi-objective spotted hyena optimizer (MOSHO). Extensive analysis shows that the proposed model can classify the X-ray images at a good accuracy, precision, recall, specificity and F1-score rates. Extensive experimental results reveal that the proposed model outperforms competitive models in terms of well-known performance metrics. Hence, the proposed model is useful for real-time COVID-19 disease classification from X-ray chest images.Communicated by Ramaswamy H. Sarma.