pt-sk/ml_research_abs huggingface dataset:
Redefining Lobe-Wise Ground-Glass Opacity in COVID-19 Through Deep Learning and its Correlation With Biochemical Parameters.
Authors: BudhadevBaral, KartikMuduli, ShwetaJakhmola, OmkarIndari, JatinJangir, Ashraf HaroonRashid, SuchitaJain, Amrut KumarMohapatra, ShubhransuPatro, PreetinandaParida, NamrataMisra, Ambika PrasadMohanty, Bikash RSahu, Ajay KumarJain, SelvakumarElangovan, Hamendra SinghParmar, MTanveer, Nirmal KumarMohakud, Hem ChandraJha
Journal: IEEE journal of biomedical and health informatics

During COVID-19 pandemic qRT-PCR, CT scans and biochemical parameters were studied to understand the patients' physiological changes and disease progression. There is a lack of clear understanding of the correlation of lung inflammation with biochemical parameters available. Among the 1136 patients studied, C-reactive-protein (CRP) is the most critical parameter for classifying symptomatic and asymptomatic groups. Elevated CRP is corroborated with increased D-dimer, Gamma-glutamyl-transferase (GGT), and urea levels in COVID-19 patients. To overcome the limitations of manual chest CT scoring system, we segmented the lungs and detected ground-glass-opacity (GGO) in specific lobes from 2D CT images by 2D U-Net-based deep learning (DL) approach. Our method shows accuracy, compared to the manual method (  ∼ 80%), which is subjected to the radiologist's experience. We determined a positive correlation of GGO in the right upper-middle (0.34) and lower (0.26) lobe with D-dimer. However, a modest correlation was observed with CRP, ferritin and other studied parameters. The final Dice Coefficient (or the F1 score) and Intersection-Over-Union for testing accuracy are 95.44% and 91.95%, respectively. This study can help reduce the burden and manual bias besides increasing the accuracy of GGO scoring. Further study on geographically diverse large populations may help to understand the association of the biochemical parameters and pattern of GGO in lung lobes with different SARS-CoV-2 Variants of Concern's disease pathogenesis in these populations.
Smart Artificial Intelligence techniques using embedded band for diagnosis and combating COVID-19.
Authors: MAshwin, Abdulrahman SaadAlqahtani, AzathMubarakali
Journal: Microprocessors and microsystems

Recently, COVID-19 virus spread to create a major impact in human body worldwide. The Corona virus, initiated by the SARS-CoV-2 virus, was known in China, December 2019 and affirmed a worldwide epidemic by the World Health Organization on 11 March 2020. The core aim of this research is to detect the spreading of COVID-19 virus and solve the problems in human lungs infection quickly. An Artificial Intelligence (AI) technique is a possibly controlling device in the battle against the corona virus epidemic. Recently, AI with computational techniques are utilized for COVID-19 virus with the building blocks of Deep Learning method using Recurrent Neural Network (RNN) and Convolutional Neural Network (CNN) is used to classify and identify the lung images affected region. These two algorithms used to diagnose COVID-19 infections rapidly. The AI applications against COVID-19 are Medical Imaging for Diagnosis, Lung delineation, Lesion measurement, Non-Invasive Measurements for Disease Tracking, Patient Outcome Prediction, Molecular Scale: from Proteins to Drug Development and Societal Scale: Epidemiology and Infodemiology.
Federated Active Learning for Multicenter Collaborative Disease Diagnosis.
Authors: XingWu, JiePei, ChengChen, YiminZhu, JianjiaWang, QuanQian, JianZhang, QunSun, YikeGuo
Journal: IEEE transactions on medical imaging

Current computer-aided diagnosis system with deep learning method plays an important role in the field of medical imaging. The collaborative diagnosis of diseases by multiple medical institutions has become a popular trend. However, large scale annotations put heavy burdens on medical experts. Furthermore, the centralized learning system has defects in privacy protection and model generalization. To meet these challenges, we propose two federated active learning methods for multicenter collaborative diagnosis of diseases: the Labeling Efficient Federated Active Learning (LEFAL) and the Training Efficient Federated Active Learning (TEFAL). The proposed LEFAL applies a task-agnostic hybrid sampling strategy considering data uncertainty and diversity simultaneously to improve data efficiency. The proposed TEFAL evaluates the client informativeness with a discriminator to improve client efficiency. On the Hyper-Kvasir dataset for gastrointestinal disease diagnosis, with only 65% of labeled data, the LEFAL achieves 95% performance on the segmentation task with whole labeled data. Moreover, on the CC-CCII dataset for COVID-19 diagnosis, with only 50 iterations, the accuracy and F1-score of TEFAL are 0.90 and 0.95, respectively on the classification task. Extensive experimental results demonstrate that the proposed federated active learning methods outperform state-of-the-art methods on segmentation and classification tasks for multicenter collaborative disease diagnosis.
Benchmark methodological approach for the application of artificial intelligence to lung ultrasound data from COVID-19 patients: From frame to prognostic-level.
Authors: UmairKhan, SajjadAfrakhteh, FedericoMento, NoreenFatima, LauraDe Rosa, Leonardo LucioCustode, ZihadulAzam, ElenaTorri, GinoSoldati, FrancescoTursi, Veronica NarvenaMacioce, AndreaSmargiassi, RiccardoInchingolo, TizianoPerrone, GiovanniIacca, LibertarioDemi
Journal: Ultrasonics

Automated ultrasound imaging assessment of the effect of CoronaVirus disease 2019 (COVID-19) on lungs has been investigated in various studies using artificial intelligence-based (AI) methods. However, an extensive analysis of state-of-the-art Convolutional Neural Network-based (CNN) models for frame-level scoring, a comparative analysis of aggregation techniques for video-level scoring, together with a thorough evaluation of the capability of these methodologies to provide a clinically valuable prognostic-level score is yet missing within the literature. In addition to that, the impact on the analysis of the posterior probability assigned by the network to the predicted frames as well as the impact of temporal downsampling of LUS data are topics not yet extensively investigated. This paper takes on these challenges by providing a benchmark analysis of methods from frame to prognostic level. For frame-level scoring, state-of-the-art deep learning models are evaluated with additional analysis of best performing model in transfer-learning settings. A novel cross-correlation based aggregation technique is proposed for video and exam-level scoring. Results showed that ResNet-18, when trained from scratch, outperformed the existing methods with an F1-Score of 0.659. The proposed aggregation method resulted in 59.51%, 63.29%, and 84.90% agreement with clinicians at the video, exam, and prognostic levels, respectively; thus, demonstrating improved performances over the state of the art. It was also found that filtering frames based on the posterior probability shows higher impact on the LUS analysis in comparison to temporal downsampling. All of these analysis were conducted over the largest standardized and clinically validated LUS dataset from COVID-19 patients.
PCovNet+: A CNN-VAE anomaly detection framework with LSTM embeddings for smartwatch-based COVID-19 detection.
Authors: Farhan FuadAbir, Muhammad E HChowdhury, Malisha IslamTapotee, AdamMushtak, AmithKhandakar, SakibMahmud, Md AnwarulHasan
Journal: Engineering applications of artificial intelligence

The world is slowly recovering from the Coronavirus disease 2019 (COVID-19) pandemic; however, humanity has experienced one of its According to work by Mishra et al. (2020), the study's first phase included a cohort of 5,262 subjects, with 3,325 Fitbit users constituting the majority. However, among this large cohort of 5,262 subjects, most significant trials in modern times only to learn about its lack of preparedness in the face of a highly contagious pathogen. To better prepare the world for any new mutation of the same pathogen or the newer ones, technological development in the healthcare system is a must. Hence, in this work, PCovNet+, a deep learning framework, was proposed for smartwatches and fitness trackers to monitor the user's Resting Heart Rate (RHR) for the infection-induced anomaly. A convolutional neural network (CNN)-based variational autoencoder (VAE) architecture was used as the primary model along with a long short-term memory (LSTM) network to create latent space embeddings for the VAE. Moreover, the framework employed pre-training using normal data from healthy subjects to circumvent the data shortage problem in the personalized models. This framework was validated on a dataset of 68 COVID-19-infected subjects, resulting in anomalous RHR detection with precision, recall, F-beta, and F-1 score of 0.993, 0.534, 0.9849, and 0.6932, respectively, which is a significant improvement compared to the literature. Furthermore, the PCovNet+ framework successfully detected COVID-19 infection for 74% of the subjects (47% presymptomatic and 27% post-symptomatic detection). The results prove the usability of such a system as a secondary diagnostic tool enabling continuous health monitoring and contact tracing.
A COVID-19 medical image classification algorithm based on Transformer.
Authors: KeyingRen, GengHong, XiaoyanChen, ZichenWang
Journal: Scientific reports

Coronavirus 2019 (COVID-19) is a new acute respiratory disease that has spread rapidly throughout the world. This paper proposes a novel deep learning network based on ResNet-50 merged transformer named RMT-Net. On the backbone of ResNet-50, it uses Transformer to capture long-distance feature information, adopts convolutional neural networks and depth-wise convolution to obtain local features, reduce the computational cost and acceleration the detection process. The RMT-Net includes four stage blocks to realize the feature extraction of different receptive fields. In the first three stages, the global self-attention method is adopted to capture the important feature information and construct the relationship between tokens. In the fourth stage, the residual blocks are used to extract the details of feature. Finally, a global average pooling layer and a fully connected layer perform classification tasks. Training, verification and testing are carried out on self-built datasets. The RMT-Net model is compared with ResNet-50, VGGNet-16, i-CapsNet and MGMADS-3. The experimental results show that the RMT-Net model has a Test_ acc of 97.65% on the X-ray image dataset, 99.12% on the CT image dataset, which both higher than the other four models. The size of RMT-Net model is only 38.5 M, and the detection speed of X-ray image and CT image is 5.46 ms and 4.12 ms per image, respectively. It is proved that the model can detect and classify COVID-19 with higher accuracy and efficiency.
Multi-head deep learning framework for pulmonary disease detection and severity scoring with modified progressive learning.
Authors: Asad MansoorKhan, Muhammad UsmanAkram, SajidNazir, TaimurHassan, Sajid GulKhawaja, TatheerFatima
Journal: Biomedical signal processing and control

Chest X-rays (CXR) are the most commonly used imaging methodology in radiology to diagnose pulmonary diseases with close to 2 billion CXRs taken every year. The recent upsurge of COVID-19 and its variants accompanied by pneumonia and tuberculosis can be fatal in some cases and lives could be saved through early detection and appropriate intervention for the advanced cases. Thus CXRs can be used for an automated severity grading of pulmonary diseases that can aid radiologists in making better and informed diagnoses. In this article, we propose a single framework for disease classification and severity scoring produced by segmenting the lungs into six regions. We present a modified progressive learning technique in which the amount of augmentations at each step is capped. Our base network in the framework is first trained using modified progressive learning and can then be tweaked for new data sets. Furthermore, the segmentation task makes use of an attention map generated within and by the network itself. This attention mechanism allows to achieve segmentation results that are on par with networks having an order of magnitude or more parameters. We also propose severity score grading for 4 thoracic diseases that can provide a single-digit score corresponding to the spread of opacity in different lung segments with the help of radiologists. The proposed framework is evaluated using the BRAX data set for segmentation and classification into six classes with severity grading for a subset of the classes. On the BRAX validation data set, we achieve F1 scores of 0.924 and 0.939 without and with fine-tuning, respectively. A mean matching score of 80.8% is obtained for severity score grading while an average area under receiver operating characteristic curve of 0.88 is achieved for classification.
Computer-Aided Diagnosis of COVID-19 from Chest X-ray Images Using Hybrid-Features and Random Forest Classifier.
Authors: KashifShaheed, PiotrSzczuko, QaisarAbbas, AyyazHussain, MubarakAlbathan
Journal: Healthcare (Basel, Switzerland)

In recent years, a lot of attention has been paid to using radiology imaging to automatically find COVID-19. (1) Background: There are now a number of computer-aided diagnostic schemes that help radiologists and doctors perform diagnostic COVID-19 tests quickly, accurately, and consistently. (2) Methods: Using chest X-ray images, this study proposed a cutting-edge scheme for the automatic recognition of COVID-19 and pneumonia. First, a pre-processing method based on a Gaussian filter and logarithmic operator is applied to input chest X-ray (CXR) images to improve the poor-quality images by enhancing the contrast, reducing the noise, and smoothing the image. Second, robust features are extracted from each enhanced chest X-ray image using a Convolutional Neural Network (CNNs) transformer and an optimal collection of grey-level co-occurrence matrices (GLCM) that contain features such as contrast, correlation, entropy, and energy. Finally, based on extracted features from input images, a random forest machine learning classifier is used to classify images into three classes, such as COVID-19, pneumonia, or normal. The predicted output from the model is combined with Gradient-weighted Class Activation Mapping (Grad-CAM) visualisation for diagnosis. (3) Results: Our work is evaluated using public datasets with three different train-test splits (70-30%, 80-20%, and 90-10%) and achieved an average accuracy, F1 score, recall, and precision of 97%, 96%, 96%, and 96%, respectively. A comparative study shows that our proposed method outperforms existing and similar work. The proposed approach can be utilised to screen COVID-19-infected patients effectively. (4) Conclusions: A comparative study with the existing methods is also performed. For performance evaluation, metrics such as accuracy, sensitivity, and F1-measure are calculated. The performance of the proposed method is better than that of the existing methodologies, and it can thus be used for the effective diagnosis of the disease.
Comparative Analysis of Clinical and CT Findings in Patients with SARS-CoV-2 Original Strain, Delta and Omicron Variants.
Authors: XiaoyuHan, JingzeChen, LuChen, XiJia, YanqingFan, YutingZheng, OsamahAlwalid, JieLiu, YuminLi, NaLi, JinGu, JiangtaoWang, HeshuiShi
Journal: Biomedicines

To compare the clinical characteristics and chest CT findings of patients infected with Omicron and Delta variants and the original strain of COVID-19.
A total of 503 patients infected with the original strain (245 cases), Delta variant (90 cases), and Omicron variant (168 cases) were retrospectively analyzed. The differences in clinical severity and chest CT findings were analyzed. We also compared the infection severity of patients with different vaccination statuses and quantified pneumonia by a deep-learning approach.
The rate of severe disease decreased significantly from the original strain to the Delta variant and Omicron variant (27% vs. 10% vs. 4.8%, 
Compared with the original strain and Delta variant, the Omicron variant had less clinical severity and less lung injury on CT scans.
Design and Analysis of a Deep Learning Ensemble Framework Model for the Detection of COVID-19 and Pneumonia Using Large-Scale CT Scan and X-ray Image Datasets.
Authors: XingsiXue, SeelammalChinnaperumal, Ghaida MuttasharAbdulsahib, Rajasekhar ReddyManyam, RajaMarappan, Sekar KidambiRaju, Osamah IbrahimKhalaf
Journal: Bioengineering (Basel, Switzerland)

Recently, various methods have been developed to identify COVID-19 cases, such as PCR testing and non-contact procedures such as chest X-rays and computed tomography (CT) scans. Deep learning (DL) and artificial intelligence (AI) are critical tools for early and accurate detection of COVID-19. This research explores the different DL techniques for identifying COVID-19 and pneumonia on medical CT and radiography images using ResNet152, VGG16, ResNet50, and DenseNet121. The ResNet framework uses CT scan images with accuracy and precision. This research automates optimum model architecture and training parameters. Transfer learning approaches are also employed to solve content gaps and shorten training duration. An upgraded VGG16 deep transfer learning architecture is applied to perform multi-class classification for X-ray imaging tasks. Enhanced VGG16 has been proven to recognize three types of radiographic images with 99% accuracy, typical for COVID-19 and pneumonia. The validity and performance metrics of the proposed model were validated using publicly available X-ray and CT scan data sets. The suggested model outperforms competing approaches in diagnosing COVID-19 and pneumonia. The primary outcomes of this research result in an average F-score (95%, 97%). In the event of healthy viral infections, this research is more efficient than existing methodologies for coronavirus detection. The created model is appropriate for recognition and classification pre-training. The suggested model outperforms traditional strategies for multi-class categorization of various illnesses.
Perceptive SARS-CoV-2 End-To-End Ultrasound Video Classification through X3D and Key-Frames Selection.
Authors: MarcoGazzoni, MarcoLa Salvia, EmanueleTorti, GianmarcoSecco, StefanoPerlini, FrancescoLeporati
Journal: Bioengineering (Basel, Switzerland)

The SARS-CoV-2 pandemic challenged health systems worldwide, thus advocating for practical, quick and highly trustworthy diagnostic instruments to help medical personnel. It features a long incubation period and a high contagion rate, causing bilateral multi-focal interstitial pneumonia, generally growing into acute respiratory distress syndrome (ARDS), causing hundreds of thousands of casualties worldwide. Guidelines for first-line diagnosis of pneumonia suggest Chest X-rays (CXR) for patients exhibiting symptoms. Potential alternatives include Computed Tomography (CT) scans and Lung UltraSound (LUS). Deep learning (DL) has been helpful in diagnosis using CT scans, LUS, and CXR, whereby the former commonly yields more precise results. CXR and CT scans present several drawbacks, including high costs. Radiation-free LUS imaging requires high expertise, and physicians thus underutilise it. LUS demonstrated a strong correlation with CT scans and reliability in pneumonia detection, even in the early stages. Here, we present an LUS video-classification approach based on contemporary DL strategies in close collaboration with Fondazione IRCCS Policlinico San Matteo's Emergency Department (ED) of Pavia. This research addressed SARS-CoV-2 patterns detection, ranked according to three severity scales by operating a trustworthy dataset comprising ultrasounds from linear and convex probes in 5400 clips from 450 hospitalised subjects. The main contributions of this study are related to the adoption of a standardised severity ranking scale to evaluate pneumonia. This evaluation relies on video summarisation through key-frame selection algorithms. Then, we designed and developed a video-classification architecture which emerged as the most promising. In contrast, the literature primarily concentrates on frame-pattern recognition. By using advanced techniques such as transfer learning and data augmentation, we were able to achieve an F1-Score of over 89% across all classes.
GW- CNNDC: Gradient weighted CNN model for diagnosing COVID-19 using radiography X-ray images.
Authors: PamulaUdayaraju, T VenkataNarayana, Sri HarshaVemparala, ChopparapuSrinivasarao, BhV S R KRaju
Journal: Measurement. Sensors

COVID-19 is one of the dangerous viruses that cause death if the patient doesn't identify it in the early stages. Firstly, this virus is identified in China, Wuhan city. This virus spreads very fast compared with other viruses. Many tests are there for detecting this virus, and also side effects may find while testing this disease. Corona-virus tests are now rare; there are restricted COVID-19 testing units and they can't be made quickly enough, causing alarm. Thus, we want to depend on other determination measures. There are three distinct sorts of COVID-19 testing systems: RTPCR, CT, and CXR. There are certain limitations to RTPCR, which is the most time-consuming technique, and CT-scan results in exposure to radiation which may cause further diseases. So, to overcome these limitations, the CXR technique emits comparatively less radiation, and the patient need not be close to the medical staff. COVID-19 detection from CXR images has been tested using a diversity of pre-trained deep-learning algorithms, with the best methods being fine-tuned to maximize detection accuracy. In this work, the model called GW-CNNDC is presented. The Lung Radiography pictures are portioned utilizing the Enhanced CNN model, deployed with RESNET-50 Architecture with an image size of 255*255 pixels. Afterward, the Gradient Weighted model is applied, which shows the specific separation regardless of whether the individual is impacted by Covid-19 affected area. This framework can perform twofold class assignments with exactness and accuracy, precision, recall, F1-score, and Loss value, and the model turns out proficiently for huge datasets with less measure of time.