Detecting the Absence of Lung Sliding in Lung Ultrasounds Using Deep Learning

Certain post-thoracic surgery complications are monitored in a standard manner using methods that employ ionising radiation. A need to automatise the diagnostic procedure has now arisen following the clinical trial of a novel lung ultrasound examination procedure that can replace X-rays. Deep learning was used as a powerful tool for lung ultrasound analysis. We present a novel deep-learning method, automated M-mode classification, to detect the absence of lung sliding motion in lung ultrasound. Automated M-mode classification leverages semantic segmentation to select 2D slices across the temporal dimension of the video recording. These 2D slices are the input for a convolutional neural network, and the output of the neural network indicates the presence or absence of lung sliding in the given time slot. We aggregate the partial predictions over the entire video recording to determine whether the subject has developed post-surgery complications. With a 64-frame version of this architecture, we detected lung sliding on average with a balanced accuracy of 89%, sensitivity of 82%, and specificity of 92%. Automated M-mode classification is suitable for lung sliding detection from clinical lung ultrasound videos. Furthermore, in lung ultrasound videos, we recommend using time windows between 0.53 and 2.13 s for the classification of lung sliding motion followed by aggregation.

Download Full-text

Peel Learning for Pathway-Related Outcome Prediction

Bioinformatics ◽

10.1093/bioinformatics/btab402 ◽

2021 ◽

Author(s):

Yuantong Li ◽

Fei Wang ◽

Mengying Yan ◽

Edward Cantu ◽

Fan Nils Yang ◽

...

Keyword(s):

Neural Network ◽

Deep Learning ◽

Outcome Prediction ◽

Group Structure ◽

Penalized Regression ◽

Small Sample ◽

Feed Forward Neural Network ◽

Gene Expressions ◽

Learning Methods ◽

Post Surgery

Abstract Motivation Traditional regression models are limited in outcome prediction due to their parametric nature. Current deep learning methods allow for various effects and interactions and have shown improved performance, but they typically need to be trained on a large amount of data to obtain reliable results. Gene expression studies often have small sample sizes but high dimensional correlated predictors so that traditional deep learning methods are not readily applicable. Results In this paper, we proposed peel learning, a novel neural network that incorporates the prior relationship among genes. In each layer of learning, overall structure is peeled into multiple local substructures. Within the substructure, dependency among variables is reduced through linear projections. The overall structure is gradually simplified over layers and weight parameters are optimized through a revised backpropagation. We applied PL to a small lung transplantation study to predict recipients’ post-surgery primary graft dysfunction using donors’ gene expressions within several immunology pathways, where PL showed improved prediction accuracy compared to conventional penalized regression, classification trees, feed-forward neural network, and a neural network assuming prior network structure. Through simulation studies, we also demonstrated the advantage of adding specific structure among predictor variables in neural network, over no or uniform group structure, which is more favorable in smaller studies. The empirical evidence is consistent with our theoretical proof of improved upper bound of PL’s complexity over ordinary neural networks. Availability and Implementation PL algorithm was implemented in Python and the open-source code and instruction will be available at https://github.com/Likelyt/Peel-Learning

Download Full-text

An Effective Convolutional Neural Network Model for the Early Detection of COVID-19 Using Chest X-ray Images

Applied Sciences ◽

10.3390/app112110301 ◽

2021 ◽

Vol 11 (21) ◽

pp. 10301

Author(s):

Muhammad Shoaib Farooq ◽

Attique Ur Rehman ◽

Muhammad Idrees ◽

Muhammad Ahsan Raza ◽

Jehad Ali ◽

...

Keyword(s):

Neural Network ◽

Deep Learning ◽

Convolutional Neural Network ◽

Real World ◽

Early Stage ◽

Binary Classification ◽

X Rays ◽

X Ray ◽

Proposed Model ◽

Chest X Ray

COVID-19 has been difficult to diagnose and treat at an early stage all over the world. The numbers of patients showing symptoms for COVID-19 have caused medical facilities at hospitals to become unavailable or overcrowded, which is a major challenge. Studies have recently allowed us to determine that COVID-19 can be diagnosed with the aid of chest X-ray images. To combat the COVID-19 outbreak, developing a deep learning (DL) based model for automated COVID-19 diagnosis on chest X-ray is beneficial. In this research, we have proposed a customized convolutional neural network (CNN) model to detect COVID-19 from chest X-ray images. The model is based on nine layers which uses a binary classification method to differentiate between COVID-19 and normal chest X-rays. It provides COVID-19 detection early so the patients can be admitted in a timely fashion. The proposed model was trained and tested on two publicly available datasets. Cross-dataset studies are used to assess the robustness in a real-world context. Six hundred X-ray images were used for training and two hundred X-rays were used for validation of the model. The X-ray images of the dataset were preprocessed to improve the results and visualized for better analysis. The developed algorithm reached 98% precision, recall and f1-score. The cross-dataset studies also demonstrate the resilience of deep learning algorithms in a real-world context with 98.5 percent accuracy. Furthermore, a comparison table was created which shows that our proposed model outperforms other relative models in terms of accuracy. The quick and high-performance of our proposed DL-based customized model identifies COVID-19 patients quickly, which is helpful in controlling the COVID-19 outbreak.

Download Full-text

Development of a convolutional neural network to differentiate among the etiology of similar appearing pathological B lines on lung ultrasound: a deep learning study

BMJ Open ◽

10.1136/bmjopen-2020-045120 ◽

2021 ◽

Vol 11 (3) ◽

pp. e045120

Author(s):

Robert Arntfield ◽

Blake VanBerlo ◽

Thamer Alaifan ◽

Nathan Phelps ◽

Matthew White ◽

...

Keyword(s):

Neural Network ◽

Deep Learning ◽

Convolutional Neural Network ◽

Lung Ultrasound ◽

Low Cost ◽

Characteristic Curve ◽

Ultrasound Images ◽

Diagnostic Specificity ◽

Multicentre Research ◽

B Lines

ObjectivesLung ultrasound (LUS) is a portable, low-cost respiratory imaging tool but is challenged by user dependence and lack of diagnostic specificity. It is unknown whether the advantages of LUS implementation could be paired with deep learning (DL) techniques to match or exceed human-level, diagnostic specificity among similar appearing, pathological LUS images.DesignA convolutional neural network (CNN) was trained on LUS images with B lines of different aetiologies. CNN diagnostic performance, as validated using a 10% data holdback set, was compared with surveyed LUS-competent physicians.SettingTwo tertiary Canadian hospitals.Participants612 LUS videos (121 381 frames) of B lines from 243 distinct patients with either (1) COVID-19 (COVID), non-COVID acute respiratory distress syndrome (NCOVID) or (3) hydrostatic pulmonary edema (HPE).ResultsThe trained CNN performance on the independent dataset showed an ability to discriminate between COVID (area under the receiver operating characteristic curve (AUC) 1.0), NCOVID (AUC 0.934) and HPE (AUC 1.0) pathologies. This was significantly better than physician ability (AUCs of 0.697, 0.704, 0.967 for the COVID, NCOVID and HPE classes, respectively), p<0.01.ConclusionsA DL model can distinguish similar appearing LUS pathology, including COVID-19, that cannot be distinguished by humans. The performance gap between humans and the model suggests that subvisible biomarkers within ultrasound images could exist and multicentre research is merited.

Download Full-text

Shallow Convolutional Neural Network for COVID-19 Outbreak Screening using Chest X-rays

10.36227/techrxiv.12156522.v1 ◽

2020 ◽

Cited By ~ 6

Author(s):

Himadri Mukherjee ◽

Subhankar Ghosh ◽

Ankita Dhar ◽

Sk. Md. Obaidullah ◽

KC Santosh ◽

...

Keyword(s):

Neural Network ◽

Deep Learning ◽

Convolutional Neural Network ◽

Mass Screening ◽

False Positive ◽

False Positive Rate ◽

Experimental Tests ◽

X Rays ◽

Imaging Data ◽

Learning Models

<div><div><div><p>Among radiological imaging data, chest X-rays are of great use in observing COVID-19 mani- festations. For mass screening, using chest X-rays, a computationally efficient AI-driven tool is the must to detect COVID-19 positive cases from non-COVID ones. For this purpose, we proposed a light-weight Convolutional Neural Network (CNN)-tailored shallow architecture that can automatically detect COVID-19 positive cases using chest X-rays, with no false positive. The shallow CNN-tailored architecture was designed with fewer parameters as compared to other deep learning models, which was validated using 130 COVID-19 positive chest X-rays. In this study, in addition to COVID-19 positive cases, another set of non-COVID-19 cases (exactly similar to the size of COVID-19 set) was taken into account, where MERS, SARS, Pneumonia, and healthy chest X-rays were used. In experimental tests, to avoid possible bias, 5-fold cross validation was followed. Using 260 chest X-rays, the proposed model achieved an accuracy of an accuracy of 96.92%, sensitivity of 0.942, where AUC was 0.9869. Further, the reported false positive rate was 0 for 130 COVID-19 positive cases. This stated that proposed tool could possibly be used for mass screening. Note to be confused, it does not include any clinical implications. Using the exact same set of chest X-rays collection, the current results were better than other deep learning models and state-of-the-art works.</p></div></div></div>

Download Full-text

Automated Detection and Classification of COVID-19 from Chest X-ray Images Using Deep Learning

Journal of Computational and Theoretical Nanoscience ◽

10.1166/jctn.2020.9439 ◽

2020 ◽

Vol 17 (12) ◽

pp. 5457-5463

Author(s):

K. Shankar ◽

Eswaran Perumal

Keyword(s):

Neural Network ◽

Deep Learning ◽

Simulation Analysis ◽

Input Image ◽

Classification Model ◽

Superior Performance ◽

X Rays ◽

Applied Model ◽

Artificial Neural Network Ann ◽

Effective Diagnosis

In recent times, COVID-19 has appeared as a major threat to healthcare professionals, governments, and research communities over the world from its diagnosis to medication. Several research works have been carried out for obtaining the possible solutions for controlling the epidemic proficiently. An effective diagnosis of COVID-19 has been carried out using computed tomography (CT) scans and X-rays to examine the lung image. But it necessitates diverse radiologists and time to examine every report, which is a tedious task. Therefore, this paper presents an automated deep learning (DL) based COVID-19 detection and classification model. The presented model performs preprocessing, feature extraction and classification. In the earlier stage, median filtering (MF) technique is applied to preprocess the input image. Next, convolutional neural network (CNN) based VGGNet-19 model is applied as a feature extractor. At last, artificial neural network (ANN) is employed as a classification model to identify and classify the existence of COVID-19. An extensive set of simulation analysis takes place to ensure the superior performance of the applied model. The outcome of the experiments showcased the betterment interms of different measures.

Download Full-text

An Accuracy vs. Complexity Comparison of Deep Learning Architectures for the Detection of COVID-19 Disease

Computation ◽

10.3390/computation9010003 ◽

2021 ◽

Vol 9 (1) ◽

pp. 3

Author(s):

Sima Sarv Ahrabi ◽

Michele Scarpiniti ◽

Enzo Baccarelli ◽

Alireza Momenzadeh

Keyword(s):

Neural Network ◽

Deep Learning ◽

Convolutional Neural Network ◽

Medical Research ◽

Binary Classification ◽

Lung Infection ◽

X Rays ◽

Training Process ◽

Learning Architectures

In parallel with the vast medical research on clinical treatment of COVID-19, an important action to have the disease completely under control is to carefully monitor the patients. What the detection of COVID-19 relies on most is the viral tests, however, the study of X-rays is helpful due to the ease of availability. There are various studies that employ Deep Learning (DL) paradigms, aiming at reinforcing the radiography-based recognition of lung infection by COVID-19. In this regard, we make a comparison of the noteworthy approaches devoted to the binary classification of infected images by using DL techniques, then we also propose a variant of a convolutional neural network (CNN) with optimized parameters, which performs very well on a recent dataset of COVID-19. The proposed model’s effectiveness is demonstrated to be of considerable importance due to its uncomplicated design, in contrast to other presented models. In our approach, we randomly put several images of the utilized dataset aside as a hold out set; the model detects most of the COVID-19 X-rays correctly, with an excellent overall accuracy of 99.8%. In addition, the significance of the results obtained by testing different datasets of diverse characteristics (which, more specifically, are not used in the training process) demonstrates the effectiveness of the proposed approach in terms of an accuracy up to 93%.

Download Full-text

Covid-19 Detection & Classification of chest X-rays using Deep Learning

International Journal for Research in Applied Science and Engineering Technology ◽

10.22214/ijraset.2021.37830 ◽

2021 ◽

Vol 9 (8) ◽

pp. 2614-2619

Author(s):

Aditya Singh

Keyword(s):

Neural Network ◽

Deep Learning ◽

Neural Network Model ◽

X Rays ◽

X Ray ◽

Short Period ◽

Medical Researchers ◽

Entire World ◽

Difficult Times

Abstract: The deadly Covid-19 virus, also known as the Coronavirus has affected the entire world in a short period of time. This pandemic has affected a lot of people in the entire world and caused many deaths. In these difficult times, it is important for the doctors and the medical researchers to differentiate accurately between positive cases and negative cases. This CNN (Convolutional Neural Network) model will allow us to classify X-ray images into positive cases and the normal ones. This dataset is collected from different public sources as well as from some hospitals and physicians. Our goal is to take help from these X- ray images and develop a model where it predicts and classifies the infected cases. Keywords: CNN, Prediction, Classification, Features, Training, Testing, Deep Learning

Download Full-text

Shallow Convolutional Neural Network for COVID-19 Outbreak Screening using Chest X-rays

10.36227/techrxiv.12156522 ◽

2020 ◽

Cited By ~ 5

Author(s):

Himadri Mukherjee ◽

Subhankar Ghosh ◽

Ankita Dhar ◽

Sk. Md. Obaidullah ◽

KC Santosh ◽

...

Keyword(s):

Neural Network ◽

Deep Learning ◽

Convolutional Neural Network ◽

Mass Screening ◽

False Positive ◽

False Positive Rate ◽

Experimental Tests ◽

X Rays ◽

Imaging Data ◽

Learning Models

Download Full-text

Improved COVID-19 detection using data augmentation Deep Convolution GAN and classifier DenseNet.

10.21203/rs.3.rs-235624/v1 ◽

2021 ◽

Author(s):

Debmitra Ghosh

Keyword(s):

Neural Network ◽

Deep Learning ◽

Classification Accuracy ◽

Deep Neural Network ◽

Data Augmentation ◽

Training Data ◽

X Rays ◽

X Ray ◽

Chest X Ray ◽

Synthetic Images

Abstract SARS-CoV-2 or severe acute respiratory syndrome coronavirus 2 is considered to be the cause of Coronavirus (COVID-19) which is a viral disease. The rapid spread of COVID-19 is having a detrimental effect on the global economy and health. A chest X-ray of infected patients can be considered as a crucial step in the battle against COVID-19. On retrospections, it is found that abnormalities exist in chest X-rays of patients suggestive of COVID-19. This sparked the introduction of a variety of deep learning systems and studies which have shown that the accuracy of COVID-19 patient detection through the use of chest X-rays is strongly optimistic. Although there are certain shortcomings like deep learning networks like convolutional neural networks (CNNs) need a substantial amount of training data but the outbreak is recent, so it is large datasets of radiographic images of the COVID-19 infected patients are not available in such a short time. Here, in this research, we present a method to generate synthetic chest X-ray (CXR) images by developing a Deep Convolution Generative Adversarial Network-based model. In addition, we demonstrate that the synthetic images produced from DCGAN can be utilized to enhance the performance of CNN for COVID-19 detection. Classification using CNN alone yielded 85% accuracy. Although there are several models available, we chose MobileNet as it is a lightweight deep neural network, with fewer parameters and higher classification accuracy. Here we are using a deep neural network-based model to diagnose COVID-19 infected patients through radiological imaging of 5,859 Chest X-Ray images. We are using a Deep Convolutional Neural Network and a pre-trained model “DenseNet 121” for two new label classes (COVID-19 and Normal). To improve the classification accuracy, in our work we have further reduced the number of network parameters by introducing dense blocks that are proposed in DenseNets into MobileNet. By adding synthetic images produced by DCGAN, the accuracy increased to 97%. Our goal is to use this method to speed up COVID-19 detection and lead to more robust systems of radiology.

Download Full-text

Learning Medical Materials From Radiography Images

Frontiers in Artificial Intelligence ◽

10.3389/frai.2021.638299 ◽

2021 ◽

Vol 4 ◽

Author(s):

Carson Molder ◽

Benjamin Lowe ◽

Justin Zhan

Keyword(s):

Neural Network ◽

Deep Learning ◽

Human Perception ◽

X Rays ◽

Material Recognition ◽

Material Analysis ◽

Perceptual Distance ◽

Material Sample ◽

Medical Materials ◽

Algorithmic Approaches

Deep learning models have been shown to be effective for material analysis, a subfield of computer vision, on natural images. In medicine, deep learning systems have been shown to more accurately analyze radiography images than algorithmic approaches and even experts. However, one major roadblock to applying deep learning-based material analysis on radiography images is a lack of material annotations accompanying image sets. To solve this, we first introduce an automated procedure to augment annotated radiography images into a set of material samples. Next, using a novel Siamese neural network that compares material sample pairs, called D-CNN, we demonstrate how to learn a perceptual distance metric between material categories. This system replicates the actions of human annotators by discovering attributes that encode traits that distinguish materials in radiography images. Finally, we update and apply MAC-CNN, a material recognition neural network, to demonstrate this system on a dataset of knee X-rays and brain MRIs with tumors. Experiments show that this system has strong predictive power on these radiography images, achieving 92.8% accuracy at predicting the material present in a local region of an image. Our system also draws interesting parallels between human perception of natural materials and materials in radiography images.

Download Full-text