scholarly journals Host and infectivity prediction of Wuhan 2019 novel coronavirus using deep learning algorithm

2020 ◽  
Author(s):  
Qian Guo ◽  
Mo Li ◽  
Chunhui Wang ◽  
Peihong Wang ◽  
Zhencheng Fang ◽  
...  
Keyword(s):  
Deep Learning ◽  
Learning Algorithm ◽  
Prediction Method ◽  
Early Prevention ◽  
Viral Pathogens ◽  
Deep Learning Algorithm ◽  
Recent Outbreak ◽  
Human Coronaviruses ◽  
Novel Coronavirus ◽  
And Control

AbstractThe recent outbreak of pneumonia in Wuhan, China caused by the 2019 Novel Coronavirus (2019-nCoV) emphasizes the importance of detecting novel viruses and predicting their risks of infecting people. In this report, we introduced the VHP (Virus Host Prediction) to predict the potential hosts of viruses using deep learning algorithm. Our prediction suggests that 2019-nCoV has close infectivity with other human coronaviruses, especially the severe acute respiratory syndrome coronavirus (SARS-CoV), Bat SARS-like Coronaviruses and the Middle East respiratory syndrome coronavirus (MERS-CoV). Based on our prediction, compared to the Coronaviruses infecting other vertebrates, bat coronaviruses are assigned with more similar infectivity patterns with 2019-nCoVs. Furthermore, by comparing the infectivity patterns of all viruses hosted on vertebrates, we found mink viruses show a closer infectivity pattern to 2019-nCov. These consequences of infectivity pattern analysis illustrate that bat and mink may be two candidate reservoirs of 2019-nCov.These results warn us to beware of 2019-nCoV and guide us to further explore the properties and reservoir of it.One Sentence SummaryIt is of great value to identify whether a newly discovered virus has the risk of infecting human. Guo et al. proposed a virus host prediction method based on deep learning to detect what kind of host a virus can infect with DNA sequence as input. Applied to the Wuhan 2019 Novel Coronavirus, our prediction demonstrated that several vertebrate-infectious coronaviruses have strong potential to infect human. This method will be helpful in future viral analysis and early prevention and control of viral pathogens.

COVID-DETECT: A DEEP LEARNING APPROACH FOR CLASSIFICATION OF COVID-19 PNEUMONIA FROM LUNG SEGMENTED CHEST X-RAYS

2020 ◽  
pp. 2150010
Author(s):  
S. Rajkumar ◽  
P. V. Rajaraman ◽  
Haree Shankar Meganathan ◽  
V. Sapthagirivasan ◽  
K. Tejaswinee ◽  
...  
Keyword(s):  
Deep Learning ◽  
Learning Algorithm ◽  
Rapid Screening ◽  
X Rays ◽  
X Ray ◽  
Deep Learning Algorithm ◽  
X Ray Imaging ◽  
Before And After ◽  
Wide Availability ◽  
Novel Coronavirus

The novel coronavirus (COVID-19) was first reported in the Wuhan City of China in 2019 and became a pandemic. The outbreak has caused shocking effects to the people across the globe. It is important to screen a majority of the population in every country and for the respective governments to take appropriate action. There is a need for a rapid screening system to triage and recommend the patients for appropriate treatment. Chest X-ray imaging is one of the potential modalities, which has ample advantages such as wide availability even in the villages, portability, fast data sharing option from the point of capturing to the point of investigation, etc. The aim of the proposed work is to develop a deep learning algorithm for screening COVID-19 cases by leveraging the widely available X-ray imaging. We have built a deep learning Convolutional Neural Network model utilizing a combination of the public domain (open-source COVID-19) and private data (pneumonia and normal cases). The dataset was used before and after the segmentation of the lung region for training and testing. The outcome of the classification after lung segmentation resulted in significant superiority. The average accuracy achieved by the proposed system was 96%. The heat maps incorporated in the system were helpful for our radiologists to cross-verify whether the appropriate features are identified. This system (COVID-Detect) can be used in remote places in the countries affected by COVID-19 for mass screening of suspected cases and suggesting appropriate actions, such as recommending confirmatory tests.

scholarly journals COVIDier: A Deep-learning Tool For Coronaviruses Genome And Virulence Proteins Classification

2020 ◽  
Author(s):  
Peter T. Habib ◽  
Alsamman M. Alsamman ◽  
Maha Saber-Ayad ◽  
Sameh E. Hassanein ◽  
Aladdin Hamwieh
Keyword(s):  
Deep Learning ◽  
Learning Algorithm ◽  
Training Data ◽  
Virus Family ◽  
Health Crisis ◽  
Virulence Proteins ◽  
Genome Data ◽  
Deep Learning Algorithm ◽  
Severity Of The Disease ◽  
Novel Coronavirus

AbstractCOVID-19, caused by SARS-CoV-2 infection, has already reached pandemic proportions in a matter of a few weeks. At the time of writing this manuscript, the unprecedented public health crisis caused more than 2.5 million cases with a mortality range of 5-7%. The SARS-CoV-2, also called novel Coronavirus, is related to both SARS-CoV and bat SARS. Great efforts have been spent to control the pandemic that has become a significant burden on the health systems in a short time. Since the emergence of the crisis, a great number of researchers started to use the AI tools to identify drugs, diagnosing using CT scan images, scanning body temperature, and classifying the severity of the disease. The emergence of variants of the SARS-CoV-2 genome is a challenging problem with expected serious consequences on the management of the disease. Here, we introduce COVIDier, a deep learning-based software that is enabled to classify the different genomes of Alpha coronavirus, Beta coronavirus, MERS, SARS-CoV-1, SARS-CoV-2, and bronchitis-CoV. COVIDier was trained on 1925 genomes, belonging to the three families of SARS retrieved from NCBI Database to propose a new method to train deep learning model trained on genome data using Multi-layer Perceptron Classifier (MLPClassifier), a deep learning algorithm, that could blindly predict the virus family name from the genome of by predicting the statistically similar genome from training data to the given genome. COVIDier able to predict how close the emerging novel genomes of SARS to the known genomes with accuracy 99%. COVIDier can replace tools like BLAST that consume higher CPU and time.

scholarly journals Study on Radar Echo-Filling in an Occlusion Area by a Deep Learning Algorithm

2021 ◽  
Vol 13 (9) ◽  
pp. 1779
Author(s):  
Xiaoyan Yin ◽  
Zhiqun Hu ◽  
Jiafeng Zheng ◽  
Boyong Li ◽  
Yuanyuan Zuo
Keyword(s):  
Deep Learning ◽  
Loss Function ◽  
Learning Algorithm ◽  
Weather Radar ◽  
Loss Functions ◽  
Training Dataset ◽  
Echo Intensity ◽  
Common Mean ◽  
Deep Learning Algorithm ◽  
Radar Beam

Radar beam blockage is an important error source that affects the quality of weather radar data. An echo-filling network (EFnet) is proposed based on a deep learning algorithm to correct the echo intensity under the occlusion area in the Nanjing S-band new-generation weather radar (CINRAD/SA). The training dataset is constructed by the labels, which are the echo intensity at the 0.5° elevation in the unblocked area, and by the input features, which are the intensity in the cube including multiple elevations and gates corresponding to the location of bottom labels. Two loss functions are applied to compile the network: one is the common mean square error (MSE), and the other is a self-defined loss function that increases the weight of strong echoes. Considering that the radar beam broadens with distance and height, the 0.5° elevation scan is divided into six range bands every 25 km to train different models. The models are evaluated by three indicators: explained variance (EVar), mean absolute error (MAE), and correlation coefficient (CC). Two cases are demonstrated to compare the effect of the echo-filling model by different loss functions. The results suggest that EFnet can effectively correct the echo reflectivity and improve the data quality in the occlusion area, and there are better results for strong echoes when the self-defined loss function is used.

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