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      Epidemic efficacy of Covid-19 vaccination against Omicron: An innovative approach using enhanced residual recurrent neural network

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          Abstract

          The outbreak of COVID-19 has engulfed the entire world since the end of 2019, causing tremendous loss of lives. It has also taken a toll on the healthcare sector due to the inability to accurately predict the spread of disease as the arrangements for the essential supply of medical items largely depend on prior predictions. The objective of the study is to train a reliable model for predicting the spread of Coronavirus. The prediction capabilities of various powerful models such as the Autoregression Model (AR), Global Autoregression (GAR), Stacked-LSTM (Long Short-Term Memory), ARIMA (Autoregressive Integrated Moving Average), Facebook Prophet (FBProphet), and Residual Recurrent Neural Network (Res-RNN) were taken into consideration for predicting COVID-19 using the historical data of daily confirmed cases along with Twitter data. The COVID-19 prediction results attained from these models were not up to the mark. To enhance the prediction results, a novel model is proposed that utilizes the power of Res-RNN with some modifications. Gated Recurrent Unit (GRU) and LSTM units are also introduced in the model to handle the long-term dependencies. Neural Networks being data-hungry, a merged layer was added before the linear layer to combine tweet volume as additional features to reach data augmentation. The residual links are used to handle the overfitting problem. The proposed model RNN Convolutional Residual Network (RNNCON-Res) showcases dominating capability in country-level prediction 20 days ahead with respect to existing State-Of-The-Art (SOTA) methods. Sufficient experimentation was performed to analyze the prediction capability of different models. It was found that the proposed model RNNCON-Res has achieved 91% accuracy, which is better than all other existing models.

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          First confirmed case of COVID-19 infection in India: A case report

          Sir, Coronaviruses (CoV) are a large family of viruses that cause illness ranging from the common cold to more severe diseases such as Middle East respiratory syndrome (MERS)-CoV and severe acute respiratory syndrome (SARS)-CoV1. On December 31, 2019, China informed the World Health Organization (WHO) about cases of pneumonia of unknown aetiology detected in Wuhan city, Hubei province of China. From December 31, 2019 to January 3, 2020, a total of 44 patients with pneumonia of unknown aetiology were reported to the WHO by the national authorities in China2. During this period, the causal agent was not identified. The cases initially identified had a history of exposure to the Huanan Seafood Wholesale Market3. The most common clinical features of the early clinical cases from Wuhan, China, were fever (98.6%), fatigue (69.6%) and dry cough (59.4%)4. The second meeting of the Emergency Committee convened by the WHO Director-General under the International Health Regulations (2005) regarding the outbreak of novel coronavirus 2019 in the People's Republic of China on January 30, 2020, declared COVID-19 outbreak as Public Health Emergency of International Concern (PHEIC)5. As on February 17, 2020, except China, 25 other countries have been affected by COVID-19 outbreak with 70,635 confirmed cases and 1,772 deaths in China. Outside China, 794 cases were reported with three deaths6. We present here the first case of COVID-19 infection reported in Kerala, India. On January 27, 2020, a 20 yr old female presented to the Emergency Department in General Hospital, Thrissur, Kerala, with a one-day history of dry cough and sore throat. There was no history of fever, rhinitis or shortness of breath. She disclosed that she had returned to Kerala from Wuhan city, China, on January 23, 2020 owing to COVID-19 outbreak situation there. She was asymptomatic between January 23 and 26. On the 27th morning, she felt a mild sore throat and dry cough. She did not give a history of contact with a person suspected or confirmed with COVID-19 infection. She did not visit the Huanan Seafood Wholesale Market, however, she gave a history of travel from Wuhan to Kunming by train where she noticed people with respiratory symptoms in railway station and train. She received the instructions from the Kerala State authorities to visit a healthcare facility if she develops any symptoms because of the travel history to China. In the Emergency department in General Hospital, she was afebrile with a pulse rate of 82/min, blood pressure 130/80 mmHg, temperature 98.5°F and oxygen saturation 96 per cent while the patient was breathing ambient air. Lung auscultation revealed normal breath sounds with no adventitious sounds. In view of her travel history from Wuhan, the district rapid response team decided to admit her in an isolation room which was designated for the corona epidemic. An oropharyngeal swab was obtained and was sent to the ICMR-National Institute of Virology (NIV), Pune, for the detection of viral respiratory pathogens on January 27, 2020. Three millilitres each of EDTA blood and plain blood samples were also collected and sent to NIV, Pune, where COVID-19 was diagnosed using real time reverse transcription PCR. Specimen collection was done on day 0 (admission) and every alternate day. Urine and stool samples were also sent for detailed evaluation. She was started on azithromycin (500 mg), cetirizine (10 mg) and saline gargle. Over the next three days, her symptoms improved. Her oropharyngeal swab result was reported by the NIV, Pune, to District Control Cell on January 30, 2020 as positive for COVID-19 infection. The details of basic laboratory investigations done on days 3, 7 and 20 of illness are shown in the Table. On day 1 of illness, the total white blood cell count was towards the low normal side, but on days 5 and 20, the count showed a rise which was consistent with a viral infection. Erythrocyte sedimentation rate was highest on day 7. The rest of the investigations were normal. She was referred to the Government Medical College, Thrissur, Kerala on January 31, 2020, and was admitted in isolation block designated for corona infection. By this time, the outbreak monitoring unit of the institution had brought out a detailed policy regarding the standard operating procedures including infection control measures to be followed in the isolation block. On presentation, she had only mild sore throat and rhinitis. She was conscious, oriented, afebrile, with pulse rate 76/min, blood pressure 100/70 mmHg, respiratory rate 12/min and oxygen saturation 97 per cent in the ambient air. General examination revealed no significant findings. She was started on oseltamivir and symptomatic measures. She gradually improved over the three days and became asymptomatic on February 3, 2020 and became negative for COVID-19 infection on day 19 of her illness. The oropharyngeal swabs for diagnosis of COVID-19 infection were collected on days 1, 4, 5, 7 and every alternate day, i.e. days 9, 11, 13 and so on after the onset of illness. The initial swabs remained positive till day 17 after which the swabs on days 19, 21 and 23 were negative and the patient was discharged. She was discharged from the hospital on February 20, 2020. Table Clinical laboratory report of the patient Measure Days of illness 1 5 14 24 Haemoglobin (g/dl) 10.8 12.2 12.1 11.3 Total WBC count (cells/μl) 5300 7300 7400 8500 Differential count Polymorphs-46 Polymorphs-47 Polymorphs-50- Polymorphs-56- Lymphocytes-47 Lymphocytes-42 Lymphocytes-46 Lymphocytes-36 Monocytes-7 Monocytes-11 Monocytes-4 Monocytes-8 Platelet count (×106 cells/μl) 2.88 3.6 3 3.9 ESR 13 44 33 80 Urine routine Normal Normal Normal Normal Random blood sugar (mg/dl) 89 82 83 95 Blood urea (mg/dl) 22 14 14 14 Serum creatinine (mg/dl) 0.7 0.8 0.7 0.6 Serum sodium (mmol/l) 136 135 134 134 Serum potassium (mmol/l) 4.3 4.4 4.2 4.3 Total bilirubin (mg/dl) 0.7 0.4 0.5 0.4 Direct bilirubin (mg/dl) 0.2 0.2 0.2 0.2 Total protein (g/dl) 6.1 6.8 6.2 7.8 Serum albumin (g/dl) 3.9 4 3.4 4.8 Alanine aminotransferase (IU/l) 15 13 16 16 Aspartate aminotransferase (IU/l) 19 21 23 22 Alkaline phosphatase (IU/l) 113 110 116 150 WBC, white blood cell; ESR, erythrocyte sedimentation rate A detailed contact tracing was done by the Community Medicine department of the Government Medical College, Thrissur, with the District Health Authorities. Those identified were followed up for 28 days for any symptoms. All healthcare workers in the isolation block also were followed up for 14 days.
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            Classification of COVID-19 in chest X-ray images using DeTraC deep convolutional neural network

            Chest X-ray is the first imaging technique that plays an important role in the diagnosis of COVID-19 disease. Due to the high availability of large-scale annotated image datasets, great success has been achieved using convolutional neural networks (CNN s) for image recognition and classification. However, due to the limited availability of annotated medical images, the classification of medical images remains the biggest challenge in medical diagnosis. Thanks to transfer learning, an effective mechanism that can provide a promising solution by transferring knowledge from generic object recognition tasks to domain-specific tasks. In this paper, we validate and a deep CNN, called Decompose, Transfer, and Compose (DeTraC), for the classification of COVID-19 chest X-ray images. DeTraC can deal with any irregularities in the image dataset by investigating its class boundaries using a class decomposition mechanism. The experimental results showed the capability of DeTraC in the detection of COVID-19 cases from a comprehensive image dataset collected from several hospitals around the world. High accuracy of 93.1% (with a sensitivity of 100%) was achieved by DeTraC in the detection of COVID-19 X-ray images from normal, and severe acute respiratory syndrome cases.
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              COVID-CAPS: A Capsule Network-based Framework for Identification of COVID-19 cases from X-ray Images

              Highlights • Early diagnosis of COVID-19 is of paramount importance to break the chain of transition and flatten the epidemic curve. • Imaging techniques provide higher sensitivity, and they are more easily accessible, compared to the current gold standard. • Capsule Networks can efficiently handle availability of limited datasets in case of COVID-19 pandemic. • The proposed COVID-CAPS framework outperforms its CNN-based counterparts with far less number of trainable parameters. • A new dataset is constructed from an external dataset of X-ray images for pre-training the proposed COVID-CAPS.
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                Author and article information

                Contributors
                Role: Formal analysisRole: SupervisionRole: Writing – original draft
                Role: ConceptualizationRole: MethodologyRole: Writing – original draft
                Role: Formal analysisRole: Software
                Role: Formal analysis
                Role: ValidationRole: VisualizationRole: Writing – review & editing
                Role: Editor
                Journal
                PLoS One
                PLoS One
                plos
                PLOS ONE
                Public Library of Science (San Francisco, CA USA )
                1932-6203
                24 March 2023
                2023
                24 March 2023
                : 18
                : 3
                : e0280026
                Affiliations
                [1 ] Department of Computer Science and Engineering, Chandigarh University, Punjab, India
                [2 ] ISILC, Victoria University, Footscray, Australia
                University of Kurdistan Hewler, IRAQ
                Author notes

                Competing Interests: The authors declare that they have no conflicts of interest to report regarding the present study.

                Author information
                https://orcid.org/0000-0002-2659-5941
                https://orcid.org/0000-0001-7366-0841
                Article
                PONE-D-22-26738
                10.1371/journal.pone.0280026
                10038250
                36961790
                03e47c0c-5cf6-4f40-ba4a-92970319c598
                © 2023 Kumar et al

                This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

                History
                : 27 September 2022
                : 20 December 2022
                Page count
                Figures: 8, Tables: 2, Pages: 15
                Funding
                The author(s) received no funding for this study.
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                The link to the dataset is: https://data.humdata.org/dataset/novel-coronavirus-2019-ncov-cases.
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