ABSTRACT
Even though coronavirus disease 2019 (COVID-19) vaccination has been done, preparedness for the possibility of the next outbreak wave is still needed with new mutations and virus variants. A near real-time surveillance system is required to provide the stakeholders, especially the public, to act in a timely response. Due to the hierarchical structure, epidemic reporting is usually slow particularly when passing jurisdictional borders. This condition could lead to time gaps for public awareness of new and emerging events of infectious diseases. Online news is a potential source for COVID-19 monitoring because it reports almost every infectious disease incident globally. However, the news does not report only about COVID-19 events, but also various information related to COVID-19 topics such as the economic impact, health tips, and others. We developed a framework for online news monitoring and applied sentence classification for news titles using deep learning to distinguish between COVID-19 events and non-event news. The classification results showed that the fine-tuned bidirectional encoder representations from transformers (BERT) trained with Bahasa Indonesia achieved the highest performance (accuracy: 95.16%, precision: 94.71%, recall: 94.32%, F1-score: 94.51%). Interestingly, our framework was able to identify news that reports the new COVID strain from the United Kingdom (UK) as an event news, 13 days before the Indonesian officials closed the border for foreigners.
ABSTRACT
Objective: The coronavirus disease 2019 (COVID-19) health crisis that began at the end of 2019 made researchers around the world quickly race to find effective solutions. Related literature exploded and it was inevitable that an automated approach was needed to find useful information, namely text mining, to overcome COVID-19, especially in terms of drug candidate discovery. While text mining methods for finding drug candidates mostly try to extract bioentity associations from PubMed, very few of them mine with a clustering approach. The purpose of this study was to demonstrate the effectiveness of our approach to identify drugs for the prevention of COVID-19 through literature review, cluster analysis, drug docking calculations, and clinical trial data. Methods: This research was conducted in four main stages. First, the text mining stage was carried out by involving Bidirectional Encoder Representations from Transformers for Biomedical to obtain vector representation of each word in the sentence from texts. The next stage generated the disease-drug associations, which were obtained from the correlation between disease and drug. Next, the clustering stage grouped the rules through the similarity of diseases by utilizing Term Frequency-Inverse Document Frequency as its feature. Finally, the drug candidate extraction stage was processed through leveraging PubChem and DrugBank databases. We further used the drug docking package AUTODOCK VINA in PyRx software to verify the results. Results: Comparative analyses showed that the percentage of findings using mining with clustering outperformed mining without clustering in all experimental settings. In addition, we suggest that the top three drugs/phytochemicals by drug docking analysis may be effective in preventing COVID-19. Conclusions: The proposed method for text mining utilizing the clustering method is quite promising in the discovery of drug candidates for the prevention of COVID-19 through the biomedical literature.
ABSTRACT
The COVID-19 pandemic has induced many problems in various sectors of human life. After more than one year of the pandemic, many studies have been conducted to discover various technological innovations and applications to combat the virus that has claimed many lives. The use of Big Data technology to mitigate the threats of the pandemic has been accelerated. Therefore, this survey aims to explore Big Data technology research in fighting the pandemic. Furthermore, the relevance of Big Data technology was analyzed while technological contributions to five main areas were highlighted. These include healthcare, social life, government policy, business and management, and the environment. The analytical techniques of machine learning, deep learning, statistics, and mathematics were discussed to solve issues regarding the pandemic. The data sources used in previous studies were also presented and they consist of government officials, institutional service, IoT generated, online media, and open data. Therefore, this study presents the role of Big Data technologies in enhancing the research relative to COVID-19 and provides insights into the current state of knowledge within the domain and references for further development or starting new studies are provided.