2020

Information Mining for COVID-19 Research From a Large Volume of Scientific Literature

Ahamed, Sabber, Samad, Manar

Understand

The year 2020 has seen an unprecedented COVID-19 pandemic due to the outbreak of a novel strain of coronavirus in 180 countries.

In a desperate effort to discover new drugs and vaccines for COVID-19, many scientists are working around the clock.
Their valuable time and effort may benefit from computer-based mining of a large volume of health science literature that is a treasure trove of information.
In this paper, we have developed a graph-based model using abstracts of 10,683 scientific articles to find key information on three topics: transmission, drug types, and genome research related to coronavirus.

Built on

A set of measures of centrality based on betweenness
Linton C Freeman · 1977
Earlier work this paper cites.
Eccentricity and centrality in networks
Per Hage and Frank Harary · 1995
Earlier work this paper cites.
An introduction to latent semantic analysis
Thomas K Landauer, Peter W. Foltz, and Darrell Laham · 1998
Earlier work this paper cites.
A faster algorithm for betweenness centrality
Ulrik Brandes · 2001
Earlier work this paper cites.
Koch’s postulates fulfilled for SARS virus
Ron A.M. Fouchier, Thijs Kuiken, Martin Schutten, Geert Van Amerongen, Gerard J.J. Van Doornum, Bernadette G. Van Den Hoogen, Malik Peiris, Wilina Lim, Klaus Stöhr, and Albert D.M.E. Osterhaus · 2003
Earlier work this paper cites.
Therapeutic options for the 2019 novel coronavirus (2019-nCoV), mar 2020
Original
Guangdi Li and Erik De Clercq · 2004
Earlier work this paper cites.
Coronavirus Pathogenesis and the Emerging Pathogen Severe Acute Respiratory Syndrome Coronavirus
S. R. Weiss and S. Navas-Martin · 2005
Earlier work this paper cites.
An improved TF-IDF approach for text classification
Zhang Yun-tao, Gong Ling, and Wang Yong-cheng · 2005
Earlier work this paper cites.
From n-gram to skipgram to concgram
Winnie Cheng, Chris Greaves, and Martin Warren · 2006
Earlier work this paper cites.
A new coronavirus associated with human respiratory disease in China
Fan Wu, Su Zhao, Bin Yu, Yan-Mei Chen, Wen Wang, Zhi-Gang Song, Yi Hu, Zhao-Wu Tao, Jun-Hua Tian, Yuan-Yuan Pei, Ming-Li Yuan, Yu-Ling Zhang, Fa-Hui Dai, Yi Liu, Qi-Min Wang, Jiao-Jiao Zheng, Lin Xu, Edward C. Holmes, and Yong-Zhen Zhang · 2008
Earlier work this paper cites.

Similar

Antiviral activity of chloroquine against human coronavirus OC43 infection in newborn mice
Els Keyaerts, Sandra Li, Leen Vijgen, Evelien Rysman, Jannick Verbeeck, Marc Van Ranst, and Piet Maes · 2009
Cited alongside, same era.
Document visualization based on semantic graphs
Delia Rusu, Blaž Fortuna, Dunja Mladenic, Marko Grobelnik, and Ruben Sipoš · 2009
Cited alongside, same era.
Gephi: An Open Source Software for Exploring and Manipulating Networks Visualization and Exploration of Large Graphs
Mathieu Bastian, Sebastien Heymann, and Mathieu Jacomy · 2009
Cited alongside, same era.
Online Learning for Latent Dirichlet Allocation
Matthew Hoffman, Francis R Bach, and David M Blei · 2010
Cited alongside, same era.
Hydroxychloroquine: from malaria to autoimmunity
Ilan Ben-Zvi, Shaye Kivity, Pnina Langevitz, and Yehuda Shoenfeld · 2012
Cited alongside, same era.
Cross Talk Between Animal and Human Influenza Viruses
Makoto Ozawa and Yoshihiro Kawaoka · 2013
Cited alongside, same era.
Cross-protective effect of antisense oligonucleotide developed against the common 3 NCR of influenza A virus genome
Prashant Kumar, Binod Kumar, Roopali Rajput, Latika Saxena, Akhil C. Banerjea, and Madhu Khanna · 2013
Cited alongside, same era.
Glove: Global Vectors for Word Representation
Jeffrey Pennington, Richard Socher, and Christopher D. Manning · 2014
Cited alongside, same era.
Development of Monoclonal Antibody and Diagnostic Test for Middle East Respiratory Syndrome Coronavirus Using Cell-Free Synthesized Nucleocapsid Antigen
Yutaro Yamaoka, Shutoku Matsuyama, Shuetsu Fukushi, Satoko Matsunaga, Yuki Matsushima, Hiroyuki Kuroyama, Hirokazu Kimura, Makoto Takeda, Tomoyuki Chimuro, and Akihide Ryo · 2016
Cited alongside, same era.
Chloroquine supplementation increases the cytotoxic effect of curcumin against Her2/neu overexpressing breast cancer cells in vitro and in vivo in nude mice while counteracts it in immune competent mice
L. Masuelli, M. Granato, M. Benvenuto, R. Mattera, R. Bernardini, M. Mattei, G. D’Amati, G. D’Orazi, A. Faggioni, R. Bei, and M. Cirone · 2017
Cited alongside, same era.

Then

A graph based keyword extraction model using collective node weight
Saroj Kr Biswas, Monali Bordoloi, and Jacob Shreya · 2017
Later among the works it cites.
An Automatic Document Classifier System Based on Genetic Algorithm and Taxonomy
Alan Diaz-Manriquez, Ana Bertha Rios-Alvarado, Jose Hugo Barron-Zambrano, Tania Yukary Guerrero-Melendez, and Juan Carlos Elizondo-Leal · 2018
Later among the works it cites.
Recent Advances in the Vaccine Development Against Middle East Respiratory Syndrome-Coronavirus
Chean Yeah Yong, Hui Kian Ong, Swee Keong Yeap, Kok Lian Ho, and Wen Siang Tan · 2019
Later among the works it cites.
Latent Dirichlet allocation (LDA) and topic modeling: models, applications, a survey
Hamed Jelodar, Yongli Wang, Chi Yuan, Xia Feng, Xiahui Jiang, Yanchao Li, and Liang Zhao · 2019
Later among the works it cites.
A novel coronavirus from patients with pneumonia in China, 2019
Na Zhu, Dingyu Zhang, Wenling Wang, Xingwang Li, Bo Yang, Jingdong Song, Xiang Zhao, Baoying Huang, Weifeng Shi, Roujian Lu, Peihua Niu, Faxian Zhan, Xuejun Ma, Dayan Wang, Wenbo Xu, Guizhen Wu, George F. Gao, and Wenjie Tan · 2020
Closest in time.
An interactive web-based dashboard to track COVID-19 in real time
Ensheng Dong, Hongru Du, and Lauren Gardner · 2020
Closest in time.
Extractive Automatic Text Summarization Based on Lexical-Semantic Keywords
Ángel Hernández-castañeda, René Arnulfo García-hernández, Yulia Ledeneva, and Christian Eduardo Millán-hernández · 2020
Closest in time.
Identifying SARS-CoV-2 related coronaviruses in Malayan pangolins
Tommy Tsan-Yuk Lam, Marcus Ho-Hin Shum, Hua-Chen Zhu, Yi-Gang Tong, Xue-Bing Ni, Yun-Shi Liao, Wei Wei, William Yiu-Man Cheung, Wen-Juan Li, Lian-Feng Li, Gabriel M. Leung, Edward C. Holmes, Yan-Ling Hu, and Yi Guan · 2020
Closest in time.
Hydroxychloroquine, a less toxic derivative of chloroquine, is effective in inhibiting SARS-CoV-2 infection in vitro
Jia Liu, Ruiyuan Cao, Mingyue Xu, Xi Wang, Huanyu Zhang, Hengrui Hu, Yufeng Li, Zhihong Hu, Wu Zhong, and Manli Wang · 2056
Closest in time.

Beyond the bibliography

alphaXiv searches the wider corpus for related work and actual follow-ups.

Open on alphaXiv

alphaXiv is searching for related work…

Reading the bibliography…