Literature DB >> 33733182

Artificial Intelligence for COVID-19 Drug Discovery and Vaccine Development.

Arash Keshavarzi Arshadi1, Julia Webb1, Milad Salem2, Emmanuel Cruz3, Stacie Calad-Thomson4, Niloofar Ghadirian5, Jennifer Collins1, Elena Diez-Cecilia3, Brendan Kelly3, Hani Goodarzi6, Jiann Shiun Yuan2.   

Abstract

SARS-COV-2 has roused the scientific community with a call to action to combat the growing pandemic. At the time of this writing, there are as yet no novel antiviral agents or approved vaccines available for deployment as a frontline defense. Understanding the pathobiology of COVID-19 could aid scientists in their discovery of potent antivirals by elucidating unexplored viral pathways. One method for accomplishing this is the leveraging of computational methods to discover new candidate drugs and vaccines in silico. In the last decade, machine learning-based models, trained on specific biomolecules, have offered inexpensive and rapid implementation methods for the discovery of effective viral therapies. Given a target biomolecule, these models are capable of predicting inhibitor candidates in a structural-based manner. If enough data are presented to a model, it can aid the search for a drug or vaccine candidate by identifying patterns within the data. In this review, we focus on the recent advances of COVID-19 drug and vaccine development using artificial intelligence and the potential of intelligent training for the discovery of COVID-19 therapeutics. To facilitate applications of deep learning for SARS-COV-2, we highlight multiple molecular targets of COVID-19, inhibition of which may increase patient survival. Moreover, we present CoronaDB-AI, a dataset of compounds, peptides, and epitopes discovered either in silico or in vitro that can be potentially used for training models in order to extract COVID-19 treatment. The information and datasets provided in this review can be used to train deep learning-based models and accelerate the discovery of effective viral therapies.
Copyright © 2020 Keshavarzi Arshadi, Webb, Salem, Cruz, Calad-Thomson, Ghadirian, Collins, Diez-Cecilia, Kelly, Goodarzi and Yuan.

Entities:  

Keywords:  COVID-19; SARS-COV-2; artificial intelligence; deep learning; drug; vaccine

Year:  2020        PMID: 33733182      PMCID: PMC7861281          DOI: 10.3389/frai.2020.00065

Source DB:  PubMed          Journal:  Front Artif Intell        ISSN: 2624-8212


  109 in total

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Authors:  Suzanne N Stammler; Song Cao; Shi-Jie Chen; David P Giedroc
Journal:  RNA       Date:  2011-07-28       Impact factor: 4.942

Review 2.  An overview of bioinformatics tools for epitope prediction: implications on vaccine development.

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Journal:  J Biomed Inform       Date:  2014-11-10       Impact factor: 6.317

3.  A high-throughput screening strategy to overcome virus instability.

Authors:  Lynn Rasmussen; Clinton Maddox; Blake P Moore; William Severson; E Lucile White
Journal:  Assay Drug Dev Technol       Date:  2010-11-04       Impact factor: 1.738

4.  A systems medicine approach reveals disordered immune system and lipid metabolism in multiple sclerosis patients.

Authors:  M Pazhouhandeh; M-A Sahraian; S D Siadat; A Fateh; F Vaziri; F Tabrizi; F Ajorloo; A K Arshadi; E Fatemi; S Piri Gavgani; F Mahboudi; F Rahimi Jamnani
Journal:  Clin Exp Immunol       Date:  2018-01-25       Impact factor: 4.330

5.  Deep convolutional neural networks for pan-specific peptide-MHC class I binding prediction.

Authors:  Youngmahn Han; Dongsup Kim
Journal:  BMC Bioinformatics       Date:  2017-12-28       Impact factor: 3.169

6.  A pneumonia outbreak associated with a new coronavirus of probable bat origin.

Authors:  Peng Zhou; Xing-Lou Yang; Xian-Guang Wang; Ben Hu; Lei Zhang; Wei Zhang; Hao-Rui Si; Yan Zhu; Bei Li; Chao-Lin Huang; Hui-Dong Chen; Jing Chen; Yun Luo; Hua Guo; Ren-Di Jiang; Mei-Qin Liu; Ying Chen; Xu-Rui Shen; Xi Wang; Xiao-Shuang Zheng; Kai Zhao; Quan-Jiao Chen; Fei Deng; Lin-Lin Liu; Bing Yan; Fa-Xian Zhan; Yan-Yi Wang; Geng-Fu Xiao; Zheng-Li Shi
Journal:  Nature       Date:  2020-02-03       Impact factor: 69.504

7.  Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China.

Authors:  Chaolin Huang; Yeming Wang; Xingwang Li; Lili Ren; Jianping Zhao; Yi Hu; Li Zhang; Guohui Fan; Jiuyang Xu; Xiaoying Gu; Zhenshun Cheng; Ting Yu; Jiaan Xia; Yuan Wei; Wenjuan Wu; Xuelei Xie; Wen Yin; Hui Li; Min Liu; Yan Xiao; Hong Gao; Li Guo; Jungang Xie; Guangfa Wang; Rongmeng Jiang; Zhancheng Gao; Qi Jin; Jianwei Wang; Bin Cao
Journal:  Lancet       Date:  2020-01-24       Impact factor: 79.321

8.  Comparative computational analysis of SARS-CoV-2 nucleocapsid protein epitopes in taxonomically related coronaviruses.

Authors:  Bruno Tilocca; Alessio Soggiu; Maurizio Sanguinetti; Vincenzo Musella; Domenico Britti; Luigi Bonizzi; Andrea Urbani; Paola Roncada
Journal:  Microbes Infect       Date:  2020-04-14       Impact factor: 2.700

Review 9.  The molecular biology of coronaviruses.

Authors:  M M Lai; D Cavanagh
Journal:  Adv Virus Res       Date:  1997       Impact factor: 9.937

10.  The proximal origin of SARS-CoV-2.

Authors:  Kristian G Andersen; Andrew Rambaut; W Ian Lipkin; Edward C Holmes; Robert F Garry
Journal:  Nat Med       Date:  2020-04       Impact factor: 87.241

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  33 in total

1.  Diagnosis of COVID-19, vitality of emerging technologies and preventive measures.

Authors:  Muhammad Asif; Yun Xu; Fei Xiao; Yimin Sun
Journal:  Chem Eng J       Date:  2021-05-07       Impact factor: 13.273

2.  A Framework for Inferring Epidemiological Model Parameters using Bayesian Nonparametrics.

Authors:  Oliver E Bent; Charles Wachira; Sekou L Remy; William Ogallo; Aisha Walcott-Bryant
Journal:  AMIA Annu Symp Proc       Date:  2022-02-21

Review 3.  New Insights Into Drug Repurposing for COVID-19 Using Deep Learning.

Authors:  Chun Yen Lee; Yi-Ping Phoebe Chen
Journal:  IEEE Trans Neural Netw Learn Syst       Date:  2021-10-27       Impact factor: 10.451

4.  Predicting novel drug candidates against Covid-19 using generative deep neural networks.

Authors:  Santhosh Amilpur; Raju Bhukya
Journal:  J Mol Graph Model       Date:  2021-10-13       Impact factor: 2.518

Review 5.  Nanotechnology-Assisted RNA Delivery: From Nucleic Acid Therapeutics to COVID-19 Vaccines.

Authors:  Chiara Rinoldi; Seyed Shahrooz Zargarian; Pawel Nakielski; Xiaoran Li; Anna Liguori; Francesca Petronella; Dario Presutti; Qiusheng Wang; Marco Costantini; Luciano De Sio; Chiara Gualandi; Bin Ding; Filippo Pierini
Journal:  Small Methods       Date:  2021-07-28

Review 6.  Artificial Intelligence-Based Data-Driven Strategy to Accelerate Research, Development, and Clinical Trials of COVID Vaccine.

Authors:  Ashwani Sharma; Tarun Virmani; Vipluv Pathak; Anjali Sharma; Kamla Pathak; Girish Kumar; Devender Pathak
Journal:  Biomed Res Int       Date:  2022-07-06       Impact factor: 3.246

7.  A multilevel approach for screening natural compounds as an antiviral agent for COVID-19.

Authors:  Mahdi Vasighi; Julia Romanova; Miroslava Nedyalkova
Journal:  Comput Biol Chem       Date:  2022-05-11       Impact factor: 3.737

8.  Deep learning application detecting SARS-CoV-2 key enzymes inhibitors.

Authors:  Leila Benarous; Khedidja Benarous; Ghulam Muhammad; Zulfiqar Ali
Journal:  Cluster Comput       Date:  2022-07-19       Impact factor: 2.303

Review 9.  Prediction of antischistosomal small molecules using machine learning in the era of big data.

Authors:  Samuel K Kwofie; Kwasi Agyenkwa-Mawuli; Emmanuel Broni; Whelton A Miller Iii; Michael D Wilson
Journal:  Mol Divers       Date:  2021-08-05       Impact factor: 2.943

Review 10.  An Updated Review of Computer-Aided Drug Design and Its Application to COVID-19.

Authors:  Arun Bahadur Gurung; Mohammad Ajmal Ali; Joongku Lee; Mohammad Abul Farah; Khalid Mashay Al-Anazi
Journal:  Biomed Res Int       Date:  2021-06-24       Impact factor: 3.411

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