期刊
BRIEFINGS IN BIOINFORMATICS
卷 23, 期 1, 页码 -出版社
OXFORD UNIV PRESS
DOI: 10.1093/bib/bbab412
关键词
antiviral peptides; IL-6 inducing peptides; machine learning; performance assessment; bioinformatics; SARS-CoV-2; coronavirus
资金
- National Research Foundation of Korea (NRF) - Korean government (MSIT) [2021R1A2C1014338, 2019R1I1A1A01062260, 2020R1A4A4079722]
- National Research Foundation of Korea [2019R1I1A1A01062260] Funding Source: Korea Institute of Science & Technology Information (KISTI), National Science & Technology Information Service (NTIS)
This study comprehensively evaluates the existing IL-6 and AVP prediction algorithms and discusses their advantages and disadvantages. The results provide guidance for the rapid design and development of accurate and efficient computational tools against SARS-CoV-2.
Coronavirus disease 2019 (COVID-19) has impacted public health as well as societal and economic well-being. In the last two decades, various prediction algorithms and tools have been developed for predicting antiviral peptides (AVPs). The current COVID-19 pandemic has underscored the need to develop more efficient and accurate machine learning (ML)-based prediction algorithms for the rapid identification of therapeutic peptides against severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2). Several peptide-based ML approaches, including anti-coronavirus peptides (ACVPs), IL-6 inducing epitopes and other epitopes targeting SARS-CoV-2, have been implemented in COVID-19 therapeutics. Owing to the growing interest in the COVID-19 field, it is crucial to systematically compare the existing ML algorithms based on their performances. Accordingly, we comprehensively evaluated the state-of-the-art IL-6 and AVP predictors against coronaviruses in terms of core algorithms, feature encoding schemes, performance evaluation metrics and software usability. A comprehensive performance assessment was then conducted to evaluate the robustness and scalability of the existing predictors using well-constructed independent validation datasets. Additionally, we discussed the advantages and disadvantages of the existing methods, providing useful insights into the development of novel computational tools for characterizing and identifying epitopes or ACVPs. The insights gained from this review are anticipated to provide critical guidance to the scientific community in the rapid design and development of accurate and efficient next-generation in silico tools against SARS-CoV-2.
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