ArticleScientific reports2021
Genomic mutations and changes in protein secondary structure and solvent accessibility of SARS-CoV-2 (COVID-19 virus).
Article in Scientific reports, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.
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47 citing papers in PubMed, 114 citations in OpenAlex.
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- Tracing the evolutionary pathway of SARS-CoV-2 through RNA sequencing analysis.Scientific reports · 2025Article
- Comparative Atlas of SARS-CoV-2 Substitution Mutations: A Focus on Iranian Strains Amidst Global Trends.Viruses · 2024Article
- Analysis of the Spread and Evolution of COVID-19 Mutations in Ecuador Using Open Data.Life (Basel, Switzerland) · 2024Article
- A comparative genomic approach to decipher the mutations associated with Nipah viral human isolates from southeast Asia.Iranian journal of microbiology · 2024Article
- Evolutionary deletions within the SARS-CoV-2 genome as signature trends for virus fitness and adaptation.Journal of virology · 2024Review
- Comparison of Circulating Variants during the Beginning, Middle and the End of the 4th Wave of COVID-19 in Tehran Province, Iran in 2021.Iranian journal of public health · 2023Article
- THPLM: a sequence-based deep learning framework for protein stability changes prediction upon point variations using pretrained protein language model.Bioinformatics (Oxford, England) · 2023Article
- Risk assessment of retinal vascular occlusion after COVID-19 vaccination.NPJ vaccines · 2023Article
- Fruit-CoV: An efficient vision-based framework for speedy detection and diagnosis of SARS-CoV-2 infections through recorded cough sounds.Expert systems with applications · 2023Article
- Dissecting Phenotype from Genotype with Clinical Isolates of SARS-CoV-2 First Wave Variants.Viruses · 2023Article
- Analysis of 3.5 million SARS-CoV-2 sequences reveals unique mutational trends with consistent nucleotide and codon frequencies.Virology journal · 2023Article
- COVID-19 in a Pre-Omicron Era: A Cross-Sectional Immuno-Epidemical and Genomic Evaluation.Vaccines · 2023Article
- Starting from scratch: Step-by-step development of diagnostic tests for SARS-CoV-2 detection by RT-LAMP.PloS one · 2023Article
- Advanced Plasmonic Nanoparticle-Based Techniques for the Prevention, Detection, and Treatment of Current COVID-19.Plasmonics (Norwell, Mass.) · 2023Review
- Complete Genomic Characterisation and Mutation Patterns of Iraqi SARS-CoV-2 Isolates.Diagnostics (Basel, Switzerland) · 2022Article
- Mutations in SARS-CoV-2 structural proteins: a global analysis.Virology journal · 2022Article
- Evaluating the Role ofGenes · 2022Article
Corrections and comments
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Authors and funding
10 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is a highly pathogenic virus that has caused the global COVID-19 pandemic. Tracing the evolution and transmission of the virus is crucial to respond to and control the pandemic through appropriate intervention strategies. This paper reports and analyses genomic mutations in the coding regions of SARS-CoV-2 and their probable protein secondary structure and solvent accessibility changes, which are predicted using deep learning models. Prediction results suggest that mutation D614G in the virus spike protein, which has attracted much attention from researchers, is unlikely to make changes in protein secondary structure and relative solvent accessibility. Based on 6324 viral genome sequences, we create a spreadsheet dataset of point mutations that can facilitate the investigation of SARS-CoV-2 in many perspectives, especially in tracing the evolution and worldwide spread of the virus. Our analysis results also show that coding genes E, M, ORF6, ORF7a, ORF7b and ORF10 are most stable, potentially suitable to be targeted for vaccine and drug development.
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