ArticleComputational molecular bioscience2020
Similarity Studies of Corona Viruses through Chaos Game Representation.
Article in Computational molecular bioscience, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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Who cites it
10 citing papers in PubMed.
- Identification of mathematical patterns in genomic spectrograms linked to variant classification in complete SARS-CoV-2 sequences.Scientific reports · 2025Article
- Life at the extremes: maximally divergent microbes with similar genomic signatures linked to extreme environments.NAR genomics and bioinformatics · 2025Article
- In silico design of Ebola virus Glycoprotein antigenic peptides as vaccine candidates.PloS one · 2025Article
- CGRclust: Chaos Game Representation for twin contrastive clustering of unlabelled DNA sequences.BMC genomics · 2024Article
- Exploring geometry of genome space via Grassmann manifolds.Innovation (Cambridge (Mass.)) · 2024Article
- CGRWDL: alignment-free phylogeny reconstruction method for viruses based on chaos game representation weighted by dynamical language model.Frontiers in microbiology · 2024Article
- Polarization- and Chaos-Game-Based Fingerprinting of Molecular Targets of Listeria Monocytogenes Vaccine and Fully Virulent Strains.Current issues in molecular biology · 2023Article
- Quantification of the Diversity in Gene Structures Using the Principles of Polarization Mapping.Current issues in molecular biology · 2023Article
- Accurate and fast clade assignment via deep learning and frequency chaos game representation.GigaScience · 2022Article
- Chaos game representation and its applications in bioinformatics.Computational and structural biotechnology journal · 2021Review
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
The novel coronavirus (SARS-COV-2) is generally referred to as Covid-19 virus has spread to 213 countries with nearly 7 million confirmed cases and nearly 400,000 deaths. Such major outbreaks demand classification and origin of the virus genomic sequence, for planning, containment, and treatment. Motivated by the above need, we report two alignment-free methods combing with CGR to perform clustering analysis and create a phylogenetic tree based on it. To each DNA sequence we associate a matrix then define distance between two DNA sequences to be the distance between their associated matrix. These methods are being used for phylogenetic analysis of coronavirus sequences. Our approach provides a powerful tool for analyzing and annotating genomes and their phylogenetic relationships. We also compare our tool to ClustalX algorithm which is one of the most popular alignment methods. Our alignment-free methods are shown to be capable of finding closest genetic relatives of coronaviruses.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.