Natural Vector Method for Virus Phylogenetic Classification: A Mini- Review

Chenglong Yu

Research output: Contribution to journalReview article

2 Citations (Scopus)

Abstract

Existing alignment-based phylogenetic methods remain computationally arduous and even impossible for large numbers of viral genetic sequences. Objective: Alignment-free methodologies which successfully overcome serious limitations of alignment-based ways, especially for computation time and storage space, have been quickly proposed. Methods: Natural vector method is a new alignment-free approach for studying phylogenetics.Because of its simplicity when compared with the alignment-based ways, the method has been successfully applied in virus phylogenetic classification lately. Results: Natural vector method allows us to identify phylogenetic relationships for single-segmented and multiple-segmented viruses at different classification levels such as family, subfamily, genus, species and Baltimore class. The method has high speed and accuracy. Conclusion: Here we reviewed the development of the natural vector method and discussed its applications on virus phylogenetic classification.

Original languageEnglish
Pages (from-to)332-336
Number of pages5
JournalCurrent Bioinformatics
Volume13
Issue number4
DOIs
Publication statusPublished - 1 Jan 2018
Externally publishedYes

Keywords

  • Alignment-free
  • Hausdorff distance
  • Natural vector
  • Nearest neighbour algorithm
  • Whole genome comparison

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