Cluster analysis of the codon use frequency of MHC genes from different species

Jianmin Ma, Tong Zhou, Wanjun Gu, Xiao Sun, Zuhong Lu

Research output: Contribution to journalArticle

51 Scopus citations

Abstract

The relative synonymous codon use frequency of 135 MHC genes from four mammal species (Homo sapiens, Pan troglodyte, Macaca mulanta and Rattus norvegicus) is analyzed using a hierarchical cluster method. The result suggests that gene function is the dominant factor that determines codon usage bias, while species is a minor factor that determines further difference in codon usage bias for genes with similar functions. The conclusion may be useful in gene classification and gene function prediction.

Original languageEnglish (US)
Pages (from-to)199-207
Number of pages9
JournalBioSystems
Volume65
Issue number2-3
DOIs
StatePublished - Jun 13 2002

Keywords

  • Codon usage bias
  • Hierarchical cluster analysis
  • MHC
  • Relative synonymous codon use frequency (RSCU)

ASJC Scopus subject areas

  • Statistics and Probability
  • Modeling and Simulation
  • Biochemistry, Genetics and Molecular Biology(all)
  • Applied Mathematics

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