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

49 Citations (Scopus)

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 - 2002
Externally publishedYes

Fingerprint

Cluster analysis
Cluster Analysis
Gene Frequency
codons
Codon
gene frequency
cluster analysis
Genes
Gene
gene
genes
Mammals
Pan troglodytes
Rattus norvegicus
Macaca
Minor
mammal
mammals
taxonomy
prediction

Keywords

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

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics
  • Biotechnology
  • Drug Discovery

Cite this

Cluster analysis of the codon use frequency of MHC genes from different species. / Ma, Jianmin; Zhou, Tong; Gu, Wanjun; Sun, Xiao; Lu, Zuhong.

In: BioSystems, Vol. 65, No. 2-3, 2002, p. 199-207.

Research output: Contribution to journalArticle

Ma, Jianmin ; Zhou, Tong ; Gu, Wanjun ; Sun, Xiao ; Lu, Zuhong. / Cluster analysis of the codon use frequency of MHC genes from different species. In: BioSystems. 2002 ; Vol. 65, No. 2-3. pp. 199-207.
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