Cluster analysis of the codon use frequency of MHC genes and genes coding for proteins with different fingerprints

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

Research output: Contribution to journalConference article

Abstract

The relative synonymous codon use frequencies (RSCU) of 135 MHC genes from four mammal species are analyzed using 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. RSCU values of 71 genes coding for proteins with two different fingerprints are also studied and these 71 genes can be clearly differential into two groups according to the difference in codon usage bias. This indicates that condon usage is closely related to protein high-level structure. The conclusion may be useful in gene classification and predicted of gene function and protein spatial structure.

Original languageEnglish (US)
Number of pages1
JournalAnnual Reports of the Research Reactor Institute, Kyoto University
Volume3
StatePublished - Dec 1 2001
Event23rd Annual International Conference of the IEEE Engineering in Medicine and Biology Society - Istanbul, Turkey
Duration: Oct 25 2001Oct 28 2001

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Keywords

  • Cluster analysis protein motif protein fingerprint
  • Codon usage bias
  • MHC
  • RSCU

ASJC Scopus subject areas

  • Energy Engineering and Power Technology
  • Mechanical Engineering

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