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. 2007 Jul;35(Web Server issue):W132-6.
doi: 10.1093/nar/gkm392. Epub 2007 May 30.

CodonO: codon usage bias analysis within and across genomes

Michael C Angellotti  1 , Shafquat B Bhuiyan, Guorong Chen, Xiu-Feng Wan
Affiliations

CodonO: codon usage bias analysis within and across genomes

Michael C Angellotti et al. Nucleic Acids Res. 2007 Jul.

Abstract

Synonymous codon usage biases are associated with various biological factors, such as gene expression level, gene length, gene translation initiation signal, protein amino acid composition, protein structure, tRNA abundance, mutation frequency and patterns, and GC compositions. Quantification of codon usage bias helps understand evolution of living organisms. A codon usage bias pipeline is demanding for codon usage bias analyses within and across genomes. Here we present a CodonO webserver service as a user-friendly tool for codon usage bias analyses across and within genomes in real time. The webserver is available at http//www.sysbiology.org/CodonO.

Contact: wanhenry@yahoo.com.

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Figures

Figure 1.
Figure 1.
Simplified CodonO webserver infrastructure.
Figure 2.
Figure 2.
(A) Visualization of the correlation between synonymous codon usage bias and GC compositions; (B) Visualization of synonymous codon usage bias for each gene in a specific genome; (C) Statistical analysis of synonymous codon usage bias.
Figure 2.
Figure 2.
(A) Visualization of the correlation between synonymous codon usage bias and GC compositions; (B) Visualization of synonymous codon usage bias for each gene in a specific genome; (C) Statistical analysis of synonymous codon usage bias.
See this image and copyright information in PMC

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