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CodonO: codon usage bias analysis within and across genomes.

Michael C Angellotti1, Shafquat B Bhuiyan, Guorong Chen

  • 1Systems Biology Laboratory, Department of Microbiology, Miami University, Oxford, OH 45056, USA.

Nucleic Acids Research
|June 1, 2007
PubMed
Summary
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Synonymous codon usage bias analysis is crucial for understanding organismal evolution. The CodonO webserver provides a user-friendly tool for real-time, in-depth codon usage bias analyses across and within genomes.

Area of Science:

  • Genomics
  • Bioinformatics
  • Molecular Biology

Background:

  • Synonymous codon usage bias is influenced by multiple biological factors including gene expression, length, and tRNA abundance.
  • Understanding these biases is essential for deciphering the evolutionary processes of living organisms.
  • Current codon usage bias analyses require robust pipelines for both intra- and inter-genomic comparisons.

Purpose of the Study:

  • To introduce CodonO, a novel webserver service designed for codon usage bias analysis.
  • To provide a user-friendly platform for real-time analysis of codon usage bias.
  • To facilitate comprehensive genomic and intra-genomic codon usage bias studies.

Main Methods:

  • Development of a webserver service named CodonO.

Related Experiment Videos

  • Implementation of a codon usage bias analysis pipeline.
  • Real-time data processing for genomic analyses.

    • Main Results:

    • CodonO offers a user-friendly interface for analyzing codon usage bias.
    • The webserver enables real-time, cross- and intra-genomic analyses.
    • The tool supports the quantification of codon usage bias.

    Conclusions:

    • CodonO serves as an accessible and efficient tool for codon usage bias research.
    • The webserver aids in understanding the evolutionary implications of codon usage bias.
    • CodonO is available for public use at http://www.sysbiology.org/CodonO.