| Literature DB >> 19378146 |
Jesse Zaneveld1, Micah Hamady, Noboru Sueoka, Rob Knight.
Abstract
The analysis of DNA composition and codon usage reveals many factors that influence the evolution of genes and genomes. In this chapter, we show how to use CodonExplorer, a web tool and interactive database that contains millions of genes, to better understand the principles governing evolution at the single gene and whole-genome level. We present principles and practical procedures for using analyses of GC content and codon usage frequency to identify highly expressed or horizontally transferred genes and to study the relative contribution of different types of mutation to gene and genome composition. CodonExplorer's combination of a user-friendly web interface and a comprehensive genomic database makes these diverse analyses fast and straightforward to perform. CodonExplorer is thus a powerful tool that facilitates and automates a wide range of compositional analyses.Entities:
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Year: 2009 PMID： 19378146 PMCID： PMC2953947 DOI： 10.1007/978-1-59745-251-9_10
Source DB: PubMed Journal: Methods Mol Biol ISSN： 1064-3745