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96views more  BMCBI 2005»
10 years 4 months ago
Comparison of codon usage measures and their applicability in prediction of microbial gene expressivity
Background: There are a number of methods (also called: measures) currently in use that quantify codon usage in genes. These measures are often influenced by other sequence proper...
Fran Supek, Kristian Vlahovicek
73views more  BMCBI 2005»
10 years 4 months ago
Empirical codon substitution matrix
Background: Codon substitution probabilities are used in many types of molecular evolution studies such as determining Ka/Ks ratios, creating ancestral DNA sequences or aligning c...
Adrian Schneider, Gina Cannarozzi, Gaston H. Gonne...
62views more  BMCBI 2005»
10 years 4 months ago
Differences in codon bias cannot explain differences in translational power among microbes
Background: Translational power is the cellular rate of protein synthesis normalized to the biomass invested in translational machinery. Published data suggest a previously unreco...
Les Dethlefsen, Thomas M. Schmidt
135views more  BMCBI 2007»
10 years 4 months ago
Sequence similarity is more relevant than species specificity in probabilistic backtranslation
Background: Backtranslation is the process of decoding a sequence of amino acids into the corresponding codons. All synthetic gene design systems include a backtranslation module....
Alfredo Ferro, Rosalba Giugno, Giuseppe Pigola, Al...
112views more  BMCBI 2010»
10 years 4 months ago
Computational identification of rare codons of Escherichia coli based on codon pairs preference
Background: Codon bias is believed to play an important role in the control of gene expression. In Escherichia coli, some rare codons, which can limit the expression level of exog...
Xianming Wu, Songfeng Wu, Dong Li, Jiyang Zhang, L...
123views Bioinformatics» more  BIBE 2006»
10 years 10 months ago
Isolation and Visualization of Codon Usage Biases
While genomic sequencing projects have proved an abundant source of information for biological studies ranging from the molecular to the ecological in scale, much of the informati...
Douglas W. Raiford, Dan E. Krane, Travis E. Doom, ...