Codon Adaptation Index CalculatorIntroduction: CAI (Codon Adaptation Index) is an effective measure of synonymous codon usage bias. It may give an approximate indication of the likely success of the heterologous gene expression. This online tool calculates CAI according to the relative synonymous codon...
Generally, a codon adaptation index (CAI, a widespread technique for codon usage bias analysis) of less than 0.8 calculated by our online CAI calculator is considered as codon optimization needed.Codon optimization parametersCodon usage bias The technical platform changes rare codons to match the ...
codon usage bias correlates with thegene expression level(Sharp et al., 1988) as a consequence of selection fortranslational efficiencywhere optimal codons are selected (Sharp & Li, 1986). However, there are additional factors that might influence codon usage such as gene length (Moriyama & Powel...
A codon pair score/codon pair bias calculator bioinformatics codon-usage Updated Feb 28, 2020 Perl juanvillada / H_bonds_ramp Star 1 Code Issues Pull requests Research on position-dependent hydrogen bonds per codon microbial-genomics codon-usage codon-bias Updated Aug 12, 2020 R sam...
Relative synonymous codon usage was calculated for genes in each category using the CAI calculator80. To calculate enrichment of codons usage in each of the categories, differential RSCU of respective categories of genes was calculated by normalizing their RSCU with RSCU of genes showing a TE of ...
including higher than average ACG usage and lower than genome average ACC usage. Of these, ninedosRregulon genes show significant ACG/ACC biases after correction for gene length and global codon bias by z-transformation: BCG_0113, BCG_0114, BCG_0614, BCG_0615 (nrdZ), BCG_1772, BCG_1773c...
2, with loss of Trm4 activity having no or little effect on reporter expression when TTG usage is low but causing a sharp decrease in expression when TTG usage is high. This is consistent with the observation that loss of Trm4, and thus m5C, decreases the expression of TTG- enriched ...
Keywords: Henipaviruses; codon usage bias; host adaptation; natural selection; evolution 1. Introduction Henipaviruses, especially Hendra virus (HeV) and Nipah virus (NiV), are reckoned to be among the deadliest viruses for which bat has been implicated as a natural reservoir host. These ...