E-CAI: a novel server to estimate an expected value of Codon Adaptation Index (eCAI)
نویسندگان
چکیده
منابع مشابه
An Improved Implementation of Codon Adaptation Index
Codon adaptation index is a widely used index for characterizing gene expression in general and translation efficiency in particular. Current computational implementations have a number of problems leading to various systematic biases. I illustrate these problems and provide a better computer implementation to solve these problems. The improved CAI can predict protein production better than CAI...
متن کاملA Novel Model in Optimal Decision Making to Investment in the Industry with Regard to the Role of Unique Value-Added to Optimizing the Total Expected Cost Index
The main aim of this study, introduce a model todetermine the optimal values of the index value to minimize thetotal expected cost index and also the best decision making inselecting the industry and the region for investment by investors.For this purpose, the technique of linear programming to determinethe optimal values of the index value is used. Finally, FuzzyTOPSIS technique to prioritize ...
متن کاملCodon adaptation index as a measure of dominating codon bias
UNLABELLED We propose a simple algorithm to detect dominating synonymous codon usage bias in genomes. The algorithm is based on a precise mathematical formulation of the problem that lead us to use the Codon Adaptation Index (CAI) as a 'universal' measure of codon bias. This measure has been previously employed in the specific context of translational bias. With the set of coding sequences as a...
متن کاملRelative Codon Adaptation: A Generic Codon Bias Index for Prediction of Gene Expression
The development of codon bias indices (CBIs) remains an active field of research due to their myriad applications in computational biology. Recently, the relative codon usage bias (RCBS) was introduced as a novel CBI able to estimate codon bias without using a reference set. The results of this new index when applied to Escherichia coli and Saccharomyces cerevisiae led the authors of the origin...
متن کاملRelative Codon Adaptation Index, a Sensitive Measure of Codon Usage Bias
We propose a simple, sensitive measure of synonymous codon usage bias, the Relative Codon Adaptation Index (rCAI), as a way to discriminate better between highly biased and unbiased regions, compared with the widely used Codon Adaptation Index (CAI). CAI is a geometric mean of the relative usage of codons in a gene, and is calculated using the codon usage table trained with a set of highly expr...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: BMC Bioinformatics
سال: 2008
ISSN: 1471-2105
DOI: 10.1186/1471-2105-9-65