OPTIMIZER -- a web server for optimizing the codon usage of DNA sequences
What you can do:
An on-line PHP application that optimizes the codon usage of a DNA sequence to increase its expression level.
Highlights:
- Three methods of optimization are available: the 'one amino acid-one codon' method, a guided random method based on a Monte Carlo algorithm, and a new method designed to maximize the optimization with the fewest changes in the query sequence.
- One of the main features of OPTIMIZER is that it makes it possible to optimize a DNA sequence using pre-computed codon usage tables from a predicted group of highly expressed genes from more than 150 prokaryotic species under strong translational selection.
- These groups of highly expressed genes have been predicted using a new iterative algorithm.
- In addition, users can use, as a reference set, a pre-computed table containing the mean codon usage of ribosomal protein genes and, as a novelty, the tRNA gene-copy numbers.
Keywords:
- Codon
- Gene Expression
- Gene Expression Regulation
- Molecular Sequence Data
- Protein Biosynthesis
- Sequence Analysis
Literature & Tutorials:
This record last updated: 05-30-2008