A Web Interface for Codon Compression

作者：Halweg Edwards Andrea L; Pines Gur; Winkler James D; Pines Assaf; Gill Ryan T

来源：ACS Synthetic Biology, 2016, 5(9): 1021-1023.

DOI：10.1021/acssynbio.6b00026

• protein engineering
• synthetic biology
• saturation mutagenesis
• codon compression

Saturation mutagenesis is widely used in protein engineering and other experiments. A common practice is to utilize the single degenerate codon NNK. However, this approach suffers from amino acid bias and the presence of a stop codon and of the wild type amino acid. These extra features needlessly increase library size and consequently downstream screening load. Recently, we developed the DYNAMCC algorithms for codon compression that find the minimal set of degenerate codons, covering any defined set of amino acids, with no off-target codons and with redundancy control. Additionally, we experimentally demonstrated the advantages of this approach over the standard NNK method. While the code is freely available from our Web site, we have now made this method more accessible to a broader audience without any computational background by building a user-friendly web-based interface for those algorithms.

• 出版日期2016-9