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Open Access Highly Accessed Methodology article

Computational codon optimization of synthetic gene for protein expression

Bevan Kai-Sheng Chung123 and Dong-Yup Lee123*

Author Affiliations

1 Department of Chemical and Biomolecular Engineering, National University of Singapore, 4 Engineering Drive 4, Singapore, 117576, Singapore

2 NUS Graduate School for Integrative Sciences and Engineering, National University of Singapore, 28 Medical Drive, #05-01, Singapore, 117456, Singapore

3 Bioprocessing Technology Institute, Agency for Science, Technology and Research (A*STAR), 20 Biopolis Way, #06-01 Centros, Singapore, 138668, Singapore

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BMC Systems Biology 2012, 6:134  doi:10.1186/1752-0509-6-134

Published: 20 October 2012

Additional files

Additional file 1:

List of Sequences. Excel file contains DNA sequences of wild-type high- and low-expression genes; the optimized genes generated by the in silico leave-one-out cross validation are also included.

Format: XLS Size: 5.3MB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 2:

Codon optimization of another set of high-expression genes inE. coli. ICO, CCO and MOCO were carried out using the set of high-expression genes reported in an earlier study [33] to evaluate the relative performance of the methods.

Format: DOC Size: 217KB Download file

This file can be viewed with: Microsoft Word Viewer

Open Data

Additional file 3:

Formulation of codon optimization methods. Detailed mathematical formulation of ICO, CCO and MOCO.

Format: DOC Size: 1008KB Download file

This file can be viewed with: Microsoft Word Viewer

Open Data