Computational methods for synthetic gene design
US8175813B2 · kind B2 · utility
Assignee
Inventor
Key dates
| Filing date | Oct 9, 2008 |
| Grant date | May 8, 2012 |
| Priority date | — |
| Expiry date | May 30, 2030 |
Classification
- Technology area (CPC G)Physics
- CPC primaryG16B40/00
- WIPO fieldComputer technology
- WIPO sectorElectrical engineering
Abstract
The present invention is drawn to methods for designing synthetic nucleotide sequences encoding polypeptides of interest. The methods involve organizing a database of sequences as a set of N-length oligomer sequences and compiling a list of probability scores for each N-length sequence. The probability scores are used to substitute one or more higher-scoring sequences into the parent nucleotide sequence to generate an optimized sequence. The nucleotide sequence of interest may be further optimized by removing either or both of unintended open reading frames or undesired short DNA elements, and/or substituting oligomer sequences to achieve a specific G:C content. These methods may be used for optimizing expression of heterologous genes in any organism, particularly in plants. The method generates synthetic sequences with a composition similar to that of a target database. These synthetic sequences may be used, for example, for regulating pesticidal activity or herbicide resistance in organisms, particularly plants or plant cells.
Source: USPTO / EPO open patent data. Objective bibliographic and citation counts.