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R2oDNA designer: computational design of biologically neutral synthetic DNA sequences.
| Content Provider | Semantic Scholar |
|---|---|
| Author | Casini, Arturo Christodoulou, Georgia Freemont, Paul S. Baldwin, Geoff S. Ellis, Tom Donald, James T. Mac |
| Copyright Year | 2014 |
| Abstract | R2oDNA Designer is a web application that stochastically generates orthogonal sets of synthetic DNA sequences designed to be biologically neutral. Biologically neutral sequences may be used for directing efficient DNA assembly by overlap-directed methods, as a negative control for functional DNA, as barcodes, or potentially as spacer regions to insulate biological parts from local context. The software creates optimized sequences using a Monte Carlo simulated annealing approach followed by the elimination of sequences homologous to host genomes and commonly used biological parts. An orthogonal set is finally determined by using a network elimination algorithm. Design constraints can be defined using either a web-based graphical user interface (GUI) or uploading a file containing a set of text commands. |
| Starting Page | 2753 |
| Ending Page | 2761 |
| Page Count | 9 |
| File Format | PDF HTM / HTML |
| Alternate Webpage(s) | https://s3-us-west-2.amazonaws.com/oww-files-public/c/c8/Sb4001323.pdf |
| PubMed reference number | 24933158v1 |
| Alternate Webpage(s) | https://doi.org/10.1021/sb4001323 |
| DOI | 10.1021/sb4001323 |
| Journal | ACS synthetic biology |
| Volume Number | 3 |
| Issue Number | 8 |
| Language | English |
| Access Restriction | Open |
| Subject Keyword | CDISC ADAS-Cog - Commands Summary Score Excretory function Genome Spacer Device Component User Interface Device Component User-Computer Interface algorithm |
| Content Type | Text |
| Resource Type | Article |
