Difference between revisions of "Part:BBa K3328025:Design"
m (→Design Notes) |
m (→References) |
||
| Line 16: | Line 16: | ||
===References=== | ===References=== | ||
| − | Green, A. A., Silver, P. A., Collins, J. J., and Yin, P. (2014) | + | [1] Green, A. A., Kim, J., Ma, D., Silver, P. A., Collins, J. J., & Yin, P. (2017). Complex cellular logic computation using ribocomputing devices. Nature, 548(7665), 117–121. doi:10.1038/nature23271 |
| + | |||
| + | [2] Green, A. A., Silver, P. A., Collins, J. J., and Yin, P. (2014) toehold switches: de-novo- | ||
designed regulators of gene expression. Cell 159, 925– 939, DOI: 10.1016/j.cell.2014.10.002 | designed regulators of gene expression. Cell 159, 925– 939, DOI: 10.1016/j.cell.2014.10.002 | ||
Revision as of 14:48, 20 October 2020
switch of NIMPLY gate (NIMPLY2)
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21COMPATIBLE WITH RFC[21]
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000INCOMPATIBLE WITH RFC[1000]Illegal BsaI.rc site found at 778
Design Notes
The NIMPLY gate consist of a Toehold switch and two input triggers that can pair together. The Toehold and the trigger’s core sequences we used originated from the previous literature. Then we added the nucleotide-binding domains at both end of the trigger’s core sequence. This sequence named as “trigger1”. The other one was designed for completely complementary pairing with trigger1 and not pairing with switch sequence. These sequences were designed using NUPACK and were further screened using RNAfold and RNAstructure.
Source
synthesize from company
References
[1] Green, A. A., Kim, J., Ma, D., Silver, P. A., Collins, J. J., & Yin, P. (2017). Complex cellular logic computation using ribocomputing devices. Nature, 548(7665), 117–121. doi:10.1038/nature23271
[2] Green, A. A., Silver, P. A., Collins, J. J., and Yin, P. (2014) toehold switches: de-novo- designed regulators of gene expression. Cell 159, 925– 939, DOI: 10.1016/j.cell.2014.10.002