For increasingyiled in the mirna fast result puzzles (Johan’s lab)
we discussed intensively to limit the number of A’s.
This has already been implemented by the A-dometer.
Furthermore, it was shown in our tables that AA, AAA, AAAA etc decreased the chance of cluster formation significantly, the more A’s were connected to each other.
However, as was shown in
One strategically placed Quad-A hinge was very beneficial for the score.
This must be at the positions indicated, where it acts as a connection between a bulb and a hairpin - see the arrows indicated in the post.
All of these could be implemented in the swtichbot.
So, this means, implementation of 3 srategies
Your strategy has been added to our implementation queue and we should have it completed within the next two to three weeks. You can check the status of the implementation here.
We will also be uploading the code used to write your strategy on this page if you are interested in reading it later.
After implementing your idea, we will post the direct link to the code here. Then, we will then optimize the parameters, and test it. At that point, we will tell you the correlation of how good your strategy was and what the new optimized parameters are.
Thanks for sharing your idea!
The EteRNA Team
I am pleased to announce that a preliminary version of your strategy has been implemented with 27 lines of code. The code might slightly change in the future to remove bugs, but you can check the current version here. We will soon work on optimizing your parameters and testing the strategy.
Thank you again for sharing your switch strategy!
The EteRNA Team