Local Stability Compensation presents a bottom-up approach to RNA design, focusing on local interactions, compared to the top-down approach of global free energy minimization. Check out the paper for more! 4/4

Our large design libraries demonstrate that local stability compensation (net free energy of local substructure) correlates with folding accuracy through a Hill equation relationship. 3/4

We show that large, destabilizing loops are often immediately adjacent to more stabilizing stems in natural structures. We also show that designed structures fold more closely to their design when local stability compensation is considered. 2/4

We hope to apply these methods to identify novel structures and to improve our RNA secondary structure meta-database, stay tuned for bpRNA-hub.

Although it isn't as accurate as our other alignment-based method bpRNA-align, (Published in RNA) it allows us to perform an initial clustering of 100s of thousands of structures, which we can refine, reducing the overall number of calculations
rnajournal.cshlp.org/content/29/5...

Great idea! So in other words use harder filament but use a heat gun to mold it into place. Sounds like a really cool plan

The issue is: how to you get it to pose into a 3D structure? That is something to work on. The flexible filament for the backbone allows it to be posed in various shapes, maybe transparent sting could hold it in place as a structure? Stay tuned for more!

After some attempts, it occurs to me that a 3D pen is the best method after all. 3D pen printing tends to be string- or stick-like, and is perfect for drawing molecular bonds. I'm experimenting with the technique and would like to further exaggerate the the atoms as round spheres

The design a graduate student in my lab came up with for a 3D printer had to be truncated to be printed, and required quite a lot of scaffolds. 3D printers need bulk, and the space-filling approach hides molecular details.