Good point, we did not do this though I do remember discussing it at some point. I can't recall why not, or if it was attempted and abandoned for this project. This would be better to ask our MD collaborators (Chen & Vangaveti labs) who did the modeling. Thanks for your interest in the work :)
![Abraham Punnoose, J., Cole, D., Melfi, T., Morya, V., Madhanagopal, B.R., Chen, A.A., Vangaveti, S., Chandrasekaran, A.R., & Halvorsen, K. (2025). Tuning the Stability of DNA Tetrahedra with Base Stacking Interactions. Nano Letters 25, 3605-3612. PMCID: PMC11887421. [R35GM124720 for JAP, DC, VM, and KH (sole support for Halvorsen lab – concept, design, execution, analysis of tetrahedron experiments); other authors: R35GM133469 for TM, SV, and AA (MD simulations); R35GM150672 for BRM and ARC (DLS and AFM experiments)]](https://cdn.bsky.app/img/feed_thumbnail/plain/did:plc:a4ipgcwlffftlwjlhbr5orgu/bafkreiar5kbnrc3sx52hm3xboi6rngz4w7zgajbllgnoddgot6hd3iyxme)
