Channel:  Rosetta Commons

bioRxiv posts many COVID19-related papers. A reminder: they have not been formally peer-reviewed and should not guide health-related behavior or be reported in the press as conclusive.

33 Articles

Hierarchical design of multi-scale protein complexes by combinatorial assembly of oligomeric helical bundle and repeat protein building blocks
Hsia, Y., Mout, R., Sheffler, W., Edman, N. I., Vulovic, I., Park, Y.-J., Redler, R. L., Bick, M. J., Bera, A. K., Courbet, A., Kang, A., Brunette, T., Nattermann, U., Tsai, E., Saleem, A., Chow, C. M., Ekiert, D. C., Bhabha, G., Veesler, D., Baker, D.
10.1101/2020.07.27.221333 — Posted: 2020-07-28
Protein sequence design by explicit energy landscape optimization
Norn, C., Wicky, B. I. M., Juergens, D., Liu, S., Kim, D., Koepnick, B., Anishchenko, I., Foldit Players, , Baker, D., Ovchinnikov, S.
10.1101/2020.07.23.218917 — Posted: 2020-07-24
Protein sequence optimization with a pairwise decomposable penalty for buried unsatisfied hydrogen bonds
Coventry, B., Baker, D.
10.1101/2020.06.17.156646 — Posted: 2020-06-17
A generative algorithm for de novo design of proteins with diverse pocket structures
Basanta, B., Bick, M. J., Bera, A. K., Norn, C., Chow, C. M., Carter, L. P., Goreshnick, I., Dimaio, F., Baker, D.
10.1101/2020.03.23.003913 — Posted: 2020-03-24
Antibody structure prediction using interpretable deep learning
Ruffolo, J. A., Sulam, J., Gray, J. J.
10.1101/2021.05.27.445982 — Posted: 2021-07-14
Accurate prediction of protein structures and interactions using a 3-track network
Baek, M., DiMaio, F., Anishchenko, I., Dauparas, J., Ovchinnikov, S., Lee, G. R., Wang, J., Cong, Q., Kinch, L. N., Schaeffer, R. D., Millan, C., Park, H., Adams, C., Glassman, C. R., DeGiovanni, A., Pereira, J. H., Rodrigues, A. V., van Dijk, A. A., Ebrecht, A. C., Opperman, D. J., Sagmeister, T., Buhlheller, C., Pavkov-Keller, T., Rathinaswamy, M. K., Dalwadi, U., Yip, C. K., Burke, J. E., Garcia, K. C., Grishin, N. V., Adams, P. D., Read, R. J., Baker, D.
10.1101/2021.06.14.448402 — Posted: 2021-06-15
The stability landscape of de novo TIM barrels explored by a modular design approach
Romero-Romero, S., Costas, M., Silva, D.-A., Kordes, S., Rojas-Ortega, E., Guerra, Y., Tapia, C., Shanmugaratnam, S., Rodriguez-Romero, A., Baker, D., Höcker, B., Fernandez-Velasco, D. A.
10.1101/2020.09.29.319103 — Posted: 2021-03-15
Designed proteins assemble antibodies into modular nanocages
Divine, R., Dang, H. V., Ueda, G., Fallas, J. A., Vulovic, I., Sheffler, W., Saini, S., Zhao, Y. T., Raj, I. X., Morawski, P. A., Jennewein, M. F., Homad, L. J., Wan, Y.-H., Tooley, M. R., Seeger, F., Fahning, M. L., Etemadi, A., Lazarovits, J., Roederer, A., Walls, A. C., Stewart, L., Mazloomi, M., King, N. P., Campbell, D. J., McGuire, A. T., Stamatatos, L., Ruohola-Baker, H., Mathieu, J., Veesler, D., Baker, D.
10.1101/2020.12.01.406611 — Posted: 2020-12-01
A memetic algorithm enables efficient local and global all-atom protein-protein docking with backbone and sidechain flexibility
Varela, D., Karlin, V., Andre, I.
10.1101/2021.04.12.437963 — Posted: 2022-03-21
XENet: Using a new graph convolution to accelerate the timeline for protein design on quantum computers
Maguire, J. B., Grattarola, D., Klyshko, E., Mulligan, V. K., Melo, H.
10.1101/2021.05.05.442729 — Posted: 2021-05-05

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