Protein Frustratometer 2: a tool to localize energetic frustration in protein molecules, now with electrostatics. - R. Gonzalo Parra; Nicholas P. Schafer; Leandro G. Radusky; Min-Yeh Tsai; A. Brenda Guzovsky; Peter G. Wolynes; Diego U. Ferreiro (Nucleic Acids Res., 2016)

AWSEM-Suite: a protein structure prediction server based on template-guided, coevolutionary-enhanced optimized folding landscapes. - Shikai Jin; Vinícius G. Contessoto; Mingchen Chen; Nicholas P. Schafer; Wei Lu; Xun Chen; Carlos Bueno; Arya Hajitaheri; Brian J. Sirovetz; Aram Davtyan; Garegin A. Papoian; Min-Yeh Tsai; et al. (Nucleic Acids Res., 2020)

Rapid assessment of T-cell receptor specificity of the immune repertoire. - Xingcheng Lin; Jason T. George; Nicholas P. Schafer; Kevin Ng Chau; Michael E. Birnbaum; Cecilia Clementi; José N. Onuchic; Herbert Levine (Nat. Comput. Sci., 2021)

OpenAWSEM with Open3SPN2: A fast, flexible, and accessible framework for large-scale coarse-grained biomolecular simulations. - Wei Lu; Carlos Bueno; Nicholas P. Schafer; Joshua Moller; Shikai Jin; Xun Chen; Mingchen Chen; Xinyu Gu; Aram Davtyan; Juan J. de Pablo; Peter G. Wolynes (PLoS Comput. Biol., 2021)

A generalized Flory-Stockmayer kinetic theory of connectivity percolation and rigidity percolation of cytoskeletal networks. - Carlos Bueno; James Liman; Nicholas P. Schafer; Margaret S. Cheung; Peter G. Wolynes (PLoS Comput. Biol., 2022)

A structural dynamics model for how CPEB3 binding to SUMO2 can regulate translational control in dendritic spines. - Xinyu Gu; Nicholas P. Schafer; Carlos Bueno; Wei Lu; Peter G. Wolynes (PLoS Comput. Biol., 2022)