Computing ensembles of transitions from stable states: Dynamic importance sampling. - Juan R. Perilla; Oliver Beckstein; Elizabeth J. Denning; Thomas B. Woolf (J. Comput. Chem., 2011)

Mature HIV-1 capsid structure by cryo-electron microscopy and all-atom molecular dynamics. - Gongpu Zhao; Juan R. Perilla; Ernest L. Yufenyuy; Xin Meng; Bo Chen; Jiying Ning; Jin-Woo Ahn; Angela M. Gronenborn; Klaus Schulten; Christopher Aiken; Peijun Zhang (Nat., 2013)

Ictal propagation of high frequency activity is recapitulated in interictal recordings: Effective connectivity of epileptogenic networks recorded with intracranial EEG. - Anna Korzeniewska; Mackenzie Carpenter Cervenka; Christophe C. Jouny; Juan R. Perilla; Jaroslaw Harezlak; Gregory K. Bergey; Piotr J. Franaszczuk; Nathan E. Crone (NeuroImage, 2014)

High-Performance Analysis of Biomolecular Containers to Measure Small-Molecule Transport, Transbilayer Lipid Diffusion, and Protein Cavities. - Alexander J. Bryer; Jodi A. Hadden-Perilla; John E. Stone; Juan R. Perilla (J. Chem. Inf. Model., 2019)

Scalable Analysis of Authentic Viral Envelopes on FRONTERA. - Fabio González-Arias; Tyler Reddy; John E. Stone; Jodi A. Hadden-Perilla; Juan R. Perilla (Comput. Sci. Eng., 2020)

Accelerating prediction of chemical shift of protein structures on GPUs: Using OpenACC. - Eric Wright; Mauricio H. Ferrato; Alexander J. Bryer; Robert Searles; Juan R. Perilla; Sunita Chandrasekaran (PLoS Comput. Biol., 2020)

Full scale structural, mechanical and dynamical properties of HIV-1 liposomes. - Alexander J. Bryer; Tyler Reddy; Edward Lyman; Juan R. Perilla (PLoS Comput. Biol., 2022)