HIV-1 Subtype B Protease and Reverse Transcriptase Amino Acid Covariation. - Soo-Yon Rhee; Tommy F. Liu; Susan P. Holmes; Robert W. Shafer (PLoS Comput. Biol., 2007)

The calibrated population resistance tool: standardized genotypic estimation of transmitted HIV-1 drug resistance. - Robert J. Gifford; Tommy F. Liu; Soo-Yon Rhee; Mark Kiuchi; Stéphane Hué; Deenan Pillay; Robert W. Shafer (Bioinform., 2009)

A classification model for G-to-A hypermutation in hepatitis B virus ultra-deep pyrosequencing reads. - Elizabeth C. Reuman; Severine Margeridon-Thermet; Harrison B. Caudill; Tommy F. Liu; Katyna Borroto-Esoda; Evguenia S. Svarovskaia; Susan P. Holmes; Robert W. Shafer (Bioinform., 2010)