Monte Carlo Simulation of HIV-1 Evolution in Response to Selection by Antibodies. - Jack da Silva; Austin L. Hughes (IPDPS, 2002)

Dblox: a genome-wide test for ancient segmental duplication. - Robert Friedman; Vikram Ekollu; John R. Rose; Austin L. Hughes (Bioinform., 2004)

Within-host evolution of CD8+-TL epitopes encoded by overlapping and non-overlapping reading frames of simian immunodeficiency virus. - Austin L. Hughes; Helen Piontkivska; Kendall C. Krebs; David H. O'Connor; David I. Watkins (Bioinform., 2005)

SNPGenie: estimating evolutionary parameters to detect natural selection using pooled next-generation sequencing data. - Chase W. Nelson; Louise H. Moncla; Austin L. Hughes (Bioinform., 2015)