Phylogenetic Dependency Networks: Inferring Patterns of CTL Escape and Codon Covariation in HIV-1 Gag. - Jonathan M. Carlson; Zabrina L. Brumme; Christine M. Rousseau; Chanson J. Brumme; Philippa Matthews; Carl Myers Kadie; James I. Mullins; Bruce D. Walker; P. Richard Harrigan; Philip J. R. Goulder; David Heckerman (PLoS Comput. Biol., 2008)

Statistical Resolution of Ambiguous HLA Typing Data. - Jennifer Listgarten; Zabrina L. Brumme; Carl Myers Kadie; Gao Xiaojiang; Bruce D. Walker; Mary Carrington; Philip J. R. Goulder; David Heckerman (PLoS Comput. Biol., 2008)

Matching models of HIV-1 viral dynamics to clinical data. - Andrew E. Adams; Zabrina L. Brumme; Alexander R. Rutherford; Ralf W. Wittenberg (CIBCB, 2015)

Mechanisms for Cell-to-cell and Cell-free Spread of HIV-1 in Cellular Automata Models. - Philippe J. Giabbanelli; Cole Freeman; Joshua A. Devita; Nicholas Rosso; Zabrina L. Brumme (SIGSIM-PADS, 2019)

HAMdetector: a Bayesian regression model that integrates information to detect HLA-associated mutations. - Daniel Habermann; Hadi Kharimzadeh; Andreas Walker; Yang Li; Rongge Yang; Rolf Kaiser; Zabrina L. Brumme; Jörg Timm; Michael Roggendorf; Daniel Hoffmann (Bioinform., 2022)