Dynamics of Immune Escape during HIV/SIV Infection. - Christian L. Althaus; Rob J. De Boer (PLoS Comput. Biol., 2008)

Quantifying the Turnover of Transcriptional Subclasses of HIV-1-Infected Cells. - Christian L. Althaus; Beda Joos; Alan S. Perelson; Huldrych F. Günthard (PLoS Comput. Biol., 2014)

EpiLPS: A fast and flexible Bayesian tool for estimation of the time-varying reproduction number. - Oswaldo Gressani; Jacco Wallinga; Christian L. Althaus; Niel Hens; Christel Faes (PLoS Comput. Biol., 2022)

Bayesian workflow for time-varying transmission in stratified compartmental infectious disease transmission models. - Judith A. Bouman; Anthony Hauser; Simon L. Grimm; Martin Wohlfender; Samir Bhatt; Elizaveta Semenova; Andrew Gelman; Christian L. Althaus; Julien Riou (PLoS Comput. Biol., 2024)

Estimating Re and overdispersion in secondary cases from the size of identical sequence clusters of SARS-CoV-2. - Emma B. Hodcroft; Martin Wohlfender; Richard A. Neher; Julien Riou; Christian L. Althaus (PLoS Comput. Biol., 2025)