New Paper: Principles Governing Establishment versus Collapse of HIV-1 Cellular Spread

Hello Stan Community,

How does a virus go viral? We recently published a paper to quantitatively define the population dynamics by which cell-to-cell spread of HIV becomes exponential, starting from one infected cell. This process is fundamental to enumeration of HIV-infected cells in HIV-infected individuals on effective treatment, as well as the processes of HIV transmission and viral recrudescence if treatment is stopped. As part of this paper, we used Stan to condition a statistical model (of viral population establishment) on experimental data generated at the NIH Vaccine Research Center. The paper is highlighted in the December 2019 issue of Cell Host & Microbe ( with journal cover art generated with ggplot2 in R and a “Preview” written by another group in the field.

There is free access to this article until Jan 30, 2020 using this link:

Thank you to the Stan developers and wider Stan community for making Stan such a great platform to perform Bayesian inference.

Best regards,
Jason Hataye, MD, PhD
Division of AIDS
National Institute of Allergy and Infectious Diseases (USA)

Citation from PubMed:
Hataye JM, Casazza JP, Best K, et al. Principles Governing Establishment versus Collapse of HIV-1 Cellular Spread. Cell Host Microbe, 2019;26(6):748–763.e20. doi:10.1016/j.chom.2019.10.006