Ruian Ke

The paper develops a mechanistic model linking CD8+ T cell expansion sensitivity to HIV post-treatment control, showing strong correlations with Ki-67 and TCF-1 levels.

This study quantifies AZD5582's effect on SIV reservoirs in macaques, showing it reactivates 25% of latent cells per dose and clears 60-79% of reactivated cells.

This study stratifies SARS-CoV-2 viral shedding patterns in saliva into three groups with distinct durations using a mathematical model and clustering, but finds no clear clinical or miRNA biomarkers explaining the differences.

The paper uses dynamic models to analyze viral rebound after HIV-1 treatment interruption, showing effector cell expansion rate distinguishes post-treatment controllers from non-controllers.

This study measures viral burst sizes in thousands of infected cells using dqPCR, finding significant variation in H3N2 and H1N1 strains with a small fraction of cells producing most viruses.

This paper models viral resistance emergence in SARS-CoV-2 treated with anti-spike monoclonal antibodies, showing that target cell replenishment mechanisms can explain high viral rebounds.

The paper develops a simulation tool to assess how contact tracing affects phylogenetic inferences from molecular epidemiology data.

This paper develops a deep learning method for real-time HIV outbreak detection using genomic data, achieving high specificity and sensitivity in identifying outbreaks.

The paper models the role of semi-infectious particles and coinfection in influenza dynamics, finding SIPs significantly contribute to viral load and co-infection is frequent during early infection.

This paper develops a mathematical model of HIV-1 latent reservoir subpopulations to explain clinical observations and predict therapeutic interventions.