Jan Albert

Error rates, PCR recombination, and sampling depth in HIV-1 Whole Genome Deep Sequencing

This study evaluates error rates, PCR recombination, and sampling depth in HIV-1 whole genome deep sequencing, finding rare mutations down to 0.2% can be detected.

In-vivo mutation rates and fitness landscape of HIV-1

The paper estimates mutation rates and fitness costs of HIV-1 mutations using longitudinal sequencing data, finding universal fitness landscape patterns across patients.

Inference of transmission network structure from HIV phylogenetic trees

This study uses approximate Bayesian computation to infer transmission network structures from HIV phylogenetic trees, showing that within-host evolution affects network inference and that early epidemic stages allow better differentiation of contact networks.

Establishment and stability of the latent HIV-1 DNA reservoir

The paper analyzes HIV-1 DNA reservoirs during suppressive ART and finds that most viral DNA sequences are similar to pre-treatment RNA sequences, suggesting ART halts viral turnover rather than persistent replication.