Ben Kotzen

The paper models SARS-CoV-2 evolution during the pandemic, finding that immune escape became more important than infectivity as variants evolved.

The paper reprocesses SARS-CoV-2 genomic data to correct systematic errors in phylogenies using a novel assembly tool, resulting in a cleaner global tree of 4.47 million samples.

The paper designs SARS-CoV-2 Spike proteins with novel mutations to evaluate vaccine effectiveness against future viral variants using a deep learning model.

This study uses long-read assemblies to show that genetic modules across multiple plasmids organize Borrelia burgdorferi strain variation and influence virulence in Lyme disease.