Christopher Ruis

This study identifies mutagens and host antiviral proteins as major contributors to hantavirus mutagenesis, influencing mutation patterns and genetic diversity.

This study tracks the emergence and molecular evolution of H5N1 influenza viruses in U.S. dairy cattle, identifying increased mutation rates and positive selection after spillover from birds.

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.

This study uses mutational spectra to infer influenza virus transmission routes and adaptive mutations enabling sustained respiratory transmission.

The paper identifies a mutation P812S in SARS-CoV-2 associated with immune evasion and upper airway adaptation, but reduced syncytia formation.

The paper introduces MutTui, a tool to calculate and compare mutational spectra of DNA and RNA pathogens using multiple sequence data types.

Panaroo's graph-based pangenome clustering uses gene adjacency across genomes to correct annotation errors, shrinking spurious accessory genomes and enlarging core genomes in simulated and real bacteria.