Santeri Puranen

This paper uses genome-wide co-evolution analysis to identify genomic rearrangements in Enterococcus faecium, linking them to adaptation to hospital environments.

This paper introduces SpydrPick, a model-free method to detect co-selection and epistasis in bacterial genomes, revealing both known and novel targets in human pathogens.

This study analyzes the genomes of Enterococcus faecium strains to understand their adaptive evolution, identifying plasmids as key indicators of host specificity through population-wide genomic analysis.

SuperDCA enables genome-wide epistasis analysis in bacteria by efficiently modeling interactions among polymorphisms, revealing novel biological insights in Streptococcus pneumoniae.

This paper introduces genomeDCA, a statistical method to identify epistatic interactions in Streptococcus pneumoniae genomes, revealing networks of resistance, virulence, and core genes.