Rahat Zaheer

This study identifies persistent cross-species transmission systems between cattle and humans as a major driver of E. coli O157:H7 epidemiology in Alberta, with a shift toward more virulent stx2a-only strains.

PlasEval evaluates plasmid binning tools by comparing their results to ground truth or other methods using a dissimilarity measure.

This study profiles resistance determinants, virulence factors, and mobile genetic elements in 1273 Enterococcus faecium genomes from UK and Canada, showing habitat-associated gene and MGE patterns and a workflow for AMR surveillance.

Neptune identifies differentially abundant genomic loci in bacterial populations using k-mer matching and probabilistic models, showing sensitivity and specificity on simulated and real data.

SNVPhyl is a phylogenomics pipeline that identifies SNVs and constructs whole-genome phylogenies from WGS data, showing high sensitivity and specificity in outbreak detection.