Philip Ashton

amr.watch provides an interactive platform to analyze and visualize AMR trends from global WGS data, enabling ongoing situational awareness for research and policy.

Mykrobe k-mer panel genotypes Salmonella Typhi lineages, antimicrobial resistance (AMR) markers and plasmids from Illumina or nanopore reads, matching mapping-based lineage calls for 99.8% of genomes.

vaccines.watch is an interactive platform that uses global genome data to monitor vaccine targets and interventions, enabling analysis of vaccine target diversity and genomic landscape gaps.

The paper identifies a new sublineage of Salmonella Typhimurium ST313 in Malawi with a gene expression signature and increased fitness compared to its parent lineage.

The paper uses population genomics and GWAS to analyze Talaromyces marneffei isolates from Vietnam, linking pathogen genetics to clinical phenotypes and identifying genomic regions under selection.

This study uses whole genome sequencing to analyze 699 Cryptococcus neoformans isolates, revealing clonal sub-clades and transmission patterns associated with HIV-related mortality.

SnapperDB provides tools for storing and analyzing bacterial variant data to enable scalable and reproducible SNP analysis of microbial populations.

This study uses MLST to analyze Cryptococcus neoformans var. grubii isolates from Vietnam and Laos, revealing a unique intermediate population structure compared to other regions.

This paper reports the first routine use of whole genome sequencing (WGS) for public health microbiology, demonstrating its impact on Salmonella identification, surveillance, and outbreak investigation.