Centre for Genomic Pathogen Surveillance, University of Oxford | Oxford, UK

• Work within the PathogenWatch and AMRwatch development teams; built and benchmarked E. coli and Salmonella analysis containers and integrated BactScout and QualiBact quality controls into PathogenWatch.
• Designed QualiBact, deriving versioned assembly-quality thresholds from 2,440,377 assemblies across 307 bacterial species and testing how failed QC changes AMR detection.
• Coordinate bioinformatics delivery across GHRU2 partner sites, including proficiency testing across five international organisations.
• Translate genomic-surveillance methods into practice through draft WHO AMR guidance, PATH-SAFE national recommendations and training in PathogenWatch, Microreact and genomic epidemiology.

Quadram Institute Bioscience | Norwich, UK

• Served as Interim Head of Informatics from May to December 2023, leading a five-person bioinformatics service and taking responsibility for computational infrastructure.
• Built and ran COG-UK bioinformatics infrastructure supporting the release of more than 80,000 SARS-CoV-2 genomes; managed staff covering processing, analysis and weekly reporting to the DHSC and Foreign Office.
• Led technical planning as PI for the £1.49 million BBSRC QIB Cloud Renewal capital award.
• First author on a multi-centre evaluation of the ARTIC sequencing method using data from more than 3,600 clinical samples; also contributed to the PHA4GE metadata standard adopted by NCBI BioSample.
• First-authored a 2022 population-genomics study tracing AMR-carrying Salmonella across Brazilian poultry and UK food and clinical contexts.

University of Warwick | Coventry, UK

• Integrated ancient metagenomes into EnteroBase and co-authored SPARSE, a method for reconstructing microbial strains from metagenomic sequence data.
• Co-developed cgMLST schemes and first-authored the 2018 EnteroBase paper analysing population structure across more than 100,000 Salmonella genomes.

University of Warwick | Coventry, UK

• Developed EnteroBase middleware and APIs in Python and Flask, designed its database and contributed JavaScript and Jinja views for large-scale bacterial population analysis.
• Co-developed GrapeTree for interactive exploration of large genomic datasets and continue to maintain the software.

School of Chemistry and Molecular Biosciences, University of Queensland | Brisbane, Australia

• Administered and supported Linux and macOS workstations and servers used to share bacterial-genomics data for the Beatson Microbial Genomics group.
• Developed automated bioinformatics pipelines, including parallelised execution on HPC clusters.