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The TyphiNET data visualisation dashboard: unlocking Salmonella Typhi genomics data to support public health
Zoe A Dyson1,2,3, Louise Cerdeira4, Vandana Sharma4
1Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene & Tropical Medicine, London, WC1E 7HT, UK. zoe.dyson@lshtm.ac.uk.
Genome Medicine
|May 9, 2025
Summary
TyphiNET is a new online dashboard that makes Salmonella Typhi genotype and antimicrobial resistance data accessible to inform public health strategies and vaccine implementation. This tool helps researchers and policymakers understand typhoid fever trends.
Area of Science:
- Microbiology and Infectious Diseases
- Genomics and Bioinformatics
- Public Health and Epidemiology
Background:
- Salmonella enterica subspecies enterica serovar Typhi (Typhi) causes typhoid fever, a significant public health concern in endemic regions.
- Antimicrobial resistance (AMR) in Typhi complicates treatment and increases mortality.
- Typhoid conjugate vaccines (TCVs) offer a promising prevention strategy, with national programs being considered in high-AMR prevalence countries.
Purpose of the Study:
- To develop an accessible online platform for exploring Typhi genotype and AMR data.
- To provide non-genomics experts with insights into Typhi variants and AMR trends for public health decision-making.
Main Methods:
- Development of TyphiNET, an interactive online dashboard.
- Integration of curated, high-quality whole genome sequence data from the Global Typhoid Pathogen Genomics Consortium.
- Analysis of data using the Pathogenwatch platform to identify Typhi genotypes and AMR patterns.
Main Results:
- TyphiNET provides country-level summaries of Typhi lineages, temporal AMR trends, and underlying resistance mechanisms.
- The dashboard includes data from 11,836 genomes across 101 countries as of February 2024.
- User-friendly visualizations and downloadable reports facilitate data exploration and sharing.
Conclusions:
- TyphiNET enhances access to crucial genome-derived data for typhoid control and intervention strategies.
- The platform serves as a model for making complex genomic data accessible to a broader audience.
- TyphiNET empowers researchers and policymakers with actionable insights for combating typhoid fever.
