Workpackage 4

From comparable data to actionable information: Analytical workflows for foodborne pathogen surveillance, outbreak detection and epidemiological analysis

WP leader: Eva Møller Nielsen, SSI (3) emn@ssi.dk
co-leaders: Tine Hald, DTU (1) tiha@food.dtu.dk, & Michel-Yves Mistou, ANSES (5) michel-yves.mistou@anses.fr

Overall task: To develop a general analytical workflow for population-based disease surveillance, outbreak detection and epidemiological modeling of foodborne infections.

1. To develop cross-sector and cross-pathogen methods for sequence-based surveillance for foodborne pathogens.

1.1. To develop an analytical framework for routine sequence-based surveillance of current priority pathogens.

2. To develop cross-sector and cross-pathogen methods and tools to support outbreak detection, outbreak investigations and epidemiological analysis.

2.1. To develop a framework for the application of the developed NGS and analysis tools in the epidemiological handling of and response to foodborne outbreaks in Europe.

2.2. To develop tools for source attribution based on NGS-based routine surveillance and outbreak data for foodborne pathogens (DTU).