APPLICATION OPEN UNTIL 17 March 2025

Programme - Information sheet - Application form sent by e-mail to NRLs functional e-mail address

 

Training course: Intro to Bioinformatics for genomic data mining

When: from 17 June at 9am to 18 June 2025 at 4pm (CET)

Where: ANSES, 14 rue Pierre et Marie Curie 94700 Maisons-Alfort

Foreword

The inter EURLs Working Group (WG) has been established by the European Commission with the aim to promote the use of NGS across the EURLs' networks, build NGS capacity within the EU and ensure liaison with the work of the EURLs and the work of EFSA and ECDC on the NGS mandate sent by the Commission. The WG includes all the EURLs operating in the field of the microbiological contamination of food and feed.

 

The training course will focus on the main features and the use of bioinformatics for analysis of WGS data at a basic level:

► Introduction to Next Generation Sequencing (NGS) data formats
► Analysis of NGS data: local and remote options, closed and custom platforms (Galaxy, Ridom SeqSphere+, etc.)
► Basic tools for analysis: quality check and trimming
► Assembly, basic typing of the strains using different approachesProviding an overview of different possible approaches for NGS data analysis

 

After the course, the participants will be able to:

► Choose a solution for NGS data analysis,

► Understand the vocabulary connected to NGS data analysis,

► Perform basic analysis on NGS data (quality check, trimming, assembly, search of genetic features of interest),

► Evaluate and interpret the results obtained,

► Understand the concepts behind different cluster analysis approaches.

 

Please note that the participants are asked to bring their own laptops.

 

The EURLs selection of the participants is based on the following criteria:

► Training needs of the NRL doing the request (may also be based on performance in PTs),
► Participation in previous training initiatives on the same topics,
► Role of the applicant in the NRL,
► If a given laboratory has several NRL mandates, only one applicant from the same laboratory can participate.

 

Each EURL will reimburse the expenses related to travel and accommodation of the selected applicants according to the usual EU Regulations.

 

Organised by:
► EURL-AMR
► EURL-Campylobacter
► EURL-Coagulase Positive Staphylococci (CPS) (host)
► EURL-Foodborne viruses
► EURL-Listeria monocytogenes (host)
► EURL-Parasites
► EURL-Salmonella
► EURL-VTEC