Programme
Wednesday, 23 November 2022 (Theoretical overview)
12:00 Registration (lunch and coffee provided in registration area)
13:00 Welcome and introduction (Bernhard Benka & Thomas Kickinger)
13:15 Tips and tricks for Illumina & Oxford Nano pore whole genome sequencing workflow (Karola Prior & Gabriel Lichtenegger-Wagner)
15:00 Coffee Break
15:15 Bioinformatic tools/ AGES pipelines for whole genome sequencing data analysis (Patrick Hyden)
16:30 End of day 1
19:00 Social event in an inner city restaurant.
Thursday, 24 November 2022 (Hands-on)
09:00 Bordetella pertussis – a comparison of Il lumina and OxfordNanopore WGS data (Gabriel Lichtenegger-Wagner)
09:30 Part I Hands-on: comparative genomics on Listeria monocytogenes using Ridom SeqSphere+ (Dag Harmsen, Ariane Pietzka, Adriana Cabal, Karola Prior, Werner Ruppitsch)
11:00 Coffee Break
11:15 Part II Hands-on: continued
12:30 Lunch Break
13:45 Part III Hands-on: continued
15:15 Coffee Break
15:30 Clinical utility of whole genome sequencing of AMR pathogens: unlocking the benefits of long read data for surveillance and infection prevention and control.
Demo of AREScloud web application for the analysis of nanopore long read data. (Arne Materna, Stephan Beisken)
16:45 End of day 2
19:00 Dinner with guest lecture by Franz Allerberger: „NGS and Public Health“
Friday, 25 November 2022 (Hands-on)
09:00 AMR and plasmid analysis from genome data (Dag Harmsen)
09:30 Hands-on: AMR and plasmid analysis using Ridom SeqSphere+ (Dag Harmsen, Ariane Pietzka, Adriana Cabal, Karola Prior Werner Ruppitsch)
10:30 Coffee Break
10:45 Antimicrobial resistance – the situation in Austria (Petra Apfalter)
11:30 Validation and clinical evaluation of ARES software and NGS assay for AMR detection (Arne Materna, Stephan Beisken)
12:50 Closing remarks (Dag Harmsen, Werner Ruppitsch)
