Applications of NGS bioinformatics analysis on tuberculosis epidemiology: a hands-on workshop
Workshop Details
Date: April 26 2024
Time: 09:30-16:30
Venue: Joy Lounge, 4F, Taipei International Convention Center
Registration Fee: NTD 3,000 (≒USD 100)
Capacity: 30
Organizer
The Union-Asia Pacific Region Conference (Union APR)
Co-Organizer
Population Health Research Center, College of Public Health, National Taiwan University
Host
Hsien-Ho Lin/ National Taiwan University
Jann-Yuan Wang/ Taiwan Society of Tuberculosis and Lung Diseases
Format of the Workshop
- Symposium (2hr): speeches and discussion by inviting three speakers
- Basic overview and introduction of NGS and bioinformatic analysis + Hands-on session (4hr)
- Participants are required to bring their own laptops to the workshop
Learning Objectives
- To understand the fundamental knowledge of NGS data
- To understand the application and limitations of NGS analysis in tuberculosis epidemiology
- To gain hands-on experience in bioinformatics analysis related to tuberculosis epidemiology
Introduction
In recent years, Next Generation Sequencing (NGS) has rapidly advanced, with Whole Genome Sequencing (WGS) emerging as a potent tool for deciphering microbial epidemiology. Using the genomic information at the finest level of resolution, WGS promises to enhance our understanding about the anticipated resistance pattern and the molecular mechanism of resistance. It can also be used as a powerful genotyping tool to investigate the chain of transmission and the evolution of the microbes over time. With the increasing availability of sequencing and bioinformatics platforms, WGS has become the gold standard of molecular epidemiologic studies for tuberculosis, or has even become routine practice in certain settings.
In light of this, we are organizing a workshop that gathers researchers from various nations to share insights and applications of this burgeoning technology on tuberculosis. Our goal is for participants not only to learn from shared experiences but also to actively immerse themselves in NGS data practices, potentially sowing the seeds for its integration into their future pursuits.
Tentative Agenda
| Time | Agenda | Preliminary Host or Speakers |
|---|---|---|
| 9:30-10:00 | Registration / Pre-preparation of hand-on material | |
| 10:00-10:10 | Opening | Hsien-Ho Lin / National Taiwan University |
| 10:10-11:40 | Application of NGS to understand local TB epidemiology – Australia – Moldova – Taiwan |
Ben Marais / The University of Sydney Ted Cohen / Yale University Hsien-Ho Lin / National Taiwan University |
| 11:40-12:00 | Discussion | Ben Marais / The University of Sydney Ted Cohen / Yale University Hsien-Ho Lin / National Taiwan University |
| 12:00-13:00 | Lunch break | |
| 13:00-13:30 | Linux environment introduction and basic commands | Chien-Yueh Lee / National Taipei University of Technology |
| 13:30-14:20 | Introduction of NGS and Overview of NGS Data pre-processing | Chien-Yueh Lee/ National Taipei University of Technology |
| 14:20-14:30 | Break | |
| 14:30-15:30 | Variant calling, phylogenetic tree and SNP distance calculation | Chieh-Yin (Jenny) Wu / National Taiwan University |
| 15:30-15:45 | Break | |
| 15:45-16:10 | Identification of resistant-conferring mutations | Chieh-Yin (Jenny) Wu / National Taiwan University |
| 16:10-16:30 | Introduction of online analytical systems for bacterial research: MiDsystem and TBImpact | Chien-Yueh Lee / National Taipei University of Technology |
