15-21th May 2016

Room 3.41, Third Floor, Centennial Campus,
The University of Hong Kong, Pokfulam Road, Hong Kong.

This intensive 7-days workshop will train attendees on analyzing short-read sequencing data mainly from Illumina, as well as other next-gen platforms. This is a hands-on course and by the end of the workshop the attendees would gain the ability to analyze their own data. The workshop is based on real collaborative projects from our lab, including the analysis of metagenomic data from human and mice experiments in clinical settings, as well as high throughput next generation sequencing of model species.

The hands-on course includes comprehensive practice in analyses of next generation sequencing data, including metagenome, metatranscriptome, single genome resequencing, transcriptomes and whole-exome using common tools, including BWA, Samtools, Bedtools, GATK, Velvet, Meta-velvet, IDBA_ud, Trinity, DeSeq and R, etc. Through the course, the participants will learn to:
1. Organize and process files in Linux environment;
2. Deal with the raw Illumina data with quality evaluation and filtering;
3. Map reads to the reference genomes, call SNPs and predict their phenotype consequence;
4. Assemble single genome, transcriptome or metagenome, and predict gene and function and affiliated pathways;
5. Perform statistical analysis of differential expressed genes, enriched gene categories, network analysis, etc.

PhD students, postdocs, research staff and junior faculty members who are interested in, or already working with, next-generation sequencing data are more than welcome. No programming experience is required, although working experience under Linux command-line environment will be highly beneficial. For applicants that lack this knowledge, we will provide a brief introduction and a warm-up practice.

Registration will be via a selection process. Applicants must submit:
• A cover letter
• Research interests
• A short CV

To both organizers:
• gipa@hku.hk
• lijun.sci@connect.hku.hk
Application due date: 01/03/2016.
Notification of confirmation & payment: 15/03/2016.

Registration fee: 4,000 HKD, which includes:
• Course material and USB sticks
• Use of a computer
• Refreshments during breaks

Recommended accommodation for international participants:
Mini Hotel
Booking form for special rate (HKD550 per night)

Dr Jun Li, Systems Biology & Bioinformatics Group, School of Biological Sciences, The University of Hong Kong (CV)
Assoc. Prof. Gianni Panagiotou, Systems Biology & Bioinformatics Group, School of Biological Sciences, The University of Hong Kong (CV)
http://sbb.hku.hk