Bioplatforms Australia, EMBL-EBI and CSIRO joint Hands-on Training for Analysis of Next Generation Sequence Data.
This course is designed to familiarise participants with next Generation Sequence data analysis and to provide hands-on computational experience in analysis of NGS data using common analytical approaches for ChIP-seq, RNA-Seq data and de novo genome assembly.
The course covers data analysis of RNA-Seq and ChIP-Seq experiments and de novo genome assembly of small genomes. Topics will include: data quality, alignment, data handling and visualisation, region identification, transcriptome analysis and basis statistical analysis.
The practical 2 day hands-on course is designed for bench biologists, PhD students or early career postdoctoral researchers with no or basic bioinformatics experience who are planning or currently using NGS approaches in their research area.
- Dr Matthais Haime, EMBL-EBI, UK
- Dr Remco Loos, EMBL-EBI, UK
- Dr Myrto Kostadima, EMBL-EBI, UK
- Dr Sean McWilliam, CSIRO, AUS
- Dr Sonika Tyagi, AGRF, AUS
- Dr Nathan Watson-Haigh, AWRI, AUS
- Dr Sean Li, CSIRO, AUS
- Dr Konsta Duesing, CSIRO, AUS
- Dr Paula Moolhuizen, CCG, AUS
- Dr Nandan Despande, UNSW, AUS
|Melbourne||Monash University||12-13 July, 2012|
|Sydney||University of NSW||16-17 July|
|Adelaide, Brisbane, Perth, Hobart||TBC||TBC|
Day 1 - Introduction to NGS and ChIP-seq data analysis
|09:40 - 10:30||Next generation sequencing overview|
|10:30 - 10:50||Morning Tea|
|10:50 - 12:25||Practical: NGS quality control and sequence alignment|
|12:25 - 13:10||Lunch|
|13:10 - 14:00||Introduction to ChIP-seq|
|14:00 - 15:30||Practical: ChIP-seq analysis - peak calling and annotation|
|15:30 - 15:50||Afternoon Tea|
|15:50 - 16:40||Practical: ChIP-seq analysis - motif analysis|
|16:40 - 17:30||Wrap up of day 1 and discussions|
Day 2 - Introduction to RNA-seq and de novo genome assembly
|09:00 - 09:10||Welcome and introductions to Day 2|
|09:10 - 09:40||Introduction to RNA-seq|
|09:40 - 10:15||Practical: alignment and slice junction identification|
|10:15 - 10:40||Practical: transcriptome assembly|
|10:40 - 11:05||Morning Tea|
|11:05 - 12:30||Practical: differential expression analysis|
|12:30 - 13:15||Lunch|
|13:15 - 13:45||Introduction to de novo assembly|
|13:45 - 15:30||Practical: de novo assembly using velvet (part 1 and 2)|
|15:30 - 15:45||Afternoon tea|
|15:45 - 16:45||Practical: de novo assembly using velvet (part 3)|
|16:45 - 17:05||Review and discussion of Velvet de novo assembly exercises|
|17:05 - 17:30||General course discussion and feedback survey completion|
Registration and Payment
Due to the practical component of this course places are limited. The closing date for application is 27 June (12:00 noon AEST).
Successful applicants will be notified by email by 29th June this will include instructions for course payment. Registration will be via a selection process therefore applicants should be aware that, in order to be considered for place on this course, they MUST complete the application page. Items marked * are mandatory. Incomplete registrations will not be processed. The course cost is $150 and includes morning and afternoon tea and lunches.