All group activities (coffee, lectures and reportage) and bioinformatics practicals will be held in the Centre for Computational Biology, 3rd floor Haworth Building, Univeristy of Birmingham. Lab practicals held in the Biosciences teaching laboratory.
Getting to the Centre for Computational Biology
Centre for Computational Biology is in the Haworth Building. It is a very short walk from the University (Birmingham) train station. When coming out of the train station turn left and go DOWN the hill. It is well sign posted on your RIGHT. It is building Y2 (yellow) on the campus map.
| Monday | Introduction Day |
|---|---|
| 14:00 | Registration & Coffee |
| 14:30 | Introduction to Porecamp (Nick Loman) |
| 15:00 | Group lecture: Introducing the MinION platform (all) What a good library looks like (Justin O'Grady) |
| 16:30 | Breakout practical: Designing your MinION experiment |
| 18:30 | Leave for group dinner with instructors Restaurant Mughal-E-Azam, Stratford Road, Sparkhill |
| Tuesday 15th | Sample preparation (Josh Quick
& Justin O'Grady) TA: Pablo Fuentes-Utrilla, Solomon Mwaigwisya |
|---|---|
| 09:00 | Coffee seminar: Nanopore sequencing for diagnostics (Justin O'Grady) |
| 09:30 | Lab practical: QCing your sample |
| 11:00 | Lab practical: Library preparation (I) |
| 13:00 | Lunch seminar: Understanding squiggle data and error correction (Jared Simpson) |
| 14:30 | Lab practical: Library preparation (II) |
| 17:30 | Group reporting |
| 18:30 | Dinner on your own |
| Wednesday 16th | Running the MinION (Matt Loose & John Tyson) |
|---|---|
| 09:00 | Coffee seminar: Run until (Matt Loose) |
| 09:30 | Lab practical: Preparing laptop & MinION for sequencing |
| 10:30 | Lab practical: MinKNOW and configuring run scripts (John Tyson) |
| 13:00 | Lunch seminar: Nanoopre bioinformatics (Mick Watson) |
| 14:00 | Lab practical: Run interrogation and Metrichor |
| 16:00 | Demonstration: Dynamic balancing with read until |
| 17:30 | Group reporting |
| 18:30 | Dinner on your own |
| Thursday 17th | MinION bioinformatics (Nick
Loman & Mick Watson)
TA: Rob Stewart, Emily Richardson |
|---|---|
| 09:00 | Coffee seminar: Accurate variant calling (Nick Loman) |
| 09:30 | Lab practical: Exploring FAST5 data with poRe and poretools |
| 11:00 | Lab practical: Mapping nanopore reads and variant calling |
| 13:00 | Lunch seminar: Deploying a portable nanopore sequencing system (Josh Quick) |
| 14:00 | Lab practical: Assembling nanopore data |
| 17:30 | Group reporting |
| 18:30 | Group dinner |
| Friday 18th | Conclusions |
|---|---|
| 09:00 | Coffee |
| 09:30 | Bioinformatics group practicals |
| 12:00 | Group presentations |
| 13:00 | Lunch and wrap-up |