Bioinformatics course
Contents
Bioinformatics at the University of Oslo
Bioinformatics xxx: A course in bioinformatics for molecular biology (8.0 credit points)
The aim of the course is to introduce students to bioinformatics resources and tools for molecular biology research by having some of the best researchers in Norway to talk about their field in general and then present their own data. Students are encouraged to bring a lap-top; we will be set up for in-course demonstrations as well as practical lab excercises. The course is intended for biology students. No prior background in bioinformatics or computer science is required.
Please bookmark this page. All future changes or announcements for the 2009 course will be posted to this page.
Registration is not yet open.
Information: ian.donaldson@biotek.uio.no
Registration: ragni.indahl@biotek.uio.no
Dates and times
The course is provisionally set to occur in weeks 37 and 38 (September 7th and 14th).
Each day will consist of three time slots for lectures and/or practical labs between 9 AM and 4 PM.
Place
Forskningsparken
Mondays to Thursdays: Room 10
Fridays: Room 7
Exceptions: none so far
Lunch is on your own between 1:00 PM and 2:15 PM (except 15th and 22nd: 11:00 AM to 12:30). Please completely vacate the room during these lunch times.
Programme
Please note: The displayed programme is a preliminary schedule under development. Changes are possible.
| Time | Speaker | Contact | Details and suggested readings |
|---|---|---|---|
| Day 1 - Monday September 7 | |||
| 9.00-9.15 | Ian Donaldson | http://donaldson.uio.no | Introduction |
| 9.15-11.00 | Statistics I | ||
| 11:15-13.00 | |||
| 14.15-16.00 | |||
| Day 2 - Tuesday September 8 | |||
| 9.15-11.00 | Statistics II | ||
| 11:15-13.00 | |||
| 14.15-16.00 | |||
| Day 3 -Wednesday September 9 | |||
| 9.15-11.00 | Ståle Nygård | http://www.heartfailure.no/people/member/nyg_rd.html | Microarray data analysis |
| 11:15-13.00 | Microarrays | ||
| 14.15-16.00 | Microarrays | ||
| Day 4 - Thursday September 10 | |||
| 9.15-11.00 | Torbjørn Rognes | http://www.rr-research.no/rognes/ | Sequence alignments and BLASTing |
| 11:15-13.00 | Robert Lyle | High throughput sequencing | |
| 14.15-16.00 | Geir K. Sandve | Motif scanning and discovery in DNA | |
| Day 5 - Friday September 11 | |||
| 9.15-11.00 | Dave W. Ussery | Comparative genomics | |
| 11:15-13.00 | Multiple | Sequence lab | |
| 14.15-16.00 | Multiple | Sequence lab | |
| Day 6 - Monday September 14 | |||
| 9.15-11.00 | Bjørn Dalhus | Structural biology review and PyMOL (TBC) | |
| 11:15-13.00 | Jon K. Laerdahl | Structural bioinformatics tools, predictors, and 3D modeling (TBC) | |
| 14.15-16.00 | Dalhus and Laerdahl | Structural tutorials and exercises (TBC) | |
| Day 7 - Tuesday September 15 | |||
| 9.15-11.00 | Ian Donaldson | http://donaldson.uio.no | Working with gene lists and over-representation analysis |
| 11:15-13.00 | Ian Donaldson | Interaction, Complex and Pathway data resources | |
| 14.15-16.00 | Antonio Mora, Sabry Razick, Paul Boddie | Interaction lab | |
| Day 8 - Wednesday September 16 | |||
| 9.15-10.00 | Erik Plahte | http://www.cigene.no/people.html | Modelling paradigms for gene regulatory networks |
| 10.15-11.00 | Arne Gjuvsland | http://www.cigene.no/people.html | Causally cohesive genotype-phenotype modelling - systems biology meets genetics |
| 11.15-12.00 | Jon Olav Vik | http://www.cigene.no/people.html | cGP map of the cardiomyocyte |
| 12:15-13.00 | Harald Martens | http://www.cigene.no/people.html | QTL analysis with biospectroscopy - on cows and milk |
| 13:00-14.15 | Lunch | ||
| 14.15-15.00 | Achim Kohler | http://www.cigene.no/people.html | A new phenotyping paradigm for yeast |
| 15.15-16.00 | Solve Sæbø | http://www.umb.no/ikbm/ansatte/solve.sabo | Multivariate analysis of yeast genetic data (Regner med at Lars er borte da.) |
| Day 9 - Thursday September 17 | |||
| 9.15-12.00 | Other ideas: Student presentations, Programming (Python, Taverna, R), Machine learning, BioPortal, EMBNet, Genome browser, text mining and PubGene, SIMULA and modelling | ||
| Day 10 - Friday September 18 | |||
| 9.15-12.00 | Open lab and study session | ||
| Day 11 - Monday September 21 | |||
| 9.15-13.15 | Exam (4 hour written open book) | ||
