Schedule

Day 1: 25 May 2009 (Monday) Introduction, General databases & tools

09.00 - 10.20 (Room D224 at CMB, von Eulers v 3) Lecture: Introduction to the course and bioinformatics - Rickard Sandberg & Lim Yun Ping

10.20 - 10.50 Coffee break

10.50 - 12.00 (D224) Lecture: Bioinformatics tools & databases - Lim Yun Ping databases.pdf

12.00 - 13.00 Lunch break (lunch not included in the course)

13.00 - 16.00 (Computer halls Space and Dot at Berzelius) Practical: Database & wiki - Lim Yun Ping dbprac.pdf

Day 2: 26 May 2009 (Tuesday) Sequence analysis

09.00 - 09.45 (A216, Berzelius väg 35) Lecture: Sequence alignments - Erik Arner, RIKEN SeqAnaTools.pdf

09.45 - 10.00 Coffee break

10.00 - 10.45 (A216) Genome assembly and annotations - Erik Arner, RIKEN gen_assembly_annot.pdf

10.45 - 12.00 (A216) Advanced use of genome browsers - Carsten Daub, RIKEN genbrow.pdf

12.00 - 13.00 Lunch break

13.00 - 16.00 (Computer halls Enter and Dot at Berzelius) Practical: Alignments, assembly & annotations - Carsten Daub / Erik Arner, RIKEN genbrowpractical.pdf

Day 3: 27 May 2009 (Wednesday) Protein bioinformatics

09.00 - 09.45 (A216) Lecture: Protein motifs and domains - Prof. Bengt Persson, KI and LiU? ProtSeqInfo.pdf

09.45 - 10.00 Coffee break

10.00 - 10.45 (A216) Lecture: Protein Structure prediction: membrane proteins - Arne Elofsson, SU

11.00 - 11.45 (A216) Lecture: Evolutionary analyses of proteins - Prof. Bengt Persson, KI and LiU? evolution.pdf

12.00 - 13.00 Lunch break

13.00 - 16.00 (Computer halls Enter and Dot at Berzelius) Practical: Protein bioinformatics - Prof. Bengt Persson, KI and LiU?

Day 4: 28 May 2009 (Thursday) RNA Bioinformatics

09.00 - 09.45 (A216) RNA Bioinformatics - Rickard Sandberg, CMB RNAbioinf.pdf

09.45 - 10.00 Coffee break

10.00 - 10.45 (A216) Post-transcriptional bioinformatics - Rickard Sandberg, CMB posttransc

11.00 - 11.45 (A216) Core promoters - Albin Sandelin, University of Copenhagen, DK

12.00 - 13.00 Lunch break

13.00 - 13.45 (Computer halls Enter and Dot at Berzelius) Practical: Gene regulation bioinformatics - Rickard Sandberg & Daniel Ramkold, CMB, KI RNApractical.pdf suggested literature: gb.pdf, chip-seq.pdf

Day 5: 29 May 2009 (Friday)

09.00 - 12.00 (Enter & Dot) Preparation time for mini project

12.00 - 13.00 Lunch break

13.00 - 16.00 (A216) Examination: Student presentations and examination of presentations

Electronic course evaluation

The course evaluation is carried out electronically using the websurvey tool. Every course participant receives an email with a unique, anonymous link to the course evaluation tool.