1. Advanced Bioinformatics BIF-30806

2. Welcome

3. Content of the course Basic Linux Perl scripting Open Bioinformatics Software Protein Motifs Protein Interactions Semantic web NGS RNA-seq/splicing Comparative genomics Chip-Seq Project

4. Teachers Jack Leunissen Harm Nijveen Aalt-Jan van Dijk Edouard Severing Elio Schijlen Felipe Leal Valentim Joachim Bargsten Jose Muino Ke Lin Pierre-Yves Chibon Pjotr Prins Sandra Smit Saulo Alves Aflitos Tom de Man

5. Grading Exercises(8) + Perl exam30% Project Report50% Project Presentation20% (inter)active participation during lectures and practical sessions is highly appreciated

6. Hours Mornings: 9 - 12 Afternoon: 13 - 17:15 Coffee/tea breaks as required

7. Location Lectures: PC 771 Practical sessions and project work: PC 771, G 790, G 794, G 795

8. Project Create an analysis pipeline using Perl to answer a biological question 2 weeks Small teams of ~4 students One report and presention per student

9. Perl Introduction to the language Focus on practical use Exercises numbered 1 - 8 should to be mailed before Feb 23 to: harmn@bioinformatics.nlharmn@bioinformatics.nl Written exam after one week

10. Perl Gurus Already a Perl Guru? Then you can skip the Perl classes But: You should hand in the exercise solutions and do the written exam (easy) Overestimation of Perl skills is at your own risk...