Click the heading of a topic to see the lecture slides or lab instructions. Slides are added as the course progresses.
Monday 20th
Room: Nils Wedel, Medicinaregatan 9b (changed from Folke Andreasson, Medicinaregatan 11)
09.30-10.00 Fika
10.00-10.15 Registration and Welcome, presentation of SciLifeLab (Magnus Alm Rosenblad)
10.15-11.00 Lecture: Introduction to Linux (Martin Dahlö)
11.00-12.00 Exercise: Introduction to Linux (Martin Dahlö, Magnus Alm Rosenblad)
12.00-13.00 Lunch at Anatomen cafeteria, Medicinaregatan 3
13.00-14.00 Lecture: Introduction to UPPMAX (Martin Dahlö)
14.00-17.00 Exercise: Introduction to UPPMAX (Martin Dahlö, Magnus Alm Rosenblad)
Tuesday 21st
Room: Nils Wedel
09.00-09.30 Lecture: File types in bioinformatics (Martin Dahlö)
09.30-12.00 Exercise: File types in bioinformatics (Martin Dahlö, Magnus Alm Rosenblad)
12.00-13.00 Lunch at Anatomen cafeteria, Medicinaregatan 3
13:00-14:00 Lecture: Advanced Linux usage (Martin Dahlö)
14:00-17:00 Exercise: Advanced Linux usage (Martin Dahlö, Magnus Alm Rosenblad)
Wednesday 22nd
Room: Nils Wedel
09.00-10.00 Lecture: Next Generation Sequencing Overview (Nina Norgren)
10.00-11.00 Lecture: NGS workflow (Nina Norgren)
11.00-12.00 Exercise: NGS workflow (Nina Norgren, Katarina Truve)
12.00-13.00 Lunch at Anatomen cafeteria, Medicinaregatan 3
13.00-17.00 Exercise: NGS workflow (Nina Norgren, Katarina Truve)
18:00- Course dinner at Taverna Aversa, Tredje långgatan “Auktionshuset” close to Linnégatan.
Thursday 23rd
Room: 9-9:45 : Birgit Thilander (Medicinaregatan 3, Academicum, above Arvid Carlson lecture hall)
Room: 10-12:00 : Arvid Carlson lecture hall (Medicinaregatan 3, Academicum)
09:00-09.45 Exercise: NGS workflow (Nina Norgren, Dag Ahrén)
10:00-12.00 Lecture: BiG Talk, NGS, Link to SciLifeLab Youtube Channel (Simon Andrews, Room: Arvid Carlsson lecture hall)
12.00-13.00 Lunch at Anatomen cafeteria, Medicinaregatan 3
13.00-14:00 Lecture: RNA sequencing, transcriptome and expression quantification (html, pdf) (Dag Ahrén)
14.00-17:00 Lecture+Exercise: RNA sequencing, transcriptome and expression quantification (html, pdf) (Viktor Jonsson, Dag Ahrén)
Friday 24th
Room: Nils Wedel
09:00-12:00 Lecture+Exercise: RNA sequencing, transcriptome and expression quantification (html, pdf) (Viktor Jonsson, Dag Ahrén)
12.00-13.00 Lunch at Anatomen cafeteria, Medicinaregatan 3
13.00-13.20 Lecture: The Bioinformatics Infrastructure in Sweden (Magnus Alm Rosenblad)
13:20-15.00 Lecture+Exercise: RNA sequencing, transcriptome and expression quantification (Viktor Jonsson, Dag Ahrén)