- 09:00-09:45 Lecture: Introduction and experimental design (Jules Gilet, Åsa Björklund)
- 09:45-10:15 coffee break
- 10:15-11:00 Lecture: QC & data preprocessing (Åsa)
- 11:00-12:00 Labs: QC & data preprocessing (Åsa & Jules)
- 12:00-13:00 lunch
- 13:00-13:45 Lecture: Normalisation and removal of confounding factors (Heli Pessa & Bishwa Ghimire)
- 13:45-14:30 Labs: Normalisation and removal of confounding factors (Heli & Bishwa)
- 14:30-15:00 coffee break
- 15:00-15:45 Lecture: Data integration (Ahmed Mahfouz)
- 15:45-17:00 Labs: Data integration (Ahmed Mahfouz)
- 09:00-09:45 Dimensionality reduction I (Paulo Czarnewski)
- 09:45-10:15 coffee break
- 10:15-11:00 Dimensionality reduction II (Paulo)
- 11:00-12:00 Clustering I (Ahmed Mahfouz)
- 12:00-13:00 lunch
- 13:00-15:00 Clustering II (Ahmed Mahfouz)
- 14:30-15:00 coffee break
- 15:00-17:00 Differential expression (Ståle Nygård and Olga Dethlefsen)
- 09:00-11:00 Cell type identification I (Philip Lijnzaad)
- 09:45-10:15 coffee break
- 10:15-11:00 Cell type identification I (Philip)
- 11:00-12:00 Lecture: Trajectories/Pseudo-time I (Paulo, Jules)
- 12:00-13:00 lunch
- 13:00-14:00 Trajectories/Pseudo-time II (Paulo, Jules)
- 14:00-14:30 Spatial transcriptomics I (Jeongbin Park & Lars Borm)
- 14:30-15:00 coffee break
- 15:00-16:00 Spatial transcriptomics I (Jeongbin Park & Lars Borm)
- 16:00-17:00 Discussion and questions
- Åsa Björklund (SciLifeLab, NBIS, Sweden), [email protected]
- Paulo Czarnewski (SciLifeLab, NBIS, Sweden), [email protected]
- Ahmed Mahfouz (LUMC, Netherlands), [email protected]
- Ståle Nygård (UIO, Norway), [email protected]
- Olga Dethlefsen (SciLifeLab, NBIS, Sweden), [email protected]
- Jeongbin Park (Charité-Universitätsmedizin Berlin, Germany), [email protected]
- Lars Borm (Karolinska Institutet, Sweden), [email protected]
- Jules Gilet (Institut Curie, France), [email protected]
- Heli Pessa (University of Helsinki, Finland), [email protected]
- Bishwa Ghimire (FIMM, Finland), [email protected]
- Philip Lijnzaad (Princess Maxima Center for Pediatric Oncology, Netherlands), [email protected]
- Content: [email protected]
- Practicalities: [email protected]