This course is given at Scilifelab Solna, Rooms Air & Fire, ground floor to the left from the main entrance.
Lecture slides will be provided as links as they get completed.
Monday 4th of Februray
09.00-09.15 Course introduction (Åsa Björklund)
09.15-10.00 scRNAseq methodologies and ESCG platform (Henrik Gezelius)
10.30-11.20 Introduction to read alignment pipelines and gene expression estimates (Johan Reimegård)
11.20-12.10 scRNAseq quality control (Åsa Björklund)
12.10-13.15 Lunch
13.15-14.00 Dimensionality reduction (Paulo Czarnewski Barenco)
14.00-14.15 Wrap up of todays lectures (Åsa Björklund)
14.15-14.30 Intro to exercises (Åsa Björklund)
14.30-17.00 Practical Exercises(Johan, Anna, Åsa, Paulo)
18.00- Course dinner at Shanti Touch of Bengal
Tuesday 5th of Februray
09.00-09.50 Data normalization (Nikolay Oskolkov)
10.20-11.10 Differential gene expression (Olga Dethlefsen)
11.10-12.00 Clustering techniques and scRNAseq toolkits (Åsa Björklund)
12.00-12.15 Wrap up of todays lectures (Åsa Björklund)
12.15-13.15 Lunch
13.15-17.00 Practical exercises (Nikolay, Olga, Åsa)
Wednesday 6th of February
09.00-09.45 Trajectory inference and other analyses (Åsa Björklund)
10.15-11.00 Subgroups of midbrain dopamine neurons (Åsa Björklund)
11.00-12.00 Spatial transcriptomics and spatial mapping of single cells (Stefania Giaccomello)
12.00-12.15 Wrap up of todays lectures (Åsa Björklund)
12.15-13.15 Lunch
13.15-16.00 Practical exercises (Åsa, Estelle, Jakub)
16.00-17.00 Summary of the course (Åsa Björklund)
Each day we will have cofee around 10.00 and at 15.00 during the exercises. Lunches will be at Svarta Räfven 12.15.