Schedule


OBS! Shedule is preliminary and may be subject to changes!

All lectures and exercises will be given via zoom, zoom-link will be sent to all students.

Lecture slides will be provided as links as they get completed.



Monday 25th of January
Time Description Lecturer
09.00 Course introduction Åsa & Paulo
09.30 scRNAseq methodologies and ESCG platform Karolina Wallenborg
10.30 Break  
11.00 scRNAseq Quality Control Åsa Björklund
12.00 Lunch  
13.00 Intro to exercises Åsa Björklund
13.30 Exercises: Quality control Åsa, Paulo, Lokesh, Erik
15.30 Wrap up session Åsa & Paulo



Tuesday 26th of January
Time Description Lecturer
9.00 Data normalization Åsa Björklund
10.00 Break  
10.15 Dimensionality reduction Paulo Czarnewski
11.30 Exercises: Dimensionality reduction Åsa, Paulo, Anna, Jonathan
12.00 Lunch  
13.00 Batch correction + Data integration Paulo Czarnewski
14.00 Exercises: Dimensionality reduction (continued) Åsa, Paulo, Anna, Jonathan
15.30 Wrap up session Åsa & Paulo



Wednesday 27th of January
Time Description Lecturer
9.00 Clustering techniques and scRNAseq toolkits Åsa Björklund
10.00 Break  
10.15 Exercises: Data integration Åsa, Paulo, Anna, Lokesh
11.15 Exercises: Clustering Åsa, Paulo, Anna
12.00 Lunch  
13.00 Differential expression Åsa
14.00 Gene Set Analysis Paulo
14.15 Exercises: Differential expression Åsa, Paulo, Erik
15.30 Wrap up session Åsa & Paulo



Thursday 28th of January
Time Description Lecturer
9.00 Trajectory inference analysis Paulo Czarnewski
10.00 Break  
10.15 Exercises: Trajectory inference Åsa, Paulo, Jonathan, Lokesh
12.00 Lunch  
13.00 Spatial Transcriptomics Alma Andersson
14.00 Exercises: Spatial Transcriptomics Åsa, Paulo, Alma, Anna
15.30 Wrap up session Åsa & Paulo



Friday 29th of January
Time Description Lecturer
09.00 Celltype prediction Ahmed Mahfouz
10.00 Exercises: Celltype prediction Åsa, Paulo, Ahmed, Erik
11.30 Summary of exercises Åsa & Paulo
12.00 Lunch  
13.00 Multimodal omics integration Nikolay Oskolkov
14.00 Wrap up and Course Summary Åsa & Paulo


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