Programme

When	What	Who
09:00-10:00	Lecture: Overview different single-cell platforms and assays	Susan Kloet
10:00-10:30	break
10:30-12:00	Lecture: Plate-based scRNA-seq	Miao Chien
12:00-13:00	lunch
13:00-14:15	Lecture: Droplet-based scRNA-seq (part1) (part2)	Susan Kloet & Miao Chien
14:15-14:30	break
14:30-15:30	Lecture: Single-cell multi-omics	Miao Chien
15:30-16:00	break
16:00-17:00	Lecture: Preprocessing: from reads to a count matrix	Roberta Menafra

When	What	Who
09:00-10:00	Lecture: Experimental design & sample preparation	Susan Kloet
10:00-10:30	break
10:30-11:30	Lecture: Quality control and normalization	Ahmed Mahfouz
11:30-12:30	lunch
12:30-14:00	Lab: Quality control and normalization	TAs
14:00-14:15	break
14:15-15:15	Lecture: Dimensionality reduction	Thomas Höllt
15:15-15:30	break
15:30-17:00	Lab: Dimensionality reduction	TAs

When	What	Who
09:00-10:00	Lecture: Trajectory inference	Mohammed Charrout
10:00-10:30	break
10:30-12:00	Lab: Trajectory inference	TAs
12:00-13:00	lunch
13:00-14:00	Lecture: Differential expression analysis	Ahmed Mahfouz
14:00-14:30	break
14:30-16:30	Lab: Differential expression analysis	TAs

When	What	Who
09:00-09:45	Single-cell and Spatial transcriptomics reveal somitogenesis in mouse gastruloids	Anna Alemany (Hubrecht Institute)
09:45-10:30	Simultaneous quantifications of epigenetics and transcriptomics in the same cell with scDam&T	Jop Kind (Hubrecht Institute)
10:30-11:00	break
11:00-11:45	Whole genome cell state tracing of gene and enhancer activity in the small intestine	Ruben Boers (Erasmus MC)
11:45-12:30	Single-cell RNA-seq unravels developmental dynamics in vivo and in vitro	Stefan Semrau (Leiden University)

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