| 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: Clustering | Marcel Reinders |
| 10:00-10:30 | break | |
| 10:30-12:00 | Lab: Clustering | TAs |
| 12:00-13:00 | lunch | |
| 13:00-14:00 | Lecture: Data integration | Tamim Abdelaal |
| 14:00-14:30 | break | |
| 14:30-16:30 | Lab: Data integration | 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) |