Fall/Herbst-semester 2026
Mondays 9.00-9.45 (Y27-H-46), 10.00-10.45 (Y27-H-46)
Monday 11.00-11.45
Dr. Hubert Rehrauer, Group Leader of Genome Informatics at FGCZ
Prof. Dr. Mark Robinson, Professor of Statistical Genomics, DMLS, UZH
tba
| Date | Lecturer | Topic | Exercise | JC1 | JC2 |
|---|---|---|---|---|---|
| 14.09.2026 | Mark+Hubert | admin; mol. bio. basics | quarto; git(hub) | ||
| 21.09.2026 | Hubert | NGS intro; exploratory data analysis | EDA in R | ||
| 28.09.2026 | Hubert | mapping | Rsubread | ||
| 05.10.2026 | Mark | limma + friends | linear model simulation + design matrices | ||
| 12.10.2026 | Hubert | RNA-seq quantification | RSEM | ||
| 19.10.2026 | Mark | hands-on session #1: benchmarking | group exercise: Omnibenchmark | ROTS: reproducible RNA-seq biomarker detector––prognostic markers for clear cell renal cell cancer (SS,FO) | X |
| 26.10.2026 | Mark | edgeR+friends 1 | basic edgeR/voom | scMultiMap: Cell-type-specific mapping of enhancers and target genes from single-cell multimodal data (MS, TP) | X |
| 02.11.2026 | Mark | edgeR+friends 2 | advanced edgeR/voom | X | X |
| 09.11.2026 | Mark | hands-on session #2: RNA-seq | FASTQC/Salmon/etc. | X | X |
| 16.11.2026 | Hubert | single-cell 1: preprocessing, dim. red., clustering | clustering | X | X |
| 23.11.2026 | Mark | single-cell 2: clustering, marker gene DE | marker gene DE | X | X |
| <<<<<<< Updated upstream | |||||
| 30.11.2026 | Mark | spatial omics 1 | spatial statistics | X | Efficient differential expression analysis of large-scale single-cell transcriptomics data using Dreamlet (GK, WR) |
| ======= | |||||
| 30.11.2026 | Mark | spatial omics 1 | spatial statistics | X | (GK, WR) |
Stashed changes | 07.12.2026 | tba | hands-on session #3: single-cell RNA-seq | full scRNA-seq pipeline | X | X | | 14.12.2026 | Mark | spatial omics 2 | structures, DSP | X | X |
Assuming you have git installed locally, you can check out the entire set of course materials with the following command (from command line):
git clone https://github.com/sta426hs2026/material.git
and get updates by running git pull at any later time in the same directory.
Alternatively, to retrieve a ZIP file of the repository, you can click on the (green) 'Code' button (top right of main panel) and then click 'Download ZIP'.