週次 |
日期 |
單元主題 |
Week 1 |
2023/02/21 |
Introduction of Next Generation Sequencing (NGS), experimental design, and course outlines |
Week 2 |
2023/02/28 |
Holidays |
Week 3 |
2023/03/07 |
Single-cell RNA sequencing (scRNA-seq) introduction
-Introduction and basic work flow for single-cell RNA sequencing |
Week 4 |
2023/03/14 |
Basic R programming and scRNA-seq data download
-Installation of R and RStudio
-scRNA-seq data download from public dataset |
Week 5 |
2023/03/21 |
scRNA-seq data download
-SRA Toolkit
-scRNA-seq data download from public dataset (NCBI) |
Week 6 |
2023/03/28 |
scRNA-seq data analysis on example dataset
-Setup “Seurat” Object, Data preprocess, Data normalization. |
Week 7 |
2023/04/04 |
Holidays |
Week 8 |
2023/04/11 |
scRNA-seq data analysis on example dataset
- Feature selection, Data scaling, PCA |
Week 9 |
2023/04/18 |
scRNA-seq data analysis on example dataset
- Selection of data dimensionality, Cell clustering, UMAP/tSNE, Identify cluster biomarkers |
Week 10 |
2023/04/25 |
scRNA-seq data integration
-Introduction of scRNA-seq data integration
-Perform integration, identify conserved cell type markers and differential expressed genes across conditions, SCTransform |
Week 11 |
2023/05/02 |
Multimodal data analysis
-Introduction of CITE-seq
-Using Seurat with multimodal data (RNA+ADT)
-WNN on multimodal data (RNA+ADT) |
Week 12 |
2023/05/09 |
Mapping and annotating datasets
-Mapping and annotating query datasets
-Multimodal reference mapping |
Week 13 |
2023/05/16 |
Group 1 Project presentation:
Use their own datasets or public datasets to demonstrate their own project by the techniques learned from the class. Oral presentation (10 mins/person) and a written report are both needed for the final grade. |
Week 14 |
2023/05/23 |
Group 2 Project presentation:
Use their own datasets or public datasets to demonstrate their own project by the techniques learned from the class. Oral presentation (10 mins/person) and a written report are both needed for the final grade. |
Week 15 |
2023/05/30 |
Group 3 Project presentation:
Use their own datasets or public datasets to demonstrate their own project by the techniques learned from the class. Oral presentation (10 mins/person) and a written report are both needed for the final grade. |
Week 16 |
2023/06/06 |
Group 4 Project presentation:
Use their own datasets or public datasets to demonstrate their own project by the techniques learned from the class. Oral presentation (10 mins/person) and a written report are both needed for the final grade. |
Week 17 |
2023/06/13 |
Group 5 Project presentation:
Use their own datasets or public datasets to demonstrate their own project by the techniques learned from the class. Oral presentation (10 mins/person) and a written report are both needed for the final grade. |