週次 |
日期 |
單元主題 |
第1週 |
2/20 |
[NGS+BI+GM] Course Overview (PL Chen)
[GenomMed/NGS] Genetics and Genomics in Medicine; Introduction to the Human Genome (Chapters 1, 2) (Tools in Molecular Biology and Human Diseases: The Classic, video for you) (PL Chen)
[Bioinfo] Introduction to Bioinformatics (CY Chen)
[Bioinfo] Introduction to Linux & NCHC platform; Human Genome(s) I (SJ Hsu) |
第2週 |
2/27 |
[GenomMed] The Human Genome; Human Genetic Diversity (Chapters 3, 4) Clinical Cytogenetics; Chromosomal and Genomic Basis of Disease (Chapters 5, 6) (PL Chen)
[NGS] Sequencing: the 1st-generation; and the Overview and History of the NGS Technologies (PL Chen)
[GenomMed/Bioinfo] Human Genome(s) II (HW1 NGS QC, Read Trimming) (SJ Hsu) |
第3週 |
3/5 |
[NGS] Must-know NGS Platforms: Illumina, PacBio, Nanopore and More (PL Chen)
[NGS/Bioinfo] Sequence Alignment (BLAST) (CY Chen)
[NGS/Bioinfo] Multiple Sequence Alignment (HW2 Sequence Alignment - BLAST) (CY Chen) |
第4週 |
3/12 |
[GenomMed] Single-Gene Inheritance (Chapters 7) (PL Chen)
[NGS/Bioinfo] Read Mapping Algorithms (CY Chen)
[NGS/Bioinfo] SAM/BAM/CRAM, GATK Best Practices (SJ Hsu) |
第5週 |
3/19 |
[GenomMed] Clinical Epigenetics; Complex Inheritance (Chapters 8, 9) (PL Chen)
[Bioinfo/NGS] Variant Calling/VCF format, variant QC and sample QC (SJ Hsu)
[Bioinfo] Genotyping and GWAS and PRS (CY Chen) |
第6週 |
3/26 |
[GenomMed] Population Genetics for Genomic Medicine (Chapter 10) (PL Chen)
[GenomMed] Identifying the Genetic Basis for Human Disease (Chapter 11) (PL Chen)
[Bioinfo/NGS] Variant Filtering (SJ Hsu) (HW3 Germline SNV & InDel Discovery) |
第7週 |
4/2 |
[GenomMed] Genetic, Molecular, Biochemical and Cellular Basis of Diseases (Chapters 12, 13) (PL Chen)
[GenomMed] Treatment of Genetic Diseases; Developmental Genetics (Chapters 14, 15) (PL Chen)
[Bioinfo] Variant Annotation (SJ Hsu) |
第8週 |
4/9 |
[GenomMed/NGS] RNA-seq (Wet-lab Perspective) (PL Chen)
[Bioinfo] Gene Expression Quantification (CY Chen)
[Bioinfo] DEG (differential analysis) + GSEA (Gene Set Enrichment Analysis) (HW4 RNA-seq) (CY Chen) |
第9週 |
4/16 |
Midterm |
第10週 |
4/23 |
[GenomMed/NGS] Medical Sequencing (Targeted Panel, WES, WGS) (PL Chen)
[Bioinfo] Functional Annotation (SJ Hsu)
[NGS] Biomarkers for Cancer Treatment (SJ Hsu) |
第11週 |
4/30 |
[Bioinfo] Sequence Effect Predictors (SJ Hsu)
[NGS] NGS Library Preparation; Metagenomics (HY Li) (Invited Speaker)
[GenomMed/NGS] Phasing/Haplotyping/Pseudogenes/ME/SV/Immunogenomics (PL Chen) |
第12週 |
5/7 |
[GenomMed] Cancer Genetics and Genomics (Chapter 16) (PL Chen)
[GenomMed] Genetic Counseling and Prenatal Diagnosis (Chapters 17, 18) (PL Chen)
[NGS] Epigenetics (HC Tsai) (Invited Speaker) |
第13週 |
5/14 |
Final Project Proposal |
第14週 |
5/21 |
[GenomMed] Pharmaco-genomics & Precision Genomic Medicine; Ethical and Social Issues in Genomic Medicine (Chapters 19, 20) (PL Chen)
[Bioinfo] ChIP-seq data analysis (CY Chen)
[Bioinfo] Protein Structure Prediction (CY Chen) |
第15週 |
5/28 |
[NGS] What a Wonderful World! (Novel platforms/ChIP-seq/ATAC-seq/Hi-C/sc/spatial/Immunogenomics) (PL Chen)
[Bioinfo] Biobanks & Data Sharing (SJ Hsu)
[Bioinfo] Single-cell sequencing data analysis (CY Chen) |
第16週 |
6/4 |
Final Exam (No Exam) |
第17週 |
6/11 |
Final Project Presentation |