Syllabus
• Central dogma of molecular biology, structure of gene, types of RNA, structure of RNA, transcription, reverse transcription, FACS
• RNA-seq: alignment, quantification, QC, normalization, basic analysis
• Overall quality control: PCA, clustering, outlier detection
• Overall quality control: batch correction
• Differential expression (DE), Deseq2 for RNA-seq
• Downstream analysis: pathway/gene set enrichment analysis
• Transcriptome assembly, functional annotation
• Single-cell transcriptomics: Seurat basic analysis
• Single-cell transcriptomics: Trajectory analysis, RNA velocity, optimal transport
• Spatial transcriptomics
• Visual data exploration: phantasus, JBR genome browser
• Experimental design of gene expression study