Bulk Transcriptomics

Tutorials covering upstream alignment, preprocessing, differential expression, network analysis, deconvolution, and TCGA workflows.

• Upstream
  • Bulk RNA-seq mapping with STAR
  • Bulk RNA-seq mapping with kb-python
• Preprocessing
  • Batch correction in Bulk RNA-seq or microarray data
• Downstream
  • Different Expression Analysis
  • Different Expression Analysis with DEseq2
  • Bulk RNA-seq time-course analysis
  • Protein-Protein interaction (PPI) analysis by String-db
  • WGCNA (Weighted gene co-expression network analysis) analysis
• Deconvolution
  • Bulk deconvolution with reference scRNA-seq
• Others
  • TCGA database preprocess