Lecture 4: Result Validation at Tissue-level using TCGA Public Resource (02/25/2025)

↩︎️ Lecture Schedule

Lecture Description

The final class will consist of validating the results from scRNA-seq data analysis using TCGA gastric adenocarcinoma bulk dataset. The class will cover from accessing the TCGA public database directly from R to data exploration via UCSCXenaTools and normalization to correction of clinical covariates via survival and visualization using Kaplan-Meier survival curves. Moreover, performing TCGA data analysis (e.g. Differential Expression Analysis and Gene set variation analysis on tissue level) outside of RStudio and via the UCSC Xena Browser (Web tool) will be introduced in class as well.