RNA-seq and Differential Expression


Instructor: Wesley Brashear

Time: Wednesday, April 1, 10:00AM-12:30PM

Location: Blocker 220

Prerequisites: HPRC account

This short course covers concepts of RNA-seq data analysis for differential expression, including Quality Control, reference-based read alignment, utilization of DESeq2, and data visualization in R.

Course Materials

  • RNA-seq and Differential Expression (Spring 2022): PDF

Previous Semester Materials

  • RNA-seq and Differential Expression (Fall 2021): PDF
  • Introduction to RNA-Seq (Spring 2020): PDF
  • Introduction to RNA-Seq (Fall 2017): PDF


This course focuses, among others, on the following topics:

  • Generating RNA-seq libraries
  • Experimental design
  • Transcriptome assembly overview
  • Quality Control/Library trimming
  • Aligning RNA-seq libraries to a reference genome
  • Generating count files
  • Differential expression in R
  • Small RNA analysis