Overview

Instructor(s): Dr. Wesley Brashear

Time: Tuesday, October 31, 2023 — 10:00AM-12:30PM CT

Location: online using Zoom

Prerequisite(s): Current ACCESS ID, basic Linux/Unix skills, and basic familiarity with NGS techniques/terminology

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

• ACES: RNA-seq and Differential Expression (Fall 2023) PDF

Previous Semester Materials

• ACES: RNA-seq and Differential Expression (Spring 2023) PDF
• RNA-seq and Differential Expression (Fall 2022): PDF
• RNA-seq and Differential Expression (Spring 2022): PDF
• RNA-seq and Differential Expression (Fall 2021): PDF
• Introduction to RNA-Seq (Spring 2020): PDF
• Introduction to RNA-Seq (Fall 2017): PDF

Agenda

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