Bioinformatics Workshops: Part 2 - Explore DESeq2 Results function and data visualization functions in R/RStudio

RNA-Seq is a high-throughput sequencing method used for unbiased detection and quantification of messenger RNA molecules, allowing the identification of genes and pathways underlying normal and pathological conditions. RNA-seq sequencing services are increasingly affordable which has led to the proliferation of published data available in public repositories accessible for everyone’s use and reanalysis. Therefore, the knowledge on how to analyze this type of data is becoming an increasingly valuable skill.

Join us and learn how to perform basic differential gene expression analysis of bulk RNA-seq data from the repository GREIN - GEO RNA-seq Experiments Interactive Navigator. We will use RStudio, a free and open-source software that provides a friendly environment to run R packages such as “DESEq2”, which is one of the methods used to analyze bulk RNA-seq data and find differentially expressed (DEX) genes.

This workshop is designed for:

biomedical researchers with none to minimal knowledge of command language or R programming. Limited to 25 seats.

You will learn how to:

• Manipulate results function – results() – in RStudio
• Perform basic data visualization (e.g. PCA plot, MA plot)
• Save processed data files into your computer (e.g. normalized counts, DEX genes table)

Requirements:

• Bring a laptop with R and RStudio installed and running.
• If you didn’t attend Part1 of this class, we will provide the appropriate files