RNA sequencing (RNA-seq) is a widely used method in genomics, which enables the interrogation of whole cellular transcriptomes. The CCR Collaborative Bioinformatics Resource (CCBR) has implemented a RNA-seq workflow on the NIDAP collaboration platform, which is available and free to use for all NIH researchers. The platform allows users to explore and build their analyses in a graphical environment. For researchers who are conversant in code, or who are interested in learning, all of the workflow code is easily viewable and modifiable, as well.
This course will consist of two parts, taught in two separate sessions. The first session will consist of a lecture on the theory behind RNA-seq and many of the methodologies we use in the analysis. The second session will be devoted to a workshop in which trainees will be guided through a basic analysis of a real RNA-seq dataset. Topics you will learn about include filtering and QC, PCA, expression heatmaps, differential expression of genes analysis, volcano plots, and pathway/gene set analysis. After training, trainees will be ready to upload their own data to the platform and begin their own analyses.
This is Part 1 of a 2-part course. Please make sure you take Part 2 after taking Part 1.
Please note: Trainees will need their own NIH user name and password, and an NIH computer capable of connecting to the secure NIH network using VPN.