Informatics for RNA-sequence Analysis (2013) New

Course Objectives

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High-throughput sequencing of RNA libraries (RNA-seq) has become increasingly common and largely supplanted gene microarrays for transcriptome profiling. When processed appropriately, RNA-seq data has the potential to provide a considerably more detailed view of the transcriptome. The CBW has developed a 2-day course providing an introduction to RNA-seq data analysis followed by integrated tutorials demonstrating the use of popular RNA-seq analysis packages. The tutorials are designed as self contained units that include example data (Illumina paired-end RNA-seq data) and detailed instructions for installation of all required bioinformatics tools (TopHat, Cufflinks, etc.).

Participants will gain practical experience and skills to be able to:

  • Align RNA-seq data to a reference genome
  • Estimate known gene and transcript expression
  • Perform differential expression analysis
  • Detect expressed gene fusions
  • Discover novel isoforms
  • Visualize and summarize the output of RNA-seq analyses

Course Material

Open Access LogoCanadian Bioinformatics Workshops promotes open access. Past workshop content is available under a Creative Commons License.

Module 1 - Introduction to RNA sequencing (2013) (Faculty: Malachi Griffith, Faculty: Obi Griffith)

application/pdf iconPDF (4MB) | application/vnd.ms-powerpoint iconPPT (3MB) | video/mp4 iconMP4 (329MB)

Module 2 - RNA-seq alignment and visualization (2013) (Faculty: Malachi Griffith)

application/pdf iconPDF (2MB) | video/mp4 iconMP4 (257MB)

Module 3 - Expression and Differential Expression (2013) (Faculty: Obi Griffith)

application/pdf iconPDF (2MB) | video/mp4 iconMP4 (338MB)

Module 4 - Isoform discovery and alternative expression (2013) (Faculty: Malachi Griffith)

application/pdf iconPDF (1MB) | video/mp4 iconMP4 (70MB)

Module 5 - Gene fusion discovery (2013) (Faculty: Obi Griffith)

application/pdf iconPDF (2MB) | video/mp4 iconMP4 (229MB)