Date: 17 - 19 June 2024

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High-throughput sequencing of RNA libraries (RNA-seq) has become increasingly common and has become the industry standard for transcriptome profiling. When processed appropriately, RNA-seq data has the potential to provide an exceptionally richview of the transcriptome. The CBW has developed a 3-day course providing an introduction to bulk 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 (HISAT, StringTie, Kallisto, etc.).

City: Toronto

Region: Ontario

Country: Canada


Basic familiarity with Linux environment and S, R, or Matlab. You will also require your own laptop computer. Minimum requirements: 1024×768 screen resolution, 1.5GHz CPU, 2GB RAM, 10GB free disk space, recent versions of Windows, Mac OS X or Linux (Most computers purchased in the past 3-4 years likely meet these requirements). This workshop requires participants to complete pre-workshop tasks and readings.

Learning objectives:

Participants will gain practical experience and skills to be able to: Perform command-line Linux based analysis on the cloud (Amazon AWS) Perform basic bioinformatics tasks such as tool installation Understand reference genome and transcriptome annotations Assess quality of RNA-seq data and perform read trimming Align RNA-seq data to a reference genome Visualize RNA-seq alignments, splicing patterns and sequence variants Estimate known gene and transcript expression using multiple approaches Perform differential expression analysis Visualize and summarize the output of RNA-seq analyses in R Perform principal component analysis (PCA) and batch correction Perform pathway analysis Perform alignment free expression estimation and DE analysis

Capacity: 30

Event types:

  • Workshops and courses

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