W5a: RNA-seq I Analysis – Measuring gene expressions from RNA-seq data

RNA-seq I aims to provide an introduction and the basics tools to process raw RNA-seq data on a cluster machine (Hoffman2). The workshop can serve also as a starting point to develop a gene expression project. This workshop is divided in three days that will cover major steps of processing RNA-seq.

To facilitate learning, the workshop will be centered on hands-on tutorial that will guide students in processing the data from raw reads through read counts using a real case study based approach appropriate for Illumina read data.

From reads to gene expression (raw data processing):

• Concept of RNA-Seq and experimental design
• Quality control of RNA-Seq data
• Mapping RNA-Seq reads to genome
• Visualization of alignments in genome browsers
• Quantification of gene expression (gene counts)