Course Identification

The course does not require previous knowledge or programming skills.

This is a basic course for learning transcriptome analysis, consisting of seven sessions (three hours each), including six hands-on exercises.
The hands-on will allow the students to experience the approaches learned.
The course does not include command-line exercises, and does not require previous knowledge or programming skills. The grade will be an average of the grades of the six assignments.

1. Introduction to transcriptome analysis (RNA-Seq)
2. Experimental design
3. Strategies of library preparation, Illumina sequencing & Quality Control
4. Analyzing RNA-Seq at gene-level, detecting differentially expressed genes and MARS-Seq analysis
5. Clustering analysis of gene expression data
6. Functional analysis: Gene Ontology and pathways analysis
7. Analyzing RNA-Seq at transcript-level, introduction to long reads and analysis for non-model organisms.

Upon successful completion of the course students will be able to:

1. Demonstrate familiarity with the common applications of RNA sequencing.
2. Perform & discuss the basics steps of data analysis, using web tools.
3. Troubleshoot RNA-Seq results.
4. Extract the biological meaning of the results.
5. Basic UNIX skills