UNIL BSc course: Bioinformatics for Genomics 2023

This course is for third year B.Sc. students and part of the "Genes and Genome evolution" (GGE) module.

• Course aims:
  • Get to know some key bioinformatics methods necessary for genomic analysis
  • Apply these methods within a few selected cases, focusing on data-visualisation typically trying to reproduce selected figures that where discussed in other GGE courses
  • Develop an understanding of potential pitfalls and the impact of bioinformatics choices in genomic results

• Prerequisites:
  • Notions of genomics (gene, genome, transcriptome)
  • Basic statistics (what is a test, a p-value)
  • Basic literacy in R and/or Python.

• Teacher: Sven Bergmann

• Assistants
  • Olga
  • Michael
  • Anneke
  • Daniel
  • Sofia

• Schedule
  • 29 March 2023: "Measuring and visualising genome-wide gene expression"
    • 8:15-10:00 Lecture (Sven)
    • 10:15-12:00 Tutorial (Lead: Olga, Support: Michael, Sven)
  • 5 April 2023: "Advanced analysis of genome-wide gene expression"
    • 8:15-10:00 Lecture (Sven)
    • 10:15-12:00 Tutorial (Lead: Michael, Support: Olga, Sven)
  • 19 April 2023: "Measuring and visualising genome-wide epigenetic profiles"
    • 8:15-10:00 Lecture (Sven)
    • 10:15-12:00 Tutorial (Lead: Anneke, Support: Daniel, Sven)
  • 26 April 2023: "Measuring and visualising genome-wide chromatin contacts"
    • 8:15-10:00 Lecture (Sven)
    • 10:15-12:00 Tutorial (Lead: Daniel, Support: Sofia, Sven)
  • 27 April 2023: "Defining and visualising gene networks"
    • 14:15-16:00 Lecture (Sven)
    • 16:15-18:00 Tutorial (Lead: Sofia, Support: Anneke, Sven)

We will hand out simple bioinformatics exercises based on the tutorials. Students should work on these exercise until April 14 on which day we will do a 4h "Flipped classroom" where they can discuss these exercise with tutors.

• Lecture presentations:
  • TBA

• Exercise material:
  • TBA