Session 1: Functional interpretation of gene sets

Teachers: Jacques van Helden and Olivier Sand

Présentation

Concepts:

• functional annotations,
• Gene Ontology,
• pathways (metabolic, signaling),
• biomolecular networks (protein-protein, co-expression, molecular complexes, metabolic reactions)

Resources:

• databases containing these data types.
• g:Profiler (Web site + R library)
• metabolic mapping tools (KEGG pathway coloring).

Enrichment tests:

• goals,
• principles and approaches: enrichment, GSEA, …
• statistics (seen in the course Stat with R),
• good practices (choice of an appropriate background, multiple testing correction),
• interpretation of the results)

Application:

• Annotation of groups of genes produced by the other courses (e.g. differentially expressed genes from RNA-seq, disease-associated genes, …)