2 Overview
2.1 Functional analysis of -Omics data
2.1.1 General information
The workshop covers the bioinformatics concepts and tools available for interpreting a gene list using gene ontology and pathway information. The workshop focuses on the principles and concepts required for analysing and conducting functional and pathway analysis on a gene list from any organism, although the focus will be on human and model eukaryotic organisms.
2.1.2 Course Objectives
Participants will gain practical experience and skills to be able to:
- Understand basic concepts of functional enrichment analysis;
- Interpret enrichment analysis results;
- Get systems perspective of gene functions;
- Get more information about a gene list;
- Discover what pathways are enriched in a gene list (and use it for hypothesis generation);
- Predict gene function and extend a gene list;
- Follow workflow after the workshop to conduct their own analysis.
2.1.3 Target Audience
This workshop is intended for biologists working with ‘-Omics data’ (e.g. RNA-Seq, protein expression), who are interested in interpreting large gene/protein lists resulting from their experiments.
2.1.4 Setup Requirements
This workshop will be delivered in-person. It is recommended to install the GSEA and Cytoscape software.
Links and material are provided on resources page.
BYO coffee :)
2.1.5 Schedule
| Instructor | Activity | Time (mins) | Start | End |
|---|---|---|---|---|
| LP | Welcome and housekeeping | 10 | 10:00 AM | 10:10 AM |
| HK | Introduction to functional enrichment analysis | 30 | 10:10 AM | 10:40 AM |
| HK | Data acquisition & filtering gene list | 15 | 10:40 AM | 10:55 AM |
| HK | Interactive Calculator | 15 | 10:55 AM | 11:10 AM |
| Morning break | 10 | 11:10 AM | 11:20 AM | |
| HK | gProfiler | 40 | 11:20 AM | 12:00 PM |
| GI | STRING | 40 | 12:00 PM | 12:40 PM |
| Lunch break | 20 | 12:40 PM | 01:00 PM | |
| GI | GSEA | 60 | 01:00 PM | 02:00 PM |
| SA | Reactome | 60 | 02:00 PM | 03:00 PM |