2 Overview
2.1 Functional Analysis of -Omics Data
2.1.1 General Information
The workshop covers the bioinformatics concepts and tools 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 analyses 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;
- Gain systems perspective of gene functions;
- Obtain more information about a gene list;
- Discover which pathways are enriched in a gene list (and use this information for hypothesis generation);
- Predict gene function and extend a gene list;
- Follow the workflow after the workshop to conduct their own analyses.
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
The workshop will be held in person. Participants are encouraged to bring a laptop; however, no software installation is necessary.
Workshop materials and relevant links can be found on the Resources page.
BYO coffee :)
2.1.5 Schedule - Day 1
| Instructor | Activity | Time (mins) | Start | End |
|---|---|---|---|---|
| LP | Welcome and housekeeping | 10 | 09:00 AM | 09:10 AM |
| HK | Introduction to functional enrichment analysis | 35 | 09:10 AM | 09:45 AM |
| HK | Data acquisition & filtering gene list | 10 | 09:45 AM | 09:55 AM |
| HK | Interactive Calculator | 15 | 09:55 AM | 10:10 AM |
| Morning break | 10 | 10:10 AM | 10:20 AM | |
| HK | gProfiler | 40 | 10:20 AM | 11:00 AM |
| GI | STRING | 40 | 11:00 AM | 11:40 AM |
| Lunch break | 45 | 11:40 AM | 12:25 PM | |
| GI | GSEA | 60 | 12:25 PM | 01:25 PM |
| SA | Reactome | 60 | 01:25 PM | 02:25 PM |
| Software installation & preparation for Day 2 | 35 | 02:25 PM | 03:00 PM |