Pathway and Network Analysis of -omics Data
Course Objectives
The CBW has developed a 2.5-day course covering the bioinformatics concepts and tools available for interpreting a gene list using pathway and network information. The workshop focuses on the principles and concepts required for analyzing and conducting pathway and network analysis on a gene list from any organism, although focus will be on human and model eukaryotic organisms.
Specifically, we will focus on:
- getting more information about a gene list;
- discovering what pathways are enriched in a gene list (and using it for hypothesis generation);
- finding out how a set of genes is connected by e.g. protein interactions and identifying pathways, systems and modules within this network;
- predicting gene function and extending a gene list;
- identifying master regulators, such as transcription factors, active in the experiment.
We will develop a unified analysis flow chart throughout the course that students will be able to follow after the workshop to conduct their own analysis.
Course Material
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Introduction to Pathway and Network Analysis
Instructor(s): Gary Bader
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Module 2 - Finding Over-represented Pathways in Gene Lists
Instructor(s): Quaid Morris, Veronique Voisin
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Module 3 - Network Visualization and Analysis with Cytoscape
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Module 4 - More depth on Pathway and Network Analysis
Instructor(s): Lincoln Stein, Robin Haw
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Module 5 - Gene Function Prediction
Instructor(s): Quaid Morris, Veronique Voisin
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Module 6 - Regulatory Network Analysis
Instructor(s): Michael Hoffman, Veronique Voisin