Through both lectures and hands-on case studies, this course will provide an overview of techniques for gathering molecular interaction and pathway information for both single genes and sets of genes. We will focus mainly on iHOP (Information Hyperlinked Over Proteins) and the Ingenuity Pathway Analysis tool, though we will also touch upon other tools such as GoMiner and GenMapp. Participants will come away from the course with a better understanding of the strengths and weaknesses of these tools and how to best apply them in their own research.

Day 1 Lecture
1. Introduction
   a. Pathway Definitions
   b. Pathway Types and Sources
   c. Common types of pathway analyses
2. PubMed
3. Bibliosphere
4. iHOP

Day 1 Workshop: iHOP
1. What are the inputs to iHOP?
2. How do I get the results I want?
3. What do I do with those results?

Day 2 Lecture
1. GoMiner
2. Ingenuity
3. GenMapp
4. Other tools

Day 2 Workshop: Ingenuity Pathway Analysis tool
1. What are the inputs to Ingenuity?
2. How do I get the results I want?
3. How does Ingenuity generate these results?
4. What do I do with those results?