Pathway Enrichment Analysis--IPA & MetaCore

Workshop Objective:

This is a 4-hour workshop. The morning session (10am - 12pm) provides a brief overview of bioinformatics concepts and software used for interpreting a gene list using pathway and network information. The afternoon session (1pm - 3pm) focuses on hands-on practice using 3 HSLS-licensed tools--Correlation Engine, Ingenuity Pathway Analysis (IPA), and MetaCore.

Participants will learn how to

  • retrieve a list of differentially expressed genes (DEG) associated with a gene expression study by searching GEO using Correlation Engine
  • uncover the biology hidden behind the extracted DEG list by searching protein-protein interactions and literature-curated gene/protein knowledgebases using IPA and MetaCore
  • identify the most statistically significant pathways (signaling/metabolic), Gene Ontology terms, regulatory networks, and causal relationships associated with a gene list

Target Audience:

Experimental biologists working with human, mouse, or rat tissues and seeking to interpret gene lists generated through omics experiments, such as gene expressions, protein interactions, and SNP arrays. The software covered in the workshop operates through a user-friendly, point-and-click graphical user Interface, so neither programming experience nor familiarity with command line interface is required.

Workshop Requirements:

Workshop Guide:

Suggested Reading:

Attribution:

Please include the following statement in the acknowledgments section for all publications, posters, and presentations: Data analysis was performed using {name of software} software licensed through the Molecular Biology Information Service of the Health Sciences Library System, University of Pittsburgh.

Class Type

Upcoming Classes

Pathway Enrichment Analysis--IPA & MetaCore

Event Details

Instructor: Ansuman Chattopadhyay, Srilakshmi Chaparala
Date:
Time: to
Location: Scaife Hall, Falk Library, Classroom 2
Register for this class

Pathway Enrichment Analysis--IPA & MetaCore

Instructor: Ansuman Chattopadhyay, Srilakshmi Chaparala
Date:
Time: to
Location: Scaife Hall, Falk Library, Classroom 2
Register for this class