The Bioinformatics Core is familiar with all of these resources and we are happy to help investigators leverage them in their research.
The Bioinformatics Core is developing several tools to empower and encourage investigators to analyze their own data. The tools are developed so that no specific coding or bioinformatics experience is necessary. Here are some of our tools:
Access to these tools is free if the data is suitable. Contact us to discuss your data and to determine if it is already in the correct format.
Oncomine Research Edition is a powerful web application that integrates and unifies high-throughput cancer profiling data so that target expression across a large volume of cancer types, subtypes and experiments can be assessed online, in seconds.
The program offers an initial login for free. University of Colorado Cancer Center members should register and work with the free version until they become familiar with the program. When members are ready to finalize their analyses, they can contact Core manager Andrew Goodspeed and he will set them up with an upgraded login. Please logout every time you finish an analysis.
Members should understand that the University of Colorado Cancer Center only has two upgraded versions and that they are shared. All logins should be used and relinquished as quickly as possible.
A commercial pathway analysis tool that can be accessed by contacting the Genomics Shared Resource
We can also assist in gaining access to controlled use data (ex. dbGap) by helping with and being included on access applications.
Morpheus (Make heatmaps)
Gene set enrichment analysis (GSEA) (Pathway analysis)
DAVID (Pathway analysis)
Andrew Goodspeed, PhD
Core manager and Data Analyst
(303) 724 6582
James Costello, PhD
(303) 724 8619