GeneTraffic

GeneTraffic software from Iobion Informatics (now Stratagene) performs two-color and Affymetrix microarray data management and analysis. Through Internet Explorer on a desktop PC, you can access your data and projects from any location. To access GeneTraffic, please contact: Microarray Core admin to create an account for you.

GeneSpring Software

The Core has GeneSpring software installed on two Windows XP workstaions. Users can import the Affymetrix or Spotted array (GenePix) data to GeneSpring to perform data visualization, validation, normalization, analysis, and classification.

Illumina BeadStudio Software

This is the software to pre-process, visualize and analyze the Illumina gene expression data.
The Core uses the BeadStudio to analyze your data. If you want to use this software to analyze by yourself, we provide a 2-hour training session teaching you how to use it.

Ingenuity Pathway Aanalysis

Ingenuity Pathways Analysis is a web-based software application that enables biologists and bioinformaticians to identify the biological mechanisms, pathways and functions most relevant to their experimental datasets or genes of interest.

Analyze your data to understand mechanism and function:
    - Analyze your microarray and proteomics data in the context of pathways
    - Compare changes in biological states across time and dosages

R/Bioconductor Software

Bioconductor is an open source and open development software project for the analysis and comprehension of genomic data.

If you want the Core to use the Bioconductor to analyze your data, please contact the Core administrator.

Other Aanalsysis Tools

• Affymetrix GCOS
• Qiagen Operon Microarray Oligo Database
• GO Query
• GeneFinder