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Microarray Analysis
Getting started with your own analysis on Microarray data:
You can analyze your microarray data with a variaty of open source or commericial software such as GenePattern, Cyber T and GeneSpring. GHTF provides data in standard format such as .CEL, .DAT and .CHP that can be imported to these software. Annotation files are also provided and can also be downloaded from Affymetrix website.
Integrated Bioinforamtics Tools available for MicroArray data analysis:
BDUC also provides UCI researcher with integrated tools for analysis and comprehension of biological data. R based Bioconductor and Matlab bioinforamtics toolbox that can do be used analyze both NGS and microarray data are available to all BDUC users. A commercial software specifically designed for biologists to easily analyze high throughput data, CLCbio Genomic Workbench, is also available on BDUC for GHTF users. See CLCbio manual for a detailed instruction on how to use CLCbio to analyze your NGS data and microarray data.