[BioC] Comparing microarray data from different platforms

[Ahmet Sinan Yavuz]

Hello,

We have 2 datasets, one from Illumina HumanHT-12 v4, and the other one is from Affymetrix Human Genome U133 Plus 2.0 Array. We would like to perform a differential gene expression analysis. What would you suggest in quality control, background correction and normalization steps in order to perform such analysis?

Thank you very much!

Ahmet Sinan Yavuz