I found a collection of cancerous samples from Affymetrix Human Genome U133 Plus 2.0 Array (
GSE2109) and some normal samples of Affymetrix Human Exon 1.0 ST Array (
GSE19163) . does it make sense if I normalize these CEL files together because I am going to perform t-test between normal and cancerous samples while they from different platforms.
thank you for any comments