[BioC] Expression on different Affy arrays

[donghu at itsa.ucsf.edu]

Hi,

I have a few MOE430A and MOE430 2.0 arrays.  As you know, MOE430A has
~22000 probe sets and MOE430 2.0 has ~46000 probe sets.  All MOE430A
probe sets are on MOE430 2.0.  Now I need to compare expression
measurement of same probe sets on these 2 types of array.  Is it possible 
to compute RMA measurement of these 2 array types?  If there is no
convenient way to do so, does it sound reasonable to use MAS 5.0 signal
intensity for such comparison as MAS 5.0 uses a target intensity for
normalization?  Thanks for any suggestions.

Regards,
Donglei Hu