Hi Folks:

 

We have affy chips from human tissues (hgu133A chip) and tissues from a
mouse model (MOE403A chip).  The objective of this experiment is to
compare expression levels across species.  My primary question for the
group is, "What is the best strategy for normalizing the arrays?"
Should we use gc RMA to normalize the entire collection of arrays (human
and mouse) as a single set; or, should we apply gc RMA separately to
each set of chips?  What do you suggest?

 

Cheers,

 

John E. Cornell, Ph.D.

Associate Professor

Center for Epidemiology and Biostatistics


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