Dear Bioconductor,

I have a question about how to derive the gene centric values for the probe
set:

When reading the paper I saw this description:

"From the methods (Microarray Experiments):

“Probes on all three platforms were aligned to a transcript database
consisting of RefSeq (36.1) and complete coding sequences from GenBank
(v.161). Gene centric expression values were generated for every gene with
at least five perfect-match probes (Affymetrix).”



Practically speaking, we use a CDF which combined the probes as described
above, in combination with the aroma.affymetrix R library. Similar CDFs can
be obtained from the AffyProbeMiner website."


Does anyone has an example of the aroma.affymatrix code or could tell me
which command to use to implement this?


Thanks a lot.


best,

xiaowei

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