[BioC] comparing different batches of data directly

[Sabine Reichelt]

Hi!

What would be the most appropriate approach if I want to compare gene expression data from different laboratories (and different biological sources) directly? Assuming the data were profiled on the same chip, of course.
What kind of normalization (in batches? all together?) and subsequent processing would be "least harmful"?

Thanks for any answers!
Sabine
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