Question: Combining arrays arrays from different tissues and different labs.
12.5 years ago by
marco zucchelli • 320
marco zucchelli • 320 wrote:
Hi, I would like to check for differential expression on arrays downloaded from public databases. I was reading somewhere that it might be not very wise to normalize together arrays produced from different tissues and different labs. In practice I would like to compare mouse embryos from one experiment with mouse adult tissues from another experiment. Does somebody have an opinion on this ? I tried to normalized the adult arrays and the embryo arrays separately, rescale them to the same median and then extract the expression values from all the arrays together (with li.wong method). I tried also to normalize and extract the expression values for all the arrays together with the same method. The results seem to be pretty similar. In this case the amplification protocols used are different since embryo material is very small.. Best regards Marco
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