I've done a microarray to have a look at the effects of a siRNA-mediated knockdown of my gene of interest. I have checked the expression of some of the deregulated genes with qPCR.
I've seen that some people compare the expression level determined by Microarray and qPCR. However, I do not understand how they calculate the fold change of gene expression for those genes which are covered by several probes on the array. For example, one genes is covered by 5 different probes and therefore you also have 5 different logFC values.
So, how do you calculate the fold change of gene expression from microarray data?
Edited by Taranaki, 13 July 2011 - 05:59 AM.