I have extracted genomic DNA from 2 tissues. 1 wild type and 1 KO. I havd designed primers that should amplify a region in between the two loxp sites. I want to validate the effectiveness of the cre loxp system in KO the targ gene in my tissue samples. So, I performed a qPCR on my WT and KO genomic DNA samples.
Can I use relative quantification methods (delta delta Ct or pfaffl method) to quantify the results? Or genomic DNA qPCR should only be absolutely quantified?