I am trying to analyse data from qRT-PCR. My experimental design was the following: I have two groups of cells (A and B) and those were infected with a virus. What we want to know now is the fold change of B in comparison with A. I believe that a relative quantification using the normal methods are not possible since the reference and calibrator are not expressed normally in these cell (only upon virus infection). Would someone have any suggestion?
Thank you for your helping