I just have a quick question/confusion.
I have performed DEseq analysis of some RNAseq data and found genes to be quite nicely deferentially regulated.
Another fellow in the lab has performed the qrt-PCR and we have found our data to be quite similar. I am curious about the 2-DeltaDelta Ct normalization. I see that our fold change from qRt-PCR match our Log2Fold change data from Deseq and am curious as to what point in the qrt-PCR has the log2 Transformation as I cannot see it directly. I am assuming the 2** step is most likely the case but this has me confused as I would expect the 2** step would take the data from a log2 and hence should make the comparisons to the Fold change in the DEseq data not the Log2 Fold Change.
Any help would be appreciated.