I have a cell type that when it expressed the gene GATA3 they will fluoresce red. I have ran FACS and saw I had very good and clear positive and negative populations. When I ran qPCR looking at the gene expression of the GATA3 gene I see very low expression like 4 fold difference. why would this be? I have repeated the qPCR steps and changed primers but its the same low expression. Does anyone have any suggestions?