I stably transfected my cell with plasmid containing 3FLAG-my insert- IRES-GFP. The cells were first selected by puromycine and because I could not detect well the GFP sign under microscope, I did the FACS to sort the GFP positive cells. After FACS sorting the GFP positive cells, I grow my cells on medium containing puromycine, but when I rechecked my cells again 1 week after by the FACS machine, almost all the cells showed negative GFP.
What is the problem and how I can improve to get more GFP positive cells?