Andy If you are using just two colors FL1 and FL2 you can set up the instrument as if it were a three color experiment, compensate so that the PE does not bleed into the FL3 channel. You can then gate out the FL3 positive stuff, your non autofluorescence "tail" will disappear from FL1 and FL2 leaving the specific fluorochrome dependant staining unaffected. If you think the autofluorescent cells are your cells of interest then ignore this advice. Simon Monard Trudeau Institute Algonquin Avenue Saranac Lake NY12983 518 891 3080 X162
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