Originally posted by Timer123
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I would say the reaction failed completely and what you see still in the well is gDNA. I would first try SS2 on some good quality RNA (10 pg, 100 pg, 1 ng or higher), to eliminate issues with cell-to-cell variability and cell quality. Moreover, sorting 500-1000 cells in 0.2% Triton might lead to incomplete lysis. I would always use the Bioanalyzer/Tapestation to check the cDNA quality as the agarose gel is not sensitive enough. If you need some more help, just let me know!
Best,
Simone
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