I am experiencing wide variation in between the concentration reads from Nanodrop and Qubit Fluorometer for the same samples. The reads are mostly higher from Nanodrop which is sometimes in excess of >100 ng/ul. Few of the reads are higher in Qubit, but then the difference is not much. Nanodrop 260/280 ratios averages around 1.9. I am using Zymogen Quick DNA Miniprep kit to extract DNA out of PBMC of cows. Has anyone experienced such variations? Any idea what i might be doing wrong? Thanks in advance.
Nanodrop measurements are not specific to double stranded DNA. Partial degeneration of DNA in your samples can lead to presence of single stranded fragments. If you use Qubit kit specific to dsDNA, there will be difference. To check integrity of your DNA run it on electrophoresis and compare what you see with measurements.
Thank you very much for the explanations. That makes much sense now.
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