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Quantifying DNA (test)

Sunday, March 15, 2026

Experiment Gallery

Shining the blue LED into the tube - it is glued into a spare tube lid
Shining the blue LED into the tube - it is glued into a spare tube lid
Captured spectra (wavelength is mislabeled - just pixel value, didn't calibrate). Orange film blocks the blue light.
Captured spectra (wavelength is mislabeled - just pixel value, didn't calibrate). Orange film blocks the blue light.
Experiment photo

Daily Notes

Shining a blue LED into 100uL of
- SeeGreen DNA stain (2ul in 20ml)
- with 1uL of soln of interest

Seems like uL (blank), w (water), 2 (an old agro miniprep attempt) have very little. spB is an aeBlue mini-prep test, s3 was my final pB practice run, and uR is my RubyGreen mini-prep that actually matters. s1 is 10ng/uL (too weak to see) and s500 is 500ng/uL approx (maybe some tube losses, could be 300 for all I know) of pBLY. Not at all calibrated, SNR is terrible, but I sliced it a few different ways and re-tested and uR always shows the biggest peak, don't think it's too far-fetched to say 30-70ug of DNA in the 100uL elution I managed to get! (in the mini-prep I used a big loopful of cells, filtered the stuff then ran 2 ~800uL portions of the filtrate through the column to maximise my chances, and eluted with 70uL then an extra 30uL (letting the latter sit a minute) to eek out as much as possible.

Edit: re-ran more carefully, est DNA conc 687 ng/µL (90% CI: 507–845), code here: https://gist.github.com/johnowhitaker/3aa41553b027c29d307766fcc06a79cf