Development and application of a microarray meter tool to optimize microarray experiments

BMC Research Notes

Table 1 Analysis of the microarray meter targets.

Control	OD DNA A260	OD dye A650/550	DNA ng/ul	DNA pmol/ul	DYE pmol/ul	Cy/DNA	U/DNA	% labeling efficiency
*ybbR*	0.294	0.322	9.692	0.048	1.288	26.76	50.00	53.53
*ybaQ*	0.221	0.162	7.277	0.037	0.648	17.73	65.25	27.18
*ycxA*	0.202	0.220	6.664	0.033	0.878	26.36	64.25	41.03
*ybaS*	0.219	0.223	7.213	0.038	0.891	23.44	69.00	33.97
*ybaF*	0.270	0.240	8.910	0.048	0.960	20.01	59.25	33.78
*ybdO*	0.189	0.201	6.223	0.039	0.806	20.92	38.00	55.05
*ybaC*	0.405	0.396	13.365	0.073	1.584	21.72	57.50	37.78
*yacK*	0.293	0.293	9.653	0.055	1.170	21.18	50.00	42.36
SUA	0.168	0.023	5.440	0.214	1.120	5.22	8.25	63.27

The OD DNA and OD DYE fields list optical density data derived from the spectrophotometer for each target.
Mass concentration (ng/ul), DNA molar concentration (pmol/ul), cyanine dye (DYE) molar concentrations (pmol/ul),
Cy/DNA (ratio of the molecular dye and DNA concentration per target), U/DNA (expected amount of labeled uracil per DNA molecule), percentage labeling efficiency (ratio of expected versus measured labeled uridines per DNA molecule) were determined as outlined in the text.

ISSN: 1756-0500