Validation and implementation of a method for microarray gene expression profiling of minor B-cell subpopulations in man

Table 1 Amount of starting material and percent present calls on Exon arrays

Protocol	Sample	Starting amount	Amount of aRNA/cDNA after processing	Present call
Ambion	KMM-1	100 ng	44.9 μg	61%
	SU-DHL-5	100 ng	29.1 μg	57%
	U2932_M	100 ng	40.8 μg	64%
	OPM-2	100 ng	35.8 μg	61%
	Negative control	0 ng	5.2 μg
NuGEN	KMM-1	1 ng	7.2 μg	51%
	SU-DHL-5	1 ng	7.1 μg	46%
	U2932_M	1 ng	6.9 μg	51%
	OPM-2	1 ng	7.6 μg	50%
	Negative control	0 ng	0.8 μg

Total RNA from the same four CCLs was either processed with the Ambion or NuGEN protocol. The input amount for the NuGEN protocol was reduced by 100 times and the amount present calls were calculated with the PLIER algorithm in Expression Console (Affymetrix). Negative control is amplification without total RNA.

ISSN: 1471-2172