TABLE 2.

Prechip Quality Assessed for Isolated RNA Before cDNA Synthesis and IVT Labeling Reactions (A₂₆₀:A₂₈₀, 28S:18S rRNA Ratios, and RIN) and Postchip Quality Assessed After GeneChip Hybridization (%PC and 3′:5′ Ratios for GAPDH and β-actin) for the 12 Paired GeneChips

	Prechip Quality						Postchip Quality
	VCU			NCI			VCU			NCI
	A260:A280	28S:18S	RIN	A260:A280	28S:18S	RIN	% Present	3′:5′ Ratio, GAPDH	3′:5′ Ratio, β-actin	% Present	3′:5′ Ratio, GAPDH	3′:5′ Ratio, β-actin
1	2.03	1.9	9.1	2.09	1.6	9.1	48.8	1.69	3.16	55.1	1.29	1.95
2	2	1.6	9.8	1.9	1.3	9.8	43.4	1.48	2.90	40.3	6.03	34.04
3	1.89	1.7	8.9	2.07	1.3	8.9	51.5	1.34	3.74	49.1	1.23	2.48
4	2.05	2	8.6	2.09	1.8	8.1	44.9	1.75	4.34	41.0	1.66	3.54
5	2.1	1.8	9.2	2.07	1.4	9.2	45.0	1.87	4.41	43.1	1.52	2.66
6	2.04	1.8	9.3	2.07	1.7	9.3	43.2	1.74	3.74	49.7	1.21	2.18
7	1.91	1.6	9.4	2.12	1.6	9.4	44.9	1.71	4.02	49.4	1.17	1.95
8	2.04	1.8	9.2	1.99	1.4	9.2	50.1	1.54	3.12	51.6	1.39	2.32
9	2	1.8	8.9	1.82	1.2	8.8	47.5	1.51	2.38	38.5	1.55	3.49
10	2.06	1.6	9.2	2.09	1.6	9.2	24.0	1.19	4.89	38.7	2.09	6.77
11	2	1.7	8.7	2.07	1.2	8.6	24.2	0.91	2.44	52.8	1.01	1.47
12	1.89	1.9	9.3	2.09	1.3	9.2	50.0	1.37	1.97	55.0	1.24	2.33

GAPDH indicates glyceraldehyde-3-phosphate dehydrogenase; IVT, in vitro transcription.