Comparison of the latest commercial short and long oligonucleotide microarray technologies

BMC Genomics

Table 1 Summary of discriminating targets

	Platform	Total	Q1	Q2	cQ	< cQ2
ANOVA	Affymetrix	1,696	68	140	972	36
	Agilent	1,781	69	325	998	34
	Amersham	1,727	130	414	998	33
t test (MCF7 vs Batt P12)	Affymetrix	1,340	54	128	740	36
	Agilent	1,398	48	235	744	23
	Amersham	1,290	79	287	755	24

"Total" refers to the number of discriminating targets out of the 3.4 K data set that were found for each platform based on an ANOVA test of the 3 cell lines or a t test comparing MCF7 and Batt P12 samples. "Q1" and "Q2" refer to lowest 2 intra-platform intensity quantiles. "cQ" (consensus quantile) refers to the number of discriminating targets attributed with similar expression levels across all 4 platforms. The last column refers to the number of discriminating targets with a cQ less than 2.

ISSN: 1471-2164