Molecular Vision: Suzuki, Mol Vis 2009; 15:2554-2569. Table 2

Table 2. Significant, sex-related differences in gene expression: Comparisons between CodeLink and Affymetrix arrays.

	Genes M>F	Genes F>M	Total genes
CodeLink
Number of genes with significant differences in expression	216	367	583
Number of genes with same results on Affymetrix	22	20	42
Number of genes changed in same direction on Affymetrix	82	133	215
Number of genes changed in opposite direction on Affymetrix	10	58	68
Number of genes with opposite results on Affymetrix	0	4	4
Number of unique genes, not expressed by Affymetrix	102	152	254
Affymetrix
Number of genes with significant differences in expression	307	118	425
Number of genes with same results on CodeLink	22	20	42
Number of genes changed in same direction on CodeLink	141	69	210
Number of genes changed in opposite direction on CodeLink	66	8	74
Number of genes with opposite results on CodeLink	4	0	4
Number of unique genes, not expressed by CodeLink	74	21	95

Data were analyzed without log transformation. The phrase “Number of genes with same (or opposite) results” means that the findings were significant (p<0.05) on both platforms. The term “Number of genes changed in same (or opposite) direction” means that results were significant on one platform, but not on the other. The phrase “same direction” was also used for a gene demonstrating significant up- or down-regulation on one platform and a corresponding, but not significant, alteration in at least one gene transcript on the other array (note: some genes had several transcripts). Genes labeled as “unique” were not expressed at above threshold levels on the other array platform.