Table 3.

Partition 2 gene expression validation by qRT-PCR in the original and in the “test” set

Gene name (accession no.)Arrays (Muc-nMuc)qRT-PCR original data set (Muc-nMuc)qRT-PCR test set (Muc-nMuc)ρ
CYP2S1 (NM_030622)2.93354 (P = 0.006038)3.102301879 (P = 0.006447)1.480718333 (P = 0.2131)0.7029887 (P = 2.68e−10)
CYP4F12 (AK091995)2.2993218 (P = 0.04075)3.687911810 (P = 0.01114)2.046051111 (P = 0.08361)0.5599081 (P = 0.0003233)
MGST2 (NM_002413)0.7332621 (P = 0.01469)1.002780741 (P = 0.01973)0.161748333 (P = 0.7292)0.4793297 (P = 4.41e−05)
NQO1 (BU167840)1.692737 (P = 0.02557)1.373538534 (P = 0.0989)0.585560278 (P = 0.4972)0.6731583 (P ≤ 2.2e−16)
NR1I2 (AK122990)3.5072617 (P = 0.01273)3.690360466 (P = 0.01349)1.25111399 (P = 0.3434)0.7692308 (P = 0.003084)
TNF (NM_000594)−1.178148 (P = 0.03833)−2.200605362 (P = 0.0008089)−1.463160278 (P = 0.04814)0.5295689 (P = 6.78e−06)
  • NOTE: For 6 analyzed genes, mean group differences between mucinous (Muc) and nonmucinous (nMuc) samples using microarray or qRT-PCR are reported. From left to right, the columns refer to gene name with GenBank accession no.; the arrays log ratio value; qRT-PCR results calculated with the −ΔΔCt protocol in the original cohort and in the new “test” set; and the correlation value (ρ) between the two assays using the Spearman's test. P is the P value referred to Welch t test or correlation test as appropriate (P < 0.05).