Table 3 The level of agreement between the t test, SAM and PLS-DA for selecting differentially expressed genes from the same data set.
From: Gene expression in acute Stanford type A dissection: a comparative microarray study
Type of array | N.o. of differently expressed genes between dissected and control aorta | Agreement between all three methods | |||
|---|---|---|---|---|---|
t -test P < 0.01 | SAM | PLS-DA | |||
Human Broad I cDNA array | 43 | 37 | 35 | 29 | |
Agreement with t-test | - | 29 (67%) | 35 (81%) | - | |
Cardiovascular cDNA array | 31 | 36 | 34 | 22 | |
Agreement with t-test | - | 27 (87%) | 26 (84%) | - | |
Affymetrix HG-133A | 242 | 195 | 79 | 79 | |
Agreement with t-test | - | 195 (81%) | 79 (33%) | - | |