Table 1 Area under ROC curves up to 100 false positives, RMA and GCRMA
From: Empirical Bayes models for multiple probe type microarrays at the probe level
Method | Pre-processing | Affymetrix U95 | Affymetrix 133A | Golden Spike | Gene Logic Tonsil | Gene Logic AML |
|---|---|---|---|---|---|---|
PLW | RMA | 96(1) | 93(6) | 42(1) | 87(1) | 86(1) |
LMW | RMA | 96(2) | 94(1) | 36(5) | 84(3) | 80(5) |
LPE | RMA | 94(7) | 93(11) | 40(2) | 84(2) | 85(2) |
combined-p | RMA | 95(4) | 92(12) | 39(3) | 83(4) | 81(4) |
WAME | RMA | 95(5) | 94(2) | 33(7) | 81(7) | 78(8) |
median-t | RMA | 95(3) | 93(10) | 39(4) | 82(6) | 80(6) |
IBMT | RMA | 95(6) | 94(3) | 34(6) | 78(9) | 76(9) |
Efron-t | RMA | 94(8) | 93(4) | 32(8) | 79(8) | 79(7) |
FC | RMA | 92(12) | 93(5) | 29(12) | 83(5) | 85(3) |
LIMMA | RMA | 94(9) | 93(7) | 32(9) | 76(10) | 75(10) |
SAM | RMA | 94(10) | 93(8) | 32(11) | 74(12) | 74(11) |
Shrink-t | RMA | 94(11) | 93(9) | 32(10) | 75(11) | 73(12) |
t-test | RMA | 85(13) | 86(13) | 21(13) | 57(13) | 52(13) |
PLW | GCRMA | 97(1) | 92(8) | 54(1) | 87(1) | 87(1) |
LMW | GCRMA | 95(3) | 93(1) | 50(5) | 84(3) | 79(6) |
median-t | GCRMA | 96(2) | 92(10) | 50(2) | 83(4) | 81(5) |
combined-p | GCRMA | 95(5) | 91(12) | 50(4) | 86(2) | 81(4) |
LPE | GCRMA | 95(6) | 91(11) | 50(3) | 82(6) | 86(2) |
IBMT | GCRMA | 95(4) | 93(2) | 47(6) | 81(9) | 76(8) |
Efron-t | GCRMA | 94(7) | 93(4) | 37(8) | 82(7) | 79(7) |
WAME | GCRMA | 94(10) | 93(3) | 39(7) | 83(5) | 75(10) |
FC | GCRMA | 93(12) | 93(7) | 30(13) | 81(8) | 86(3) |
LIMMA | GCRMA | 94(9) | 93(5) | 37(9) | 80(10) | 73(11) |
SAM | GCRMA | 94(8) | 93(6) | 36(11) | 79(11) | 76(9) |
Shrink-t | GCRMA | 94(11) | 92(9) | 37(10) | 78(12) | 70(12) |
t-test | GCRMA | 86(13) | 84(13) | 30(12) | 64(13) | 53(13) |