From: Microarray-based gene set analysis: a comparison of current methods
Simulations based on diabetes data[3] | ||||||
---|---|---|---|---|---|---|
 | PCOT2 | SAFE | GSEA-Category | GSEA-limma | Globaltest | sigPathway |
On-Off [D] | 0.997 | 0.637 | 1 | 0.587 | 1 | 0.773 |
 | (0.003) | (0.031) | (0) | (0.019) | (0) | (0.024) |
On-On [D] | 0.07 | 0.007 | 0.063 | 0 | 0.087 | 0.047 |
 | (0.013) | (0.005) | (0.015) | (0) | (0.017) | (0.012) |
Off-Off [ND] | 0.993 | 1 | 0.997 | 1 | 0.997 | 0.997 |
 | (0.003) | (0) | (0.002) | (0) | (0.002) | (0.002) |
On-On [ND] | 0.997 | 1 | 1 | 1 | 0.997 | 1 |
 | (0.003) | (0) | (0) | (0) | (0.003) | (0) |
Simulations based on leukemia data[22] | ||||||
 | PCOT2 | SAFE | GSEA-Category | GSEA-limma | Globaltest | sigPathway |
On-Off [D] | 1 | 0.384 | 0.998 | 0.552 | 1 | 0.966 |
 | (0) | (0.031) | (0.002) | (0.021) | (0) | (0.007) |
On-On [D] | 0.5 | 0 | 0.444 | 0 | 0.584 | 0.18 |
 | (0.023) | (0) | (0.022) | (0) | (0.023) | (0.017) |
Off-Off [ND] | 0.997 | 1 | 0.998 | 1 | 0.99 | 0.995 |
 | (0.001) | (0) | (0.001) | (0) | (0.003) | (0.002) |
On-On [ND] | 0.994 | 1 | 0.99 | 1 | 0.99 | 0.996 |
 | (0.003) | (0) | (0.004) | (0) | (0.004) | (0.003) |