From: Separate-channel analysis of two-channel microarrays: recovering inter-spot information
 |  |  | Number of differentially expressed genes | |
---|---|---|---|---|
Analysis | Comparison |
| FDR <0.05 | FDR <0.01 |
Log-ratio | Leaf vs Sepal | 0.52 | 1157 | 668 |
Separate channel | Leaf vs Sepal | 0.64 | 1331 | 954 |
Log-ratio | Leaf vs Carpel | 0.84 | 254 | 132 |
Separate channel | Leaf vs Carpel | 0.87 | 505 | 314 |