Table 4.
Average similarity between different probe set definitions based on differentially expressed gene lists derived under various cut-off thresholds and analysis methodsa
| Probe set definition | AFFY | UG | 3UG | ENTREZG | ENSG | REFSEQ | 3REFSEQ | ENST | 3ENST | DOTS | 3DOTS |
|---|---|---|---|---|---|---|---|---|---|---|---|
| AFFY | 100.0 | ||||||||||
| UG | 66.0 | 100.0 | |||||||||
| 3UG | 71.5 | 77.7 | 100.0 | ||||||||
| ENTREZG | 65.8 | 80.1 | 73.2 | 100.0 | |||||||
| ENSG | 66.4 | 78.4 | 72.6 | 87.8 | 100.0 | ||||||
| REFSEQ | 67.2 | 78.5 | 73.7 | 89.1 | 86.5 | 100.0 | |||||
| 3REFSEQ | 68.6 | 72.8 | 82.3 | 80.1 | 78.1 | 83.4 | 100.0 | ||||
| ENST | 66.0 | 74.9 | 71.8 | 83.7 | 87.8 | 87.4 | 78.4 | 100.0 | |||
| 3ENST | 68.7 | 68.9 | 79.6 | 76.3 | 79.8 | 78.2 | 84.4 | 82.5 | 100.0 | ||
| DOTS | 60.0 | 59.0 | 58.6 | 62.2 | 63.1 | 62.9 | 60.8 | 63.6 | 62.3 | 100.0 | |
| 3DOTS | 61.3 | 57.0 | 61.0 | 60.4 | 61.5 | 61.7 | 62.7 | 62.4 | 64.2 | 89.0 | 100.0 |
aSimilarity values <70% are in bold.