Table 1. The rates (frequencies) of “1” for 22 selected genes in each cluster of the stable states from Fig. 2A.
| Genes | All | Clus1 | Culs2 | Clus3 | Clus4 | Group1 (clus1-3) | Group2 (Clus2-4) | Group1 – Group2 | GSE41445 (LogFC) |
|---|---|---|---|---|---|---|---|---|---|
| Raf | 0.219 | 0.290 | 0.930 | 0.013 | 0.672 | 0.875 | 0.197 | 0.678 | 2.000 |
| CDKN2A | 0.031 | 0.000 | 1.000 | 0.000 | 1.000 | 1.000 | 0.000 | 1.000 | 1.170 |
| PTEN | 0.500 | 0.465 | 1.000 | 0.524 | 1.000 | 1.000 | 0.484 | 0.516 | 7.810 |
| NKX3.1 | 0.969 | 1.000 | 0.000 | 1.000 | 0.000 | 0.000 | 1.000 | −1.000 | 2.730 |
| Bmi1 | 0.969 | 1.000 | 0.000 | 1.000 | 0.000 | 0.000 | 1.000 | −1.000 | 0.979 |
| TNFa | 0.969 | 1.000 | 0.000 | 1.000 | 0.000 | 0.000 | 1.000 | −1.000 | // |
| EBP1 | 0.500 | 0.538 | 1.000 | 0.370 | 1.000 | 1.000 | 0.484 | 0.516 | 0.742 |
| CXCL1 | 0.250 | 0.325 | 1.000 | 0.016 | 1.000 | 1.000 | 0.226 | 0.774 | 1.170 |
| BMP-6 | 0.250 | 0.324 | 1.000 | 0.016 | 1.000 | 1.000 | 0.226 | 0.774 | 0.334 |
| IKKa | 0.750 | 0.675 | 0.000 | 0.983 | 0.000 | 0.000 | 0.774 | −0.774 | // |
| AKT | 0.750 | 0.675 | 0.000 | 0.984 | 0.000 | 0.000 | 0.774 | −0.774 | 1.972 |
| mTOR | 0.750 | 0.675 | 0.000 | 0.984 | 0.000 | 0.000 | 0.774 | −0.774 | 2.210 |
| NFKB | 0.250 | 0.325 | 1.000 | 0.016 | 1.000 | 1.000 | 0.226 | 0.774 | 1.590 |
| INPP4B | 0.500 | 0.585 | 1.000 | 0.269 | 1.000 | 1.000 | 0.484 | 0.516 | 0.306 |
| BCL-2 | 0.250 | 0.324 | 1.000 | 0.016 | 1.000 | 1.000 | 0.226 | 0.774 | 0.355 |
| NCOR | 0.500 | 0.585 | 1.000 | 0.269 | 1.000 | 1.000 | 0.484 | 0.516 | 0.703 |
| ZnT4 | 0.500 | 0.548 | 0.000 | 0.448 | 0.000 | 0.000 | 0.516 | −0.516 | // |
| HOXB13 | 0.500 | 0.451 | 1.000 | 0.551 | 1.000 | 1.000 | 0.484 | 0.516 | −8.060 |
| E2F1 | 0.937 | 0.953 | 0.000 | 0.997 | 0.000 | 0.000 | 0.968 | −0.968 | −1.130 |
| CDKN1A | 0.750 | 0.806 | 0.000 | 0.705 | 0.000 | 0.000 | 0.774 | −0.774 | // |
| CK2 | 0.500 | 0.415 | 0.000 | 0.731 | 0.000 | 0.000 | 0.516 | −0.516 | // |
| RAC1 | 0.500 | 0.464 | 1.000 | 0.534 | 1.000 | 1.000 | 0.484 | 0.516 | 0.142 |
These 22 genes are the genes that showed significant difference between Group 1 (clusters 1 and 4) and Group 2 (clusters 2 and 3) from Fig. 2A. A gene was selected if the absolute value of the difference between its expressed rates (showed “1”) in Group 1 and in Group 2 is >0.5. The last column denotes the logFC value of DU145 cells vs. PC3 cells on these 22 genes’ expressions.