Genes of interest from HELP analysis
| Gene . | Gene full name . | Location . | Comparison . | ΔM . | P . |
|---|---|---|---|---|---|
| LIFR | Leukemia inhibitory factor receptor-α | Chr 5p13-p12 | MLL vs hyperdiploid | 3.60 | < .001 |
| CCR6 | Chemokine (C-C motif) receptor 6 | Chr 6q27 | MLL vs normal controls | 3.76 | < .001 |
| DAXX | Death-associated protein 6 | Chr 6p21.3 | MLL vs normal controls | 3.43 | < .001 |
| DAPK1 | Death-associated protein kinase 1 | Chr 9q34.1 | MLL vs normal controls | 6.22 | < .001 |
| CASP9 | Caspase 9 | Chr 1p36.3-36.1 | MLL vs MLL-wt ALL | 3.84 | .005 |
| HRK | Harakiri | Chr 12q24.22 | MLL vs MLL-wt ALL | 4.17 | .005 |
| Gene . | Gene full name . | Location . | Comparison . | ΔM . | P . |
|---|---|---|---|---|---|
| LIFR | Leukemia inhibitory factor receptor-α | Chr 5p13-p12 | MLL vs hyperdiploid | 3.60 | < .001 |
| CCR6 | Chemokine (C-C motif) receptor 6 | Chr 6q27 | MLL vs normal controls | 3.76 | < .001 |
| DAXX | Death-associated protein 6 | Chr 6p21.3 | MLL vs normal controls | 3.43 | < .001 |
| DAPK1 | Death-associated protein kinase 1 | Chr 9q34.1 | MLL vs normal controls | 6.22 | < .001 |
| CASP9 | Caspase 9 | Chr 1p36.3-36.1 | MLL vs MLL-wt ALL | 3.84 | .005 |
| HRK | Harakiri | Chr 12q24.22 | MLL vs MLL-wt ALL | 4.17 | .005 |
Twelve genes of interest were selected for further analysis by TaqMan qRT-PCR. Six genes of interest were selected from the HELP analysis results. Probes that showed highly significant methylation differences between groups were matched with their corresponding gene based on location using the UCSC genome browser.24 This list of genes was further condensed by selecting genes that had previously been shown in the literature to be silenced, hypermethylated, epigenetically influenced, or related to tumor suppression or apoptosis. The other 6 genes appear in Table 3.