Table 1.
List of potential R882H AML target genes. Gene part refers to the region of hypermethylation (P – promoter, I – Intron, EX – Exon, D – Distance) as defined in (31). CpGs: number of hypermethylated CpGs. Expression: ln2 ratio of expression level in R882H and non-R882H AML. Comment: Oncogene and TSG (Tumor suppressor gene) as listed in COSMIC Cancer gene census (52) or the indicated references. AML connection is based on Harmonizome AML gene set (53)
| Category | Gene | Gene symbol | Gene part | CpGs | Expression | Comment |
|---|---|---|---|---|---|---|
| Hypermet. promoter | NM_014629 | ARHGEF10 | P | 1 | –0.85 | TSG |
| NM_001135733 | TP53INP1 | P | 1 | –0.91 | Negative clinical marker (50) | |
| NM_016831 | PER3 | P | 1 | –0.55 | (49) | |
| Hypermet. gene body | NM_022114 | PRDM16 | I | 4 | 1.04 | Ongogene, AML connection |
| NM_000378 | WT1 | I | 4 | 0.94 | Oncogene, TSG, AML connection | |
| NM_024083 | ASPSCR1 | I | 3 | 0.57 | ||
| NM_000368 | TSC1 | I | 1 | 0.64 | TSG | |
| NM_032173 | ZNRF3 | I | 1 | –0.58 | TSG | |
| NM_000179 | MSH6 | I | 1 | –1.16 | TSG | |
| NM_181523 | PIK3R1 | I | 1 | –1.49 | TSG | |
| NM_001136239 | PRDM6 | I | 3 | –0.52 | TSG (54) | |
| NM_001535 | PRMT2 | EX | 1 | 0.53 | Oncogene (55) | |
| Hypermet. close to gene | NM_007084 | SOX21 | D | 1 | –0.54 | TSG |
| NM_004496 | FOXA1 | D | 3 | –0.52 | Oncogene, TSG | |
| NM_001013736 | FAM47C | D | 1 | –0.35 | ||
| NM_015274 | MAN2B2 | D | 1 | 0.58 | Listed in AML gene set | |
| NM_002609 | PDGFRB | D | 1 | 0.66 | Oncogene |