Table 3.
Chromatin regulators are enriched in genes that physically interact with MDGs
| MDGs | |Ti| | N4 (# of physically interacting genes) | N5 (# of physically interacting genes in list A) |
Enrichment PvalueAi |
|---|---|---|---|---|
| TP53 | 8 | 923 | 192 | 0 |
| PTEN | 3 | 224 | 19 | 0.00035 |
| RB1 | 2 | 250 | 64 | 0 |
| NF1 | 2 | 29 | 3 | 0.079 |
| CTNNB1 | 2 | 364 | 63 | 0 |
| HRAS | 2 | 86 | 6 | 0.08 |
| BRAF | 2 | 54 | 8 | 0.00053 |
| IDH1 | 2 | 49 | 7 | 0.0015 |
| NRAS | 2 | 36 | 3 | 0.13 |
| RNF43 | 2 | 18 | 7 | 1.4e-06 |
| ZBTB20 | 2 | 17 | 1 | 0.45 |
| CDH1 | 2 | 144 | 18 | 2.9e-06 |
|Ti|: number of tumor types whose genome-wide methylation levels are significantly associated with the mutation status of CDG i;
N4: number of genes physically interact with MDG i;
N5: number of genes physically interact with MDG i that are also in list A;
Enrichment PvalueAi is calculated using a hypergeometric distribution testing if genes in list A are enriched among selected physically interacting genes.