Table 1. Promoter CGIs that distinguish CGI-H from CGI-L tumors as measured by MethylCap-seq.
| Gene symbol | Chromosomal location | CpG | Fold change |
|---|---|---|---|
| (hg19) | count | RPM | |
| TMEM115 | chr3:50402103–50402942 | 66 | 18.9 |
| TBX18 | chr6:85472702–85474132 | 129 | 18.9 |
| NODAL | chr10:72200065–72201368 | 106 | 16.9 |
| SVEP1 | chr9:113341213–113342029 | 99 | 16.2 |
| TNFSF11 | chr13:43148277–43149282 | 83 | 16 |
| OR10H2 | chr19:15833733–15833983 | 23 | 14.5 |
| KDM2B | chr12:122016170–122017693 | 125 | 14.4 |
| FGF12 | chr3:192125818–192127991 | 176 | 14 |
| APCDD1L | chr20:57089460–57090237 | 71 | 13.6 |
| EPHX3 | chr19:15344091–15344419 | 33 | 13 |
| ASCL1 | chr12:103351579–103352695 | 105 | 13 |
| EXOC3L4 | chr14:103557606–103558235 | 63 | 12.6 |
| SMOC2 | chr6:168841818–168843100 | 125 | 12.5 |
| B4GALNT1 | chr12:58025661–58027056 | 124 | 12.2 |
| GRM8 | chr7:126891300–126894205 | 234 | 12.1 |
| VILL | chr3:38035701–38036000 | 29 | 11.7 |
The 2269 promoter CGI were sorted by Kruskal-Wallis p-value and fold difference for the CGI-H vs. CGI-L comparison; potential candidates were excluded that overlapped regions associated with copy number amplification in TCGA endometrioid samples (8 of the top 50). In addition, a threshold Student p-value of p<0.01 (not corrected for multiple comparisons) was imposed to exclude candidates with large fold differences that appeared to be driven by outlier samples (5 of the top 21).