Table 2.
Summary of the 17 CpG site locations, associated genes, and CpG annotations
| Chromosome | Position | Gene symbol | Genomic location | Direction of methylation difference | CpG Annotation |
|---|---|---|---|---|---|
| chr1 | 45,339,798 | MUTYH |
Intron; Exon; Far Promoter; 5’UTR; Intron–Exon Boundary |
Hypo | CpG Shore |
| TOE1 | Promoter; Far Promoter | ||||
| chr7 | 19,708,981 | MIR3146 | Far Promoter | Hypo | CpG Island |
| chr7 | 19,708,988 | MIR3146 | Far Promoter | Hypo | CpG Island |
| chr7 | 19,708,990 | MIR3146 | Far Promoter | Hypo | CpG Island |
| chr10 | 632,863 | DIP2C | Intron | Hypo | CpG Island |
| chr10 | 119,892,349 | SEC23IP | Promoter | Hypo | CpG Shore |
| chr10 | 132,767,837 | INPP5A | Intron | Hyper | CpG Shore |
| chr11 | 64,304,843 | ESRRA | Promoter; Far Promoter | Hypo | CpG Island |
| chr16 | 30,610,279 | ZNF689 | Intron; Exon; Promoter; 5’UTR; Intron–Exon Boundary | Hypo | CpG Island |
| chr16 | 30,610,288 | ZNF689 | Intron; Exon; Promoter; 5’UTR; Intron–Exon Boundary | Hypo | CpG Island |
| chr17 | 30,379,602 | CPD | Exon; Promoter | Hypo | CpG Island |
| chr17 | 30,379,604 | CPD | Exon; Promoter | Hypo | CpG Island |
| chr17 | 30,379,614 | CPD | Exon; Promoter | Hypo | CpG Island |
| chr17 | 38,297,134 | MRPL45 | Exon; Promoter; 5’UTR | Hypo | CpG Island |
| chr17 | 38,297,137 | MRPL45 | Exon; Promoter; 5’UTR | Hypo | CpG Island |
| chr18 | 46,104,880 | ATP5F1A | Promoter | Hypo | CpG Island |
| chrX | 2,583,990 | NA | NA | Hypo | CpG Island |
If a gene associated with a biomarker has annotations for different genomic locations based on transcripts, all genomic locations are listed with semicolons. The direction of methylation difference is indicated as “Hyper” for hypermethylated biomarkers and “Hypo” for hypomethylated biomarkers. NA = Not Available