Table 3.
Differentially methylated regions in SZ.
| Chromosome | Start | End | Length in bp | Number of significant probes | Mean β value coefficient | Overlapping promoters | Overlapping genes |
|---|---|---|---|---|---|---|---|
| 6 | 28828946 | 28829503 | 557 | 15 | 0.012562318 | LINC01623, RPL13P | LINC01623, RPL13P |
| 1 | 16062361 | 16063471 | 1110 | 11 | −0.010632242 | SLC25A34, RP11-288I21.1 | SLC25A34, RP11-288I21.1 |
| 1 | 3191219 | 3192542 | 1323 | 10 | −0.021685336 | PRDM16 | |
| 10 | 6263235 | 6264776 | 1541 | 9 | −0.016688209 | PFKFB3 | PFKFB3 |
| 19 | 48958216 | 48959043 | 827 | 9 | −0.014250403 | KCNJ14 | GRWD1 |
| 15 | 93617080 | 93617833 | 753 | 9 | −0.016227133 | RGMA | RGMA |
| 1 | 2999586 | 3001128 | 1542 | 8 | −0.020050418 | PRDM16 | |
| 4 | 1800154 | 1801294 | 1140 | 8 | −0.012881307 | FGFR3 | FGFR3 |
| 3 | 187453721 | 187454786 | 1065 | 8 | −0.015068722 | BCL6 | BCL6 |
| 3 | 13082751 | 13083684 | 933 | 7 | −0.018337881 | IQSEC1 | |
| 1 | 153600597 | 153600972 | 375 | 7 | −0.016748303 | S100A1, S100A13 | S100A1, S100A13 |
| 3 | 12949457 | 12950513 | 1056 | 6 | −0.015753296 | IQSEC1 | |
| 4 | 1803298 | 1805090 | 1792 | 6 | −0.015286045 | FGFR3 | FGFR3 |
| 8 | 141588118 | 141588943 | 825 | 6 | −0.017229636 | AGO2 | |
| 2 | 8711042 | 8711256 | 214 | 6 | −0.018511245 | LINC01814 | |
| 4 | 1807819 | 1808646 | 827 | 6 | −0.01256232 | FGFR3 | FGFR3 |
| 4 | 866299 | 866811 | 512 | 6 | −0.017785773 | GAK | GAK |
| 14 | 21491808 | 21492316 | 508 | 6 | −0.010876489 | NDRG2 | NDRG2 |
| 10 | 99329961 | 99330447 | 486 | 5 | −0.014591035 | ANKRD2 | UBTD1 |
| 2 | 241535685 | 241536284 | 599 | 5 | −0.021733676 | CAPN10 | CAPN10 |
| 1 | 3154081 | 3154700 | 619 | 5 | −0.023621906 | PRDM16 | PRDM16 |
| 5 | 1033518 | 1034076 | 558 | 4 | −0.023946075 | NKD2 | NKD2 |
| 19 | 45411802 | 45412647 | 845 | 4 | −0.023104719 | APOE | |
| 7 | 2262244 | 2262479 | 235 | 4 | −0.020981488 | MAD1L1 | MAD1L1 |
| 6 | 5087031 | 5087749 | 718 | 4 | −0.021469791 | PPP1R3G | PPP1R3G, LYRM4 |
| 9 | 138966848 | 138967347 | 499 | 4 | −0.021449114 | NACC2 | |
| 10 | 7212815 | 7213304 | 489 | 4 | −0.021980366 | SFMBT2 | |
| 12 | 117157450 | 117158154 | 704 | 4 | −0.015498341 | C12orf49 | C12orf49 |
| 10 | 3162054 | 3162191 | 137 | 4 | −0.017789142 | PFKP | |
| 13 | 79170146 | 79170430 | 284 | 4 | 0.014049989 | OBI1-AS1 | |
| 9 | 96199463 | 96199581 | 118 | 3 | −0.02791665 | RP11-165J3.6-001 | |
| 17 | 55703709 | 55704098 | 389 | 3 | −0.029515629 | MSI2 | |
| 5 | 167858238 | 167858326 | 88 | 3 | −0.017722017 | WWC1-008, WWC1-007 | WWC1 |
| 22 | 47016623 | 47017522 | 899 | 3 | −0.020100319 | GRAMD4 | GRAMD4 |
| 17 | 79686849 | 79687075 | 226 | 3 | −0.026164519 | SLC25A10 | |
| 1 | 223945127 | 223945297 | 170 | 3 | −0.022033434 | CAPN2 | CAPN2 |
| 1 | 3128606 | 3129115 | 509 | 3 | −0.024216925 | PRDM16 | |
| 15 | 93611859 | 93611950 | 91 | 2 | −0.024325293 | RGMA | |
| 7 | 4829256 | 4829350 | 94 | 2 | −0.028189732 | AP5Z1, MIR4656 | AP5Z1 |
| 15 | 70364327 | 70364359 | 32 | 2 | −0.020032632 | TLE3 | |
| 15 | 65594642 | 65594648 | 6 | 2 | −0.024798094 | PARP16 | RP11-349G13.2 |
| 14 | 65689711 | 65689836 | 125 | 2 | −0.021050816 | LINC02324 | |
| 17 | 77954963 | 77955167 | 204 | 2 | −0.0173864 | TBC1D16 | |
| 3 | 58558333 | 58558343 | 10 | 2 | −0.018019101 | RP11-475O23.2 | FAM107A |
The 44 genomic regions in which DNAm differed at two or more contiguous, measured sites between SZ and NPC subjects are listed.
DNAm DNA methylation, DMR differentially methylated region, SZ schizophrenia, NPC non-psychiatric comparison, bp base pairs.