Table 3.
Summary of different models fitted and corresponding identified DMCs/DMRs.
| Models | #CpGs Tested | #DMCs (#DMRs) | #HyperDMCs (#HyperDMRs) | #HypoDMCs (#HypoDMRs) |
|---|---|---|---|---|
| I. ACPA-positive vs. ACPA-negative (Dataset 2) |
4,259,820 | 19,472 (814) | 8581 (334) | 10,891 (480) |
| II. ACPA-positive vs. ACPA-negative (Dataset 1) |
1,305,080 | 853 (44) | 569 (31) | 284 (13) |
| Overlaps by position | 1,095,002 | 157 (10) | 43 (3) | 16(1) |
| III. ACPA-positive vs. ACPA-negative with genetic effect adjustment (Dataset 2) |
19,472 * | 6314 (302) | 2415 (115) | 3899 (187) |
| IV. ACPA-positive vs. ACPA-negative with genetic effect adjustment (Dataset 1) |
853 † | 515 (28) | 371 (22) | 144 (6) |
| Overlaps by position | 157 | 31 (3) | 14 (1) | 1 (0) |
| V. Self-reported RA vs. Asymptomatic (Dataset 2) |
4,282,792 | 18,874 (843) | 10,909 (578) | 7965 (265) |
| VI. Self-reported RA vs. Asymptomatic (Dataset 1) |
1,295,623 | 258 (15) | 99 (5) | 159 (10) |
| Overlaps by position | 1,099,279 | 55 (4) | 15 (1) | 11 (1) |
* In which 6026 DMCs found not to be affected by cis-SNPs were refitted without genetic adjustment. † In which 503 DMCs found not to be affected by cis-SNPs were refitted without genetic adjustment.