Table 2 Distribution of low, intermediate and highly methylated DNA methylation sites between different genomic elements in NEC and non-NEC colon tissues
Feature | Methylation | Colon | ||||
|---|---|---|---|---|---|---|
Percent | NEC (%)a | Non-NEC (%)a | Chi-square2b | df | p | |
Promoter | < 20 | 37,158 (21.0) | 41,311 (23.4) | 937 | 2 | < 0.0001 |
20–80 | 66,839 (37.8) | 71,457 (40.4) | ||||
> 80 | 72,745 (41.2) | 63,974 (36.2) | ||||
Exonic | < 20 | 11,149 (4.6) | 12,921 (5.4) | 3926 | 2 | < 0.0001 |
20–80 | 103,599 (42.9) | 123,568 (51.2) | ||||
> 80 | 126,717 (52.5) | 104,976 (43.5) | ||||
Intronic | < 20 | 78,867 (1.8) | 110,129 (2.5) | 65,796 | 2 | < 0.0001 |
20–80 | 1,849,085 (41.6) | 2,196,549 (49.4) | ||||
> 80 | 2,519,124 (56.6) | 2,140,398 (48.1) | ||||
CpG Island | < 20 | 14,441 (46.1) | 14,521 (46.3) | 1.1 | 2 | 0.57 |
20–80 | 6607 (21.1) | 6651 (21.2) | ||||
> 80 | 10,289 (32.8) | 10,165 (32.4) | ||||
CpG Shore | < 20 | 54,460 (15.6) | 62,519 (17.9) | 1362 | 2 | < 0.0001 |
20–80 | 123,299 (35.3) | 129,751 (37.2) | ||||
> 80 | 171,130 (49) | 156,619 (44.9) | ||||
Enhancer | < 20 | 913 (7.8) | 1095 (9.3) | 89 | 2 | < 0.0001 |
20–80 | 5830 (49.6) | 6339 (54.0) | ||||
> 80 | 5006 (42.6) | 4315 (36.7) | ||||
Intergenic | < 20 | 72,468 (1.5) | 106,195 (2.2) | 74,182 | 2 | < 0.0001 |
20–80 | 2,472,995 (51.4) | 2,850,249 (59.3) | ||||
> 80 | 2,261,348 (47.0) | 1,850,367 (38.5) | ||||
CpG Island + CpG Shore | < 20 | 68,901 (18.1) | 77,040 (20.3) | 1228 | 2 | < 0.0001 |
20–80 | 129,906 (34.2) | 136,402 (35.9) | ||||
> 80 | 181,419 (47.7) | 166,784 (43.9) | ||||
Exons + Introns | < 20 | 90,016 (1.9) | 123,050 (2.6) | 69,507 | 2 | < 0.0001 |
20–80 | 1,952,684 (41.6) | 2,320,117 (49.5) | ||||
> 80 | 2,645,841 (56.4) | 2,245,374 (47.9) | ||||
All | < 20 | 191,444 (2.0) | 261,637 (2.7) | 145,070 | 2 | < 0.0001 |
20–80 | 4,407,199 (45.6) | 5,166,249 (53.5) | ||||
> 80 | 5,060,312 (52.4) | 4,231,069 (43.8) | ||||