TABLE III.
DMRs (n = 35) for asthma in relation to newborn methylation identified by using both comb-p (P < .01) and DMRcate (FDR < 0.01) methods
| chromosome:position | Gene name* | No. of CpGs in region | P value from comb-p† | FDR from DMRcate‡ |
|---|---|---|---|---|
| Chr 1: 59280290-59280842 | LINC01135 | 5 | 1.23E-03 | 1.01E-03 |
| Chr 1: 220263017-220263699 | BPNT1; RNU5F-1 | 11 | 4.49E-04 | 7.74E-05 |
| Chr 1: 1296093-1296489 | MXRA8 | 2 | 9.83E-03 | 3.86E-04 |
| Chr 2: 202097062-202097608 | CASP8 | 5 | 1.14E-03 | 1.64E-05 |
| Chr 2: 235004843-235005012 | SPP2 | 2 | 6.22E-03 | 1.15E-03 |
| Chr 3: 194188646-194189444 | ATP13A3 | 3 | 1.06E-03 | 7.14E-04 |
| Chr 4: 113218385-113218525 | ALPK1 | 3 | 2.00E-03 | 3.69E-04 |
| Chr 5: 158526108-158526694 | EBF1 | 6 | 9.56E-04 | 2.16E-05 |
| Chr 5: 81573780-81574461 | RPS23 | 11 | 3.75E-03 | 1.47E-04 |
| Chr 5: 64777678-64778186 | ADAMTS6 | 10 | 7.09E-03 | 9.97E-05 |
| Chr 6: 291687-292824 | DUSP22 | 9 | 6.69E-06 | 1.18E-05 |
| Chr 6: 32799997-32801050 | TAP2 | 13 | 1.27E-03 | 6.66E-05 |
| Chr 6: 26234819-26235610 | HIST1H1D | 9 | 6.12E-03 | 7.67E-05 |
| Chr 6: 29648161-29649085 | ZFP57 | 22 | 1.82E-08 | 3.13E-11 |
| Chr 6: 31055396-31055503 | C6orf15 | 5 | 3.61E-04 | 7.05E-05 |
| Chr 7: 106694832-106695007 | PRKAR2B | 2 | 6.86E-03 | 7.92E-04 |
| Chr 7: 87974722-87975316 | STEAP4 | 4 | 2.32E-03 | 7.44E-05 |
| Chr 7: 158045980-158046359 | PTPRN2 | 6 | 1.98E-03 | 5.94E-04 |
| Chr 8: 127889010-127889296 | PCAT1 | 4 | 2.68E-05 | 1.44E-05 |
| Chr 8: 33370172-33371226 | TTI2 | 9 | 1.08E-04 | 6.40E-06 |
| Chr 10: 71871364-71871634 | H2AFY2 | 4 | 8.06E-03 | 6.19E-04 |
| Chr 10: 65028929-65029169 | JMJD1C | 5 | 8.56E-03 | 6.12E-04 |
| Chr 11: 268923-269469 | NLRP6 | 5 | 3.71E-03 | 1.42E-03 |
| Chr 11: 107328442-107328915 | CWF19L2 | 10 | 5.10E-03 | 2.13E-05 |
| Chr 12: 74931289-74932008 | ATXN7L3B | 10 | 1.03E-03 | 2.81E-06 |
| Chr 12: 58329764-58330116 | LOC100506844 | 5 | 1.58E-03 | 5.22E-04 |
| Chr 13: 108953659-108954055 | TNFSF13B | 2 | 5.19E-03 | 2.37E-03 |
| Chr 13: 31618695-31618744 | TEX26 | 2 | 4.63E-03 | 2.09E-04 |
| Chr 14: 69341139-69341739 | ACTN1 | 4 | 1.36E-03 | 9.96E-04 |
| Chr 16: 20774873-20775353 | ACSM3 | 5 | 3.47E-03 | 1.58E-03 |
| Chr 17: 74667833-74668253 | LOC105274304 | 6 | 2.13E-03 | 8.34E-07 |
| Chr 17: 21029189-21029296 | DHRS7B | 2 | 7.18E-03 | 5.11E-05 |
| Chr 18: 47813745-47815431 | CXXC1 | 10 | 2.58E-05 | 1.68E-03 |
| Chr 21: 36421467-36421956 | RUNX1 | 6 | 2.23E-03 | 1.67E-04 |
| Chr 22: 24372913-24374013 | LOC391322 | 12 | 3.21E-04 | 1.35E-07 |
*
DMRcate annotates to UCSC RefGene from the Illumina annotation file.
†
Comb-p uses a 1-step Sidak multiple-testing correction on the regional P value assigned by using the Stouffer-Liptak method.
‡
DMRcate takes the minimum Benjamini-Hochberg FDR-corrected P value in the region as representative after recalculating P values by using Gaussian kernel smoothing.