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Table 2 The top-ranked DMPs in age-10 MZ twins persistently discordant for asthma

From: Methylomic markers of persistent childhood asthma: a longitudinal study of asthma-discordant monozygotic twins

  Age 10 Age 5  
Probe ID Co-twin mean Asthma mean Mean ∆β P value Empirical P value Mean ∆β P value Relation to CpG island Gene region feature category (UCSC) Hg19 Illumina gene annotation Probe type Gene annotation from GREAT (distance from TSS)
cg23603194 0.289 0.180 −0.109 6.87E-06 0.0009 0.056 0.0519 N_Shore Intergenic Chr1:221060753   II HLX (+8011), DUSP10 (+854762)
cg27385757 0.353 0.286 −0.067 2.16E-05 0.0012 0.029 0.1966 S_Shore TSS1500; 3′UTR Chr6:30656024 KIAA1949; NRM II PPP1R18 (−932)
cg06483698 0.805 0.848 0.043 2.64E-05 0.0007 −0.006 0.6847 N_Shore Body Chr7:6310290 CYTH3 II CYTH3 (+1951), USP42 (+165741)
cg05895618 0.559 0.655 0.096 2.69E-05 0.0007 −0.026 0.5367   5′UTR Chr11:19222395 CSRP3 II CSRP3 (+1193), ZDHHC13 (+83704)
cg14868530 0.081 0.098 0.017 3.36E-05 0.0005 −0.008 0.0351 Island 5′UTR; 1stExon Chr15:73976679 CD276 I CD276 (+58)
cg21304454 0.530 0.392 −0.138 3.59E-05 0.0009 0.070 0.1223 N_Shelf Body Chr1:17302859 MFAP2 II MFAP2 (+4313), CROCC (+54415)
cg11998205 0.853 0.806 −0.047 4.28E-05 0.0017 −0.033 0.0361 S_Shelf Body Chr19:48840527 TMEM143 I EMP3 (+11899), TMEM143 (+26658)
cg18513344 0.210 0.137 −0.072 4.39E-05 0.0007 −0.022 0.3459   Body Chr3:195531298 MUC4 II MUC4 (+7545), MUC20 (+83546)
cg08657206 0.256 0.221 −0.035 5.55E-05 0.0009 −0.005 0.7971 N_Shore Intergenic Chr1:180197901   I LHX4 (−1531)
cg19865472 0.897 0.844 −0.052 5.90E-05 0.0004 −0.065 0.1373 Island 3′UTR Chr19:617133 HCN2 I POLRMT (+16434), HCN2 (+27241)
cg26280666 0.0976 0.0717 −0.0259 6.13E-05 0.0009 −0.0115 0.4006 N_Shore Body Chr8:72755568 MSC II EYA1 (−486590), MSC (+1162)
cg13512987 0.5252 0.6452 0.1200 6.77E-05 0.0005 −0.0438 0.1137   5′UTR; 1stExon Chr12:6898785 CD4 II CD4 (+148)
cg24664347 0.7364 0.8161 0.0797 7.51E-05 0.0006 −0.0624 0.0007 S_Shore TSS1500 Chr8:86841010 REXO1L2P II REXO1L1 (−51705), PSKH2 (+240840)
cg25346117 0.6694 0.7450 0.0756 8.06E-05 0.0004 0.0030 0.8688   Body Chr1:116923256 ATP1A1 II ATP1A1 (+7462), CD58 (+190458)
cg09587549 0.2320 0.2647 0.0327 9.75E-05 0.0005 −0.0006 0.9742 Island 5′UTR; 1stExon Chr16:31214126 PYCARD I PYCARD (−30)
cg03225548 0.7651 0.6807 −0.0844 9.90E-05 0.0004 −0.0014 0.9638 N_Shelf Body; 5′UTR Chr18:71811234 FBXO15 II TIMM21 (−4511), FBXO15 (+3865)
cg17130754 0.7563 0.6967 −0.0597 9.99E-05 0.0004 0.0478 0.0739   Intergenic Chr10:3536341   II PITRM1 (−321309), KLF6 (+291131)
  1. Ranked by P value. Empirical P value = (number of permutations which are at least as significant as the true result (P < 0.0001) divided by the number of permutations performed (n = 8192))
  2. DMPs differentially methylated positions, MZ monozygotic, GREAT Genomic Regions Enrichment of Annotations Tool, TSS transcription start site, UCSC University of California Santa Cruz genome browser