An Efficient Approach to Screening Epigenome-Wide Data
Table 7
Information for CpG sites associated with maternal smoking identified by the training and testing screening method.
Model 2: maternal smoking only
CpG site
Chromosome: map
Gene
Promoter region
CpG island
name
information
name
and exon
location
cg20464068
chr1: 14026054
PRDM2
TSS1500
14026481–14027200
cg07951355
chr1: 40123717
cg14179389
chr1: 92947961
GFI1
Body
92945907–92952609
cg00909806
chr1: 212688762
212688031–212688448
cg26143053
chr2: 3718125
ALLC
5′UTR
cg03690080
chr2: 39188006
LOC100271715, LOC375196
Body, TSS1500
39186777–39187968
cg19243656
chr2: 73340094
RAB11FIP5
5′UTR, 1stExon
73339292–73340733
cg18703066
chr2: 105363536
cg07516970
chr2: 157181359
NR4A2
3′UTR
157184389–157184632
cg19273101
chr2: 191734576
cg14075934
chr2: 200137014
SATB2
Body
cg03158780
chr3: 577964
cg10663973
chr4: 6642559
MRFAP1
1stExon, 5′UTR
6642194–6643322
cg10364374
chr4: 125857940
cg23743778
chr4: 140357491
140357362–140357610
cg21401642
chr4: 174421114
174421347–174421559
cg17924476
chr5: 323794
AHRR
Body
320788–323010
cg05575921
chr5: 373378
AHRR
Body
373842–374426
cg21161138
chr5: 399360
AHRR
Body
cg12287936
chr5: 1800606
NDUFS6, MRPL36
TSS1500
1799461–1801905
cg16244648
chr5: 141555043
cg18349863
chr6: 29912713
HLA-A
Body
29910202–29911367
cg11492288
chr6: 30290596
HCG18
Body
30294169–30295071
cg04325960
chr6: 147124986
LOC729176, C6orf103
TSS200, Body
cg00004963
chr6: 147124996
LOC729176, C6orf103
TSS200, Body
cg11881038
chr6: 154408701
OPRM1
Body, 1stExon, 5′UTR
cg20418529
chr6: 166260012
cg00794911
chr6: 166260532
cg18132363
chr6: 166260572
cg08634229
chr6: 169326603
cg06769202
chr7: 27142535
HOXA2
TSS200
27143181–27143479
cg23206851
chr7: 27143046
HOXA2
TSS1500
27143181–27143479
cg02225599
chr7: 27143252
HOXA2
TSS1500
27143181–27143479
cg10319053
chr7: 27143370
HOXA2
TSS1500
27143181–27143479
cg00445443
chr7: 27143478
HOXA2
TSS1500
27143181–27143479
cg06401979
chr7: 27143717
HOXA2
TSS1500
27143181–27143479
cg11986226
chr7: 40026390
CDK13
Body
cg19089201
chr7: 45002287
MYO1G
3′UTR
45002111–45002845
cg04180046
chr7: 45002736
MYO1G
Body
45002111–45002845
cg12803068
chr7: 45002919
MYO1G
Body
45002111–45002845
cg25949550
chr7: 145814306
CNTNAP2
Body
145813030–145814084
cg11207515
chr7: 146904205
CNTNAP2
Body
cg21015808
chr7: 149809179
cg21330896
chr7: 28205705
ZNF395
3′UTR
cg17199018
chr7: 28206278
ZNF395
Body
cg04690729
chr8: 133494328
KCNQ3
TSS1500
133492398–133493586
cg15707110
chr8: 144311102
144311708–144311985
cg08126560
chr9: 92291523
LOC100129066
Body
92291268–92291524
cg13393408
chr9: 132874232
GPR107
Body
cg11813497
chr10: 14372879
FRMD4A
TSS200
cg12490835
chr10: 22623821
22623350–22625875
cg26520012
chr10: 42672589
42672509–42673432
cg05329352
chr10: 112838983
ADRA2A
1stExon
112835990–112839303
cg18424850
chr10: 132945786
TCERG1L
Body
cg19494188
chr11: 1466780
BRSK2
Body
1466304–1467210
cg26204383
chr11: 2435667
TRPM5
Body
2435295–2436651
cg14436038
chr11: 6494706
TRIM3
5′UTR
6494725–6495453
cg15627089
chr11: 16625751
16626053–16629180
cg25160605
chr11: 21087846
NELL1
Body
cg17517598
chr11: 61659090
FADS3
TSS200
61658569–61659592
cg10788371
chr11: 76381040
LRRC32
5′UTR, 1stExon
76381449–76382295
cg11395306
chr11: 98939366
CNTN5
5′UTR
cg01186919
chr11: 111742365
ALG9
TSS1500, TSS200
111741953–111742292
cg02820646
chr11: 115398838
cg05730269
chr11: 118477055
PHLDB1
TSS200, TSS1500
118478235–118481896
cg18493761
chr11: 125386885
cg09932758
chr12: 58022542
B4GALNT1
Body
58021294–58022037
cg09644707
chr12: 114885161
114885105–114885418
cg27103591
chr12: 124809023
NCOR2
3′UTR
124808972–124809176
cg02032696
chr14: 67982198
TMEM229B
TSS200
67981514–67982380
cg21511816
chr14: 76597824
76597648–76597911
cg24874277
chr15: 33211107
FMN1
Body
cg03643241
chr15: 44487910
FRMD5
TSS1500
44486741–44487860
cg20596162
chr15: 45408861
DUOXA2
Body
45408573–45409528
cg16754378
chr15: 57179394
LOC145783
Body
57179277–57179838
cg06899985
chr15: 65689298
IGDCC4
Body
65689142–65689362
cg05549655
chr15: 75019143
CYP1A1
TSS1500
75018186–75019336
cg17852385
chr15: 75019188
CYP1A1
TSS1500
75018186–75019336
cg11924019
chr15: 75019283
CYP1A1
TSS1500
75018186–75019336
cg18092474
chr15: 75019302
CYP1A1
TSS1500
75018186–75019336
cg01060282
chr16: 17033575
cg07675285
chr16: 27121267
27121011–27121241
cg11705699
chr16: 87742845
KLHDC4
Body
87742556–87743109
cg09554007
chr16: 89627174
RPL13, SNORD68
5′UTR, 1stExon, TSS1500
89626644–89627869
cg16483033
chr17: 1090441
ABR
1stExon, 5′UTR
cg08682866
chr17: 13818946
cg17624073
chr17: 79393583
BAHCC1
Body
79393341–79393742
cg13723693
chr17: 80656731
RAB40B
TSS200
80655335–80657183
cg18495341
chr17: 80909836
B3GNTL1
Body
cg18449879
chr19: 16045054
CYP4F11
1stExon, Body
cg02543506
chr20: 33876594
FAM83C
Body
33879904–33880215
CpG: cytosine-phosphate-guanine dinucleotide, chr: chromosome, locations of each CpG are for v37 of the human genome, CpG sites identified by false discovery rate, and CpG sites identified by false discovery rate and Bonferroni-based methods.
