Name
|
Chr
|
Pos
|
Gene annotation
|
Strand
|
Relation to Island
|
UCSC RefGene Group
|
This study
|
Smith et al. meta-analysis
|
---|
STG
|
IFG
|
ES
|
p value
|
Brain region
|
---|
beta
|
p value
|
beta
|
p value
|
---|
cg15645660
|
1
|
55,247,356
| |
+
|
Island
|
Body
|
0.09
|
1.03E−03
|
0.09
|
2.28E−05
|
0.04
|
2.12E−08
|
Prefrontal Cortex
|
cg15645660
|
1
|
55,247,356
| |
+
|
Island
|
Body
|
0.09
|
1.03E−03
|
0.09
|
2.28E−05
|
0.03
|
4.67E−10
|
Cross Cortex
|
cg17104258
|
1
|
1.67E+08
| |
−
|
Island
|
Body
|
− 0.12
|
8.72E−03
|
− 0.22
|
5.99E−06
|
− 0.02
|
6.27E−11
|
Cross Cortex
|
cg17104258
|
1
|
1.67E+08
| |
−
|
Island
|
Body
|
− 0.12
|
8.72E−03
|
− 0.22
|
5.99E−06
|
− 0.03
|
2.60E−08
|
TG
|
cg12307200
|
3
|
1.89E+08
|
TPRG1;TPRG1-AS1
|
+
|
N Shore
| |
− 0.05
|
7.18E−04
|
− 0.04
|
8.65E−05
|
− 0.02
|
2.19E−11
|
Prefrontal Cortex
|
cg12307200
|
3
|
1.89E+08
|
TPRG1;TPRG1-AS1
|
+
|
N Shore
| |
− 0.05
|
7.18E−04
|
− 0.04
|
8.65E−05
|
− 0.02
|
2.72E−12
|
TG
|
cg12307200
|
3
|
1.89E+08
|
TPRG1;TPRG1-AS1
|
+
|
N Shore
| |
− 0.05
|
7.18E−04
|
− 0.04
|
8.65E−05
|
− 0.02
|
4.48E−16
|
Cross Cortex
|
cg11964461
|
5
|
1.8E+08
|
RASGEF1C
|
−
|
OpenSea
|
5′UTR
|
0.01
|
1.58E−01
|
0.03
|
1.01E−04
|
0.01
|
9.48E−08
|
Cross Cortex
|
cg00921266
|
7
|
27,153,663
|
HOXA3;HOXA-AS2;HOXA3
|
−
|
N Shore
|
5′UTR;TSS200
|
0.11
|
8.39E−05
|
0.04
|
2.01E−01
|
0.03
|
8.94E−10
|
Prefrontal Cortex
|
cg00921266
|
7
|
27,153,663
|
HOXA3;HOXA-AS2;HOXA3
|
−
|
N Shore
|
5′UTR;TSS200
|
0.11
|
8.39E−05
|
0.04
|
2.01E−01
|
0.02
|
9.25E−09
|
Cross Cortex
|
cg05066959
|
8
|
41,519,308
|
ANK1
|
−
|
OpenSea
|
TSS1500;Body
|
0.10
|
2.91E−02
|
0.10
|
2.04E−05
|
0.02
|
1.45E−12
|
Cross Cortex
|
cg05066959
|
8
|
41,519,308
|
ANK1
|
−
|
OpenSea
|
TSS1500;Body
|
0.10
|
2.91E−02
|
0.10
|
2.04E−05
|
0.04
|
4.58E−13
|
TG
|
cg05066959
|
8
|
41,519,308
|
ANK1
|
−
|
OpenSea
|
TSS1500;Body
|
0.10
|
2.91E−02
|
0.10
|
2.04E−05
|
0.03
|
7.35E−10
|
Prefrontal Cortex
|
cg05066959
|
8
|
41,519,308
|
ANK1
|
−
|
OpenSea
|
TSS1500;Body
|
0.10
|
2.91E−02
|
0.10
|
2.04E−05
|
0.06
|
2.93E−09
|
EC
|
cg23968456
|
10
|
73,521,631
| |
−
|
OpenSea
|
Body
|
0.11
|
1.95E−02
|
0.09
|
2.37E−05
|
0.01
|
1.09E−09
|
Cross Cortex
|
cg23968456
|
10
|
73,521,631
| |
−
|
OpenSea
|
Body
|
0.11
|
1.95E−02
|
0.09
|
2.37E−05
|
0.01
|
1.06E−09
|
TG
|
cg10469774
|
11
|
44,642,932
| |
−
|
OpenSea
| |
0.05
|
2.23E−03
|
0.07
|
4.77E−05
|
0.01
|
7.26E−09
|
Cross Cortex
|
cg07883124
|
13
|
1.14E+08
|
MCF2L
|
−
|
Island
|
Body;1stExon
|
0.03
|
3.52E−02
|
0.05
|
8.57E−06
|
0.02
|
9.10E−13
|
Cross Cortex
|
cg07883124
|
13
|
1.14E+08
|
MCF2L
|
−
|
Island
|
Body;1stExon
|
0.03
|
3.52E−02
|
0.05
|
8.57E−06
|
0.02
|
6.40E−08
|
Prefrontal Cortex
|
cg09448088
|
13
|
1.14E+08
| |
−
|
Island
|
Body
|
0.02
|
8.69E−02
|
0.06
|
3.95E−09
|
0.01
|
1.04E−08
|
Cross Cortex
|
cg26127778
|
15
|
93,617,141
|
RGMA
|
−
|
Island
|
1stExon;TSS1500;Body;5′UTR
|
− 0.05
|
3.52E−05
|
− 0.03
|
1.88E−03
|
− 0.02
|
4.88E−08
|
TG
|
cg17400113
|
15
|
93,617,146
|
RGMA
|
−
|
Island
|
1stExon;TSS1500;Body;5′UTR
|
− 0.03
|
1.23E−03
|
− 0.03
|
1.75E−05
|
− 0.01
|
1.15E−08
|
Cross Cortex
|
cg17400113
|
15
|
93,617,146
|
RGMA
|
−
|
Island
|
1stExon;TSS1500;Body;5′UTR
|
− 0.03
|
1.23E−03
|
− 0.03
|
1.75E−05
|
− 0.02
|
3.75E−08
|
TG
|
cg09109520
|
16
|
57,673,258
|
GPR56
|
−
|
OpenSea
|
5′UTR;1stExon
|
0.06
|
9.14E−05
|
0.03
|
1.39E−01
|
0.02
|
9.00E−11
|
Cross Cortex
|
cg09109520
|
16
|
57,673,258
|
GPR56
|
−
|
OpenSea
|
5′UTR;1stExon
|
0.06
|
9.14E−05
|
0.03
|
1.39E−01
|
0.02
|
2.53E−10
|
Prefrontal Cortex
|
cg03169557
|
16
|
89,598,950
|
SPG7
|
+
|
OpenSea
|
Body
|
0.13
|
4.99E−02
|
0.21
|
1.33E−06
|
0.01
|
3.15E−08
|
Prefrontal Cortex
|
cg03169557
|
16
|
89,598,950
|
SPG7
|
+
|
OpenSea
|
Body
|
0.13
|
4.99E−02
|
0.21
|
1.33E−06
|
0.02
|
2.71E−10
|
TG
|
cg03169557
|
16
|
89,598,950
|
SPG7
|
+
|
OpenSea
|
Body
|
0.13
|
4.99E−02
|
0.21
|
1.33E−06
|
0.01
|
5.41E−11
|
Cross Cortex
|
cg03169557
|
16
|
89,598,950
|
SPG7
|
+
|
OpenSea
|
Body
|
0.13
|
4.99E−02
|
0.21
|
1.33E−06
|
0.02
|
4.41E−09
|
EC
|
cg19803550
|
17
|
1,637,391
|
RP11-961A15.1
|
+
|
Island
|
Body
|
0.14
|
1.91E−02
|
0.13
|
1.67E−05
|
0.01
|
1.06E−08
|
Cross Cortex
|
cg19803550
|
17
|
1,637,391
|
RP11-961A15.1
|
+
|
Island
|
Body
|
0.14
|
1.91E−02
|
0.13
|
1.67E−05
|
0.01
|
3.68E−08
|
Prefrontal Cortex
|
cg05810363
|
17
|
74,475,270
| |
−
|
Island
|
Body
|
0.12
|
6.05E−02
|
0.16
|
6.73E−07
|
0.03
|
2.25E−11
|
TG
|
cg05810363
|
17
|
74,475,270
| |
−
|
Island
|
Body
|
0.12
|
6.05E−02
|
0.16
|
6.73E−07
|
0.02
|
2.01E−10
|
Cross Cortex
|
cg13076843
|
17
|
74,475,294
| |
+
|
Island
|
Body
|
0.07
|
3.13E−02
|
0.10
|
1.02E−04
|
0.03
|
7.31E−10
|
Prefrontal Cortex
|
cg13076843
|
17
|
74,475,294
| |
+
|
Island
|
Body
|
0.07
|
3.13E−02
|
0.10
|
1.02E−04
|
0.02
|
7.57E−13
|
Cross Cortex
|
cg13076843
|
17
|
74,475,294
| |
+
|
Island
|
Body
|
0.07
|
3.13E−02
|
0.10
|
1.02E−04
|
0.03
|
2.97E−11
|
TG
|
cg12163800
|
17
|
74,475,355
|
RHBDF2
|
+
|
Island
|
Body
|
0.08
|
1.92E−03
|
0.10
|
9.19E−06
|
0.01
|
5.13E−09
|
Cross Cortex
|
cg12163800
|
17
|
74,475,355
|
RHBDF2
|
+
|
Island
|
Body
|
0.08
|
1.92E−03
|
0.10
|
9.19E−06
|
0.02
|
2.06E−08
|
Prefrontal Cortex
|
cg12163800
|
17
|
74,475,355
|
RHBDF2
|
+
|
Island
|
Body
|
0.08
|
1.92E−03
|
0.10
|
9.19E−06
|
0.02
|
5.85E−09
|
TG
|
cg12309456
|
17
|
74,475,402
| |
−
|
Island
|
Body
|
0.09
|
2.46E−02
|
0.10
|
7.68E−06
|
0.02
|
1.33E−08
|
TG
|
cg12309456
|
17
|
74,475,402
| |
−
|
Island
|
Body
|
0.09
|
2.46E−02
|
0.10
|
7.68E−06
|
0.01
|
4.09E−08
|
Cross Cortex
|
cg08481112
|
19
|
2,544,100
|
GNG7
|
+
|
S Shore
|
5′UTR
|
0.07
|
4.81E−05
|
0.03
|
7.27E−02
|
0.02
|
2.84E−08
|
Prefrontal Cortex
|
cg23449541
|
21
|
47,855,893
|
PCNT
|
−
|
Island
|
Body
|
0.04
|
3.16E−02
|
0.07
|
8.45E−06
|
0.01
|
7.49E−08
|
Cross Cortex
|
cg23449541
|
21
|
47,855,893
|
PCNT
|
−
|
Island
|
Body
|
0.04
|
3.16E−02
|
0.07
|
8.45E−06
|
0.02
|
9.43E−11
|
TG
|
cg00621289
|
21
|
47,855,916
|
PCNT
|
−
|
Island
|
Body
|
0.04
|
1.43E−02
|
0.06
|
2.51E−05
|
0.01
|
4.69E−11
|
Cross Cortex
|
- Chr: chromosome; Pos: base pair position in reference to human genome hg19; Gene Annotation: gene annotation in reference to Gencode Basic V12; beta coefficient and p value was reported from the limma robust regression model for this study for each DMP, while the effect size (ES) and corresponding unadjusted p value from the inverse variance fixed effects meta-analysis model was shown for the Smith et al. meta-analysis. In addition, ES from the Smith et al. meta-analysis has been multiplied by six to demonstrate the difference between Braak stage 0 and Braak stage VI samples. This was not done for this study