Table 1 Meta-analysis of GWAS of epigenetic age acceleration in blood

From: GWAS of epigenetic aging rates in blood reveals a critical role for TERT

       

Fixed-effects

Trans-ethnic

Band

N GWAS

SNP

Gene

Mb

A1/A2

MAF

Stage

Beta (SE)

P-value

I 2

\({{\rm log}}_{10}{{\rm BF}}\)

P HET.

IEAA

3q25.33

23

rs11706810

TRIM59

160.2

C/T

0.45

EUR

0.40 (0.07)

2.8 × 10−8

   
       

Non-EUR

0.44 (0.19)

1.8 × 10−2

   
       

Combined

0.41 (0.07)

1.6 × 10−9

3%

7.5

0.26

5p15.33

11

rs2736099

TERT

1.3

A/G

0.36

EUR

0.64 (0.09)

4.7 × 10−12

   
       

Non-EUR

0.50 (0.30)

9.9 × 10−2

   
       

Combined

0.63 (0.09)

1.3 × 10−12

0%

10.6

0.47

6p22.3

104

rs143093668a

KIF13A-NHLRC1

18.1

T/C

0.05

EUR

−1.78 (0.10)

1.9 × 10−21

   
       

Non-EUR

−1.37 (0.33)

2.4 × 10−5

   
       

Combined

−1.68 (0.16)

4.2 × 10−25

58%

23.1

0.64

  

rs6915893b,c

KIF13A-NHLRC1

18.1

T/C

0.39

EUR

0.56 (0.08)

5.1 × 10−13

   
       

Non-EUR

0.33 (0.17)

5.8 × 10−2

   
       

Combined

0.52 (0.07)

1.6 × 10−13

27%

11.4

0.34

6p22.2

108

rs73397619d

LRRC16A-SCGN

25.6

C/T

0.29

EUR

−0.46 (0.08)

5.9 × 10−9

   
       

Non-EUR

−0.46 (0.18)

1.2 × 10−2

   
       

Combined

−0.46 (0.03)

2.3 × 10−10

18%

8.3

0.32

17q22

18

rs78781855

STXBP4

53.1

G/T

0.22

EUR

−0.42 (0.09)

1.6 × 10−6

   
       

Non-EUR

−0.88 (0.23)

1.5 × 10−4

   
       

Combined

−0.47 (0.08)

5.6 × 10−9

26%

7.2

0.45

EEAA

4p16.3

59

rs10937913

TNIP2

2.8

A/G

0.46

EUR

−0.60 (0.01)

3.8 × 10−10

   
       

Non-EUR

−0.56 (0.23)

1.4 × 10−2

   
       

Combined

−0.59 (0.09)

1.7 × 10−11

0%

9.2

0.24

10p11.21

59

rs71007656

ANKRD30A-ZNF248

40.0

R/Ie

0.49

EUR

0.61 (0.1−)

1.1 × 10−9

   
       

Non-EUR

0.52 (0.22)

2.0 × 10−2

   
       

Combined

0.59 (0.09)

7.5 × 10−11

0%

8.5

0.29

10p11.1

322

rs1005277

ZNF248-ZNF25

38.2

A/C

0.28

EUR

0.78 (0.11)

2.6 × 10−13

   
       

Non-EUR

0.45 (0.29)

1.1 × 10−1

   
       

Combined

0.74 (0.10)

1.2 × 10−13

32%

11.5

0.32

  1. Position Mb based on Hg19 assembly
  2. Lead SNPs at genome-wide significant (P  < 5.0 × 10−8) loci for IEAA or EEAA. Epigenetic Clock CpGs that co-locate within  ±1 Mb of the leading variant are listed in the footnote. Fixed effects meta-analysis was used to estimate the effect size (Beta) and standard error (SE) on IEAA or EEAA per minor allele. Trans-ethnic analyses using MANTRA21 present ethnicity-adjusted associations (log10 Bayes’ Factor (BF) and probability of heterogeneity across studies (PHET.)
  3. NGWAS = number of GWAS markers, A1/A2 = minor/major alleles, MAF = mean of minor allele frequency estimates across studies weighted by study sample sizes, I2 = Cochran’s I2. Beta estimate is the regression coefficient with respect to each extra minor allele
  4. a The CpG predictor cg22736354 for epigenetic clock is located 8.5 kb from the leading variant
  5. b The CpG predictor cg22736354 for epigenetic clock is located 12.2 kb from the leading variant
  6. c Conditional analysis on rs143093668 (LD EUR r2 = 0.02): Beta(SE) = 0.39 (0.069) with effect size dropped 26% and conditional Meta P-value at combined phase = 2.6 × 10−8
  7. d The CpG predictor cg06493994 for epigenetic clock is located 27.8 kb from the leading variant
  8. e Reference/insertion alleles = C/CGGCTG
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