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. Author manuscript; available in PMC: 2016 Jun 16.
Published in final edited form as: Hum Hered. 2014 Jul 8;78(1):47–58. doi: 10.1159/000363411

Table 7.

Genotype class specific mean values for the diabetes and metabolic phenotypes that were associated with common SNPs

Gene SNP Phenotype Major/major Major/minor Minor/minor Change of
direction		 p value
ADCY5 rs11708067d HbA1c −0.05±0.06 −0.14±0.05 −0.22±0.10 ↓ 0.0031
CDKN2A/B rs10811661d Matsuda index 1.529±0.046 1.531±0.066 1.533±0.127 ↑ 0.0090
FADS1 rs174550 TG 4.92±0.05 4.83±0.04 4.74±0.05 ↓ 0.0023
FADS1 rs174550 VLDL 3.07±0.04 2.99±0.04 2.91±0.05 ↓ 0.0056
FTO rs3751812a,d BMI 3.33±0.02 3.38±0.02 3.43±0.03 ↑ 0.0010
FTO rs3751812a,d FPI −0.09±0.06 0.13±0.07 0.34±0.14 ↑ 0.0085
FTO rs3751812a,d HC 0.01±0.07 0.26±0.08 0.50±0.12 ↑ 0.0002
FTO rs3751812a,d HOMA IR −0.08±0.06 0.13±0.07 0.35±0.14 ↑ 0.0085
FTO rs3751812a,d WC 4.56±0.01 4.60±0.01 4.63±0.02 ↑ 0.0023
G6PC2 rs560887d FPG 0.40±0.07 0.16±0.09 −0.09±0.17 ↓ 0.0049
G6PC2 rs560887d HOMA IR 0.08±0.06 −0.19±0.10 −0.46±0.19 ↓ 0.0115
GCK rs4607517d FPG 0.26±0.07 0.52±0.08 0.77±0.13 ↑ 0.0004
GCK rs4607517d HbA1c −0.22±0.06 0.07±0.06 0.36±0.12 ↑ 4.0 × 10−5
MADD rs7944584d FPG 0.43±0.07 0.15±0.09 −0.13±0.17 ↓ 0.0020
MADD rs7944584 HDL 41.36±0.77 40.72±1.00 40.08±1.77 ↓ 0.0074
MADD rs7944584 WC 4.579±0.009 4.581±0.013 4.583±0.025 ↑ 0.0053
MTNR1B rs10830963d Disposition index −0.06±0.09 −0.26±0.10 −0.46±0.16 ↓ 0.0105
MTNR1B rs10830963d FPG 0.29±0.07 0.47±0.08 0.65±0.13 ↑ 0.0109
MTNR1B rs10830963d TG 4.84±0.04 4.86±0.04 4.89±0.07 ↑ 0.0018
MTNR1B rs10830963 VLDL 3.004±0.040 3.003±0.042 3.002±0.066 ↓ 0.0015
PROX1 rs340874 HbA1c −0.07±0.07 −0.12±0.05 −0.18±0.09 ↓ 0.0053
SLC2A2 rs11920090d FPI 0.07±0.06 −0.17±0.09 −0.42±0.18 ↓ 0.0138
SLC2A2 rs11920090d HDL 40.52±0.76 43.14±1.00 45.75±1.78 ↑ 0.0050
SLC30A8 rs13266634b BMI 3.34±0.02 3.36±0.02 3.38±0.03 ↑ 0.0013
SLC30A8 rs13266634b HC 0.08±0.08 0.15±0.08 0.21±0.12 ↑ 0.0060
SLC30A8 rs13266634b WC 4.57±0.01 4.59±0.01 4.60±0.02 ↑ 0.0031
TCF7L2 rs7903146c ALT 3.47±0.05 3.39±0.05 3.33±0.07 ↓ 0.0049
TCF7L2 rs7903146c BMI 3.354±0.019 3.351±0.020 3.349±0.028 ↓ 0.0102
TCF7L2 rs7903146c HDL 40.70±0.79 41.77±0.82 42.83±1.34 ↑ 0.0042
TCF7L2 rs7903146c TG 4.90±0.04 4.79±0.04 4.69±0.07 ↓ 0.0027
TCF7L2 rs7903146c VLDL 3.05±0.04 2.96±0.04 2.87±0.06 ↓ 0.0068
THADA rs7578597 Chol 176.92±2.87 177.47±4.77 178.03±8.74 ↑ 8.8 × 10−5
THADA rs7578597 DBP 76.89±0.83 77.56±0.88 78.24±1.29 ↑ 0.0048
THADA rs7578597 LDL 108.62±2.40 108.98±3.97 109.34±7.28 ↑ 0.0003

Both corrected (p ≤ 0.0015; in bold) and uncorrected (p ≤ 0.01) p values for multiple testing by trait are shown; for HbA1c, HC, FPI, HOMA IR, FPG and disposition index, inverse normalized values are shown; for TG, VLDL, BMI, WC, Matsuda index and ALT, log transformed values are shown.

a

Strong LD with r2 ranging from 0.87 to 0.98.

b

Strong LD with r2 = 0.90.

c

Strong LD with r2 ranging from 0.86 to 0.99.

d

Of the 34 significant (p ≤ 0.01) associations shown, 17 were found to replicate the same direction of association (i.e. same risk allele) as the one identified in the original GWAS or candidate gene studies (online suppl. table 1).