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Table 1 Variation in estimated additive heritability at three MetS-related CpG methylation loci adjusted (Model 0) and across increasing adjustments for demographic and environmental factors (Models 1–2), in a reduced model of fixed effects, and after including to this reduced model separate variance components for shared early life (Model 3a) and late life environment (Model 3b) in 993 participants from 188 families with all covariates and methylation information at visit 2 in the GOLDN study

From: Characterization of the contribution of shared environmental and genetic factors to metabolic syndrome methylation heritability and familial correlations

Modela Log Likelihood h2 (c2) SE of h2 (c2) P value of h2 (c2) Prop Var Exp by Cov
cg00574958 at CPT1A
 0 − 560.399 0.292 0.064 2E-7
 1 − 513.830 0.325 0.066 2E-8 0.085
 2a − 511.765 0.319 0.066 4E-8 0.089
 2b −509.989 0.311 0.066 1E-7 0.094
 1–2 (Reduced) −511.893 0.316 0.062 1E-7 0.089 (age, age2, sex, age*sex age2*sex, current smoking)
 3a − 510.396 0.251 (0.090) 0.082 (0.055) 1E-3 (4E-2) 0.091
 3b − 508.105 0.359 (0.256) 0.074 (0.087) 1E-8 (3E-3) 0.089
cg17058475 at CPT1A
 0 − 692.475 0.302 0.069 4E-7
 1 − 668.034 0.365 0.071 4E-9 0.038
 2a − 665.591 0.356 0.071 9E-9 0.042
 2b − 662.173 0.351 0.071 1E-8 0.051
 1–2 (Reduced) − 666.050 0.355 0.071 8E-9 0.043 (age, current smoking)
 3a −665.471 0.298 (0.062) 0.092 (0.060) 8E-4 (1E-1) 0.044
 3b NC     
cg18181703 in SOCS3
 0 − 555.561 0.486 0.063 8E-18
 1 − 518.163 0.557 0.063 2E-21 0.055
 2a − 517.421 0.551 0.064 4E-21 0.058
 2b −514.324 0.559 0.063 1E-21 0.062
 1–2 (Reduced) − 515.994 0.566 0.063 3E-22 0.057 (age, age2, center, current and former smoking)
 3a −515.889 0.553 (0.020) 0.071 (0.045) 1E-11 (3E-1) 0.062
 3b −515.663 0.585 (0.085) 0.068 (0.104) 2E-22 (2E-1) 0.060
cg06500161 in ABCG1
 0 − 195.927 0.323 0.070 3E-8
 1 −181.366 0.330 0.069 1E-8 0.028
 2a −177.208 0.313 0.069 1E-7 0.039
 2b −176.433 0.305 0.069 1E-7 0.041
 1–2 (Reduced) − 184.146 0.306 0.069 1E-7 0.026 (sex, center)
 3b NC     
 3c NC     
  1. Abbreviations: c2 Household variance component, h2 heritability variance component, NC nonconvergence of the household variance component model(s), Prop Var Exp by Covar proportion of variance explained by covariates, SNP single nucleotide polymorphisms
  2. aThe fixed covariates introduced in a stepwise fashion across Models 1 (age, age2, sex, age*sex, age2*sex), 2a (center), and 2b (current and former smoking, indicator variables) were then screened at p < 0.1, to yield a reduced model. Then in Models 3a (‘early life’ shared environment, 647 siblings or half-siblings, within 15 years of each other in 255 households) and 3b (‘later life’ shared environment; 128 parents, or in the case of multiple pairings those with the youngest offspring, in 64 households) variance components were separately introduced individually to this reduced model