Table 1.
Heritability estimates using both mixed linear model (GCTA) and Bayesian model (Bayes) with the standard GRM and the weighted GRM (wGRM) when both disease prevalence and sex were taken into account, and for GCTA when using an adjusted scale parameter (S=0) to account for the uncertainty around minor allele frequency and variant effect size
| GCTA GRM | Bayes GRM | GCTA wGRM | Bayes wGRM | S=0 GRM | S=0 wGRM | |
|---|---|---|---|---|---|---|
| TB cohort | ||||||
| h 2 | 0.34 | 0.34 | 0.42 | 0.42 | 0.41 | 0.46 |
| SE/SD | 0.12 | 0.11 | 0.12 | 0.11 | 0.12 | 0.14 |
| P-value | 2.320e-04 | 1.010e-05 | 3.111e-05 | 4.320e-05 | ||
| STDB cohort | ||||||
| h 2 | 0.45 | 0.45 | 0.39 | 0.39 | 0.45 | 0.41 |
| SE/SD | 0.27 | 0.20 | 0.26 | 0.20 | 0.27 | 0.27 |
| P-value | 3.563e-03 | 1.786e-02 | 3.530e-03 | 1.801e-02 | ||