Table 1.

Computed SNP-based Heritability of PTSD and Alcohol Phenotypes – EA and AA

Phenotype	Data Source (n)	Scale	Sample Prev.	Population Prev.	$h_{\text{SNP}}^2$	s.e.	95% CI LB	95% CI UB	Z $h_{\text{SNP}}^2$	p value $h_{\text{SNP}}^2$	FDR-adjusted p value $h_{\text{SNP}}^2$	Estimate from Original Publication European Ancestry (EA)
							European Ancestry (EA)
DPW	GSCAN and UKB (n = 941 280)	Obs.	–	–	0.048	0.002	0.044	0.052	24.00	2.78 × 10−127	5.28 × 10−126*	Not Reported ((Liu et al., 2019)
DPW	GSCAN (n = 526 937)	Obs.	–	–	0.040	0.003	0.034	0.046	13.33	1.48 × 10−40*	4.02 × 10−40*	0.042 [0.002] (Liu et al., 2019)
DPW	UKB (n = 414 343)	Obs.	–	–	0.069	0.003	0.058	0.074	16.50	3.67 × 10−61*	2.32 × 10−60*	0.74 [0.009], 0.79 [0.004](Liu et al., 2019)
AUDIT-C	MVP (n = 206 254)	Obs.	–	–	0.068	0.005	0.058	0.078	13.60	4.00 × 10−42*	1.27 × 10−41*	0.068 [0.005] (Kranzler et al., 2019)
AUDIT-C	UKB (n = 121 604)	Obs.	–	–	0.084	0.006	0.072	0.096	14.00	1.56 × 10−44*	7.40 × 10−44*	0.084 [0.0055] (Sanchez-Roige et al., 2019)
AUDIT-T	23andMe (n = 20 328)	Obs.	–	–	0.089	0.025	0.040	0.138	3.56	3.71 × 10−4*	4.70 × 10−4*	Not reported (Sanchez-Roige et al., 2019)
AUDIT-T	UKB (n = 121 604)	Obs.	–	–	0.059*	0.005	0.049	0.069	11.80	3.90 × 10−32*	7.42 × 10−32*	0.086 [0.005] (Sanchez-Roige et al., 2019)
Max. Alc.	MVP (n = 126 938)	Obs.	–	–	0.078	0.006	0.066	0.090	13.00	1.22 × 10−38*	2.91 × 10−38*	0.078 [(Gelernter et al., 2019a)
AUDIT-P	UKB (n = 121 604)	Obs.	–	–	0.059	0.005	0.049	0.069	11.80	3.90 × 10−32*	7.42 × 10−32*	0.059 [0.048] (Sanchez-Roige et al., 2019)
AUD	MVP1n2 (n = 267 391)	Liab.	0.183	0.159	0.108*	0.006	0.096	0.120	18.00	1.95 × 10−72*	1.85 × 10−71*	0.056 [0.004] (Kranzler et al., 2019)
AD	PGC (n = 46 568)	Liab.	0.248	0.159	0.093	0.021	0.052	0.134	4.43	9.49 × 10−6*	1.50 × 10−5*	0.090 [0.019] (Walters et al., 2018)
PTSD Re-Exp	MVP (n = 146 660)	Obs.	–	–	0.068	0.005	0.058	0.078	13.60	4.00 × 10−42*	1.27 × 10−41*	0.067[S.E.:.005] (Gelernter et al., 2019b)
PTSD	PGC (n = 174 659)	Liab.	0.157	0.100	0.082*	0.015	0.053	0.111	5.47	4.59 × 10−8*	7.92 × 10−8*	0.04 [95% CI 0.02–0.05] (Nievergelt et al., 2019)
										African Ancestry (AA)
AUDIT-C	MVP (n = 56 495)	Obs.	–	–	0.061	0.016	0.030	0.092	3.81	1.38 × 10−4*	1.87 × 10−4*	0.062 [0.016] (Kranzler et al., 2019)
Max. Alc.	MVP (n = 17 029)	Obs.	–	–	0.086	0.041	0.006	0.166	2.10	3.59 × 10−2*	4.02 × 10−2*	Not Reported (Gelernter et al., 2019a)
AUD	MVP (n = 56 648)	Liab.	0.305	0.159	0.136	0.033	0.071	0.201	4.12	3.77 × 10−5*	5.51 × 10−5*	0.100 [0.022] (Kranzler et al., 2019)
AD	PGC (n = 6280)	Liab.	0.531	0.111	0.277	0.164	−0.044	0.598	1.69	9.12 × 10−2	9.63 × 10−2	Unstable/Not Reported (Walters et al., 2018)
PTSD Re-Exp	MVP (n = 19 983)	Obs.	–	–	0.067	0.041	−0.013	0.147	1.63	1.02 × 10−1	1.02 × 10−1	0.048 [s.e.:0.039] (Gelernter et al., 2019b)
PTSD	PGC (n = 15 339)	Liab.	0.284	0.100	0.193*	0.072	0.052	0.334	2.68	7.35 × 10−3*	8.73 × 10−3*	0.02 [95%CI−0.04 to 0.09] (Nievergelt et al., 2019; note: this was using GCTA not LDSC)

Note: SNP, Single Nucleotide Polymorphism; PTSD, Posttraumatic Stress Disorder; EA, European ancestry; AA, African ancestry; h², Heritability; S.E., standard error; CIs, confidence intervals; LB, lower bound; UB, upper bound; Z, z-score; Re-Exp, reexperiencing; MVP, Million Veteran Program; AD, Alcohol Dependence; AUD, Alcohol Use Disorder; Max. Alc., Maximum Alcohol Intake; AUDIT, Alcohol Use Disorder Identification Test; T, total; P, problems; C, consumption; DPW, Drinks per Week; UKB, UK Biobank; GSCAN, GWAS & Sequencing Consortium of Alcohol and Nicotine Use; PGC, Psychiatric Genomics Consortium; Liab., Liability; Obs., Observed; Prev., Prevalence. Sample and population prevalence were used for analyses including binary traits to correct for ascertainment bias. $h_{\text{SNP}}^2$ estimates in this study were computed using LDSC software and the corresponding GWAS summary statistics. For estimates from the original publications, S.E.s are included when provided in text and when unavailable, 95% CIs were included. When neither was provided in the original manuscript, neither is presented in the table. Four $h_{\text{SNP}}^2$ estimates (noted with an asterisk) are different than those from the original publications. The differences are likely due to additional filtering (see Method section), in addition to effective sample sizes calculations (see Method section) that take in account differences in ascertainment of unbalanced cohorts in the case of the three $h_{\text{SNP}}^2$ estimates under the liability scale with an asterisk. Estimates of $h_{\text{SNP}}^2$ with z-scores less than 4 are noted with shading. Unadjusted and false-discovery rate (FDR) adjusted p values < 0.05 are noted by one asterisk on their corresponding columns.