Table 5.
Concordance between present and previous associations between beta power and GABRA2
| SNP | Position | COGA
|
Lydall | MCTFR
|
LD r2 | |||
|---|---|---|---|---|---|---|---|---|
| AUD | Beta | t-statistic | p-value | impute r2 | ||||
| rs561779 | 46238778 | .048 | .044 | −2.37 | .018 | .999 | .870 | |
| rs572227 | 46251393 | .038 | .019 | −2.20 | .028 | 1.000 | .872 | |
| rs573400 | 46252066 | .062 | .270 | −2.20 | .028 | 1.000 | .872 | |
| rs481311 | 46254382 | .076 | .170 | −2.22 | .027 | .999 | .867 | |
| rs532780 | 46261366 | .079 | .016 | −2.25 | .025 | .998 | .872 | |
| rs548583 | 46263344 | .012 | .028 | .018 | −2.26 | .024 | .998 | .872 |
| rs496650 | 46264385 | .054 | .750 | −2.25 | .024 | .998 | .872 | |
| rs540363 | 46274246 | .044 | .490 | −2.22 | .026 | .998 | .872 | |
| rs526752 | 46276629 | .120 | .070 | −2.23 | .026 | .998 | .870 | |
| rs530329 | 46281119 | .034 | .048 | −2.23 | .026 | 1.000 | .872 | |
| rs483160 | 46287075 | .150 | .036 | −2.35 | .019 | .986 | .900 | |
| rs279871 | 46305733 | <.001 | .049 | .039 | ||||
| rs279867 | 46308303 | .240 | .050 | −2.32 | .021 | 1.000 | .903 | |
| rs279866 | 46309764 | .029 | .037 | |||||
| rs279863 | 46313022 | .017 | .011 | .027 | −2.32 | .021 | 1.000 | .872 |
| rs279861 | 46313325 | .037 | .045 | −2.32 | .021 | 1.000 | .872 | |
| rs279858 | 46314593 | .009 | .220 | .064 | −2.47 | .014 | .960 | .903 |
| rs175931 | 46316323 | .100 | .071 | −2.31 | .021 | 1.000 | .903 | |
| rs279843 | 46325204 | .049 | .300 | −2.24 | .025 | .990 | .840 | |
| rs279846 | 46329886 | .017 | .012 | −1.96 | .050 | .990 | .721 | |
| rs279826 | 46334209 | .001 | .250 | −1.91 | .057 | .995 | .747 | |
| rs279828 | 46334810 | .009 | .020 | −1.91 | .056 | .996 | .781 | |
| rs279834 | 46338299 | .015 | .027 | −1.62 | .104 | .999 | .777 | |
| rs279836 | 46339070 | .007 | .007 | .064 | .837 | |||
| rs279837 | 46339323 | .035 | .064 | −1.62 | .105 | 1.000 | .840 | |
| rs279841 | 46340763 | .038 | .018 | .018 | −1.62 | .105 | 1.000 | .843 |
| rs189957 | 46346679 | .053 | .270 | −1.82 | .069 | .998 | .781 | |
| rs1442061 | 46371220 | .370 | .240 | 0.31 | .756 | .997 | .064 | |
| rs1442062 | 46377076 | .220 | .130 | 0.31 | .756 | .999 | .060 | |
| rs3756007 | 46391064 | .990 | .980 | −0.02 | .984 | .963 | .088 | |
| rs894269 | 46393612 | .097 | .840 | 0.19 | .849 | .776 | .014 | |
| rs1545234 | 46404413 | .410 | .620 | −1.88 | .060 | .968 | .015 | |
Note: AUD indicates alcohol dependence. Lydall gives the p-values for beta power from Table 3 in Lydall et al. (2011). t-statistic is the test statistic for association with beta power in the MCTFR sample, p-value its corresponding significance level, and “impute r2” is the imputation accuracy. SNPs in the table are all SNPs reported in Edenberg et al. (2004) that were also analyzed by Lydall et al. or here. Base pair locations were converted from Edenberg et al. to the GRCh37 (hg19) assembly using the lift Over software utility from the UCSC Genome Bioinformatics website. “LD r2” gives the median LD between each SNP and all others (in the HapMap CEU population), as determined by the program WGA Viewer (Ge et al., 2008). The majority of SNPs are characterized by strong LD. SNPs significantly associated with beta activity in Edenberg et al. (2004) and in the present investigation are shaded gray.