Genotyping of GABRA2 SNPs

Three GABRA2 SNPs were selected for this study (rs279827, rs279826, and rs279858) to correspond to previous work (e.g., Dick et al., 2009 (link)). For simplicity and clarity, findings focus on SNP rs279827 given previous haplotype analyses conducted on this sample demonstrates high linkage disequilibrium across these SNPs (r² = .80–.92; Villafuerte et al., 2013 (link)). As expected when SNPs are highly correlated, findings were largely consistent across SNPs. SNP rs279827 was chosen for its potential as a functional SNP. It is located next to an acceptor splice site (Tian, Chen, Cross, & Edenberg, 2005 (link)). SNP rs279827 was included in the Illumina Addiction biology SNP array designed by Hodgkinson and colleagues (2008) (link), a panel genotyped in the MLS sample using the Illumina GoldenGate platform (Illumina Inc., San Diego, CA). SNPs rs279826 (intron 4) and rs279858 (exon 5, K132K) were genotyped by Taqman (Villafuerte et al., 2012 (link)). We included duplicates (78 for the array and 12 for the Taqman assay) and no discrepancies were observed. All SNPs were in Hardy–Weinberg equilibrium.

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Trucco E.M., Villafuerte S., Heitzeg M.M., Burmeister M, & Zucker R.A. (2015). Susceptibility effects of GABA receptor subunit alpha-2 (GABRA2) variants and parental monitoring on externalizing behavior trajectories: Risk and protection conveyed by the minor allele. Development and psychopathology, 28(1), 15-26.

Publication 2015

Addiction biology SNP array Illumina GoldenGate platform

Addiction Assay Exon Haplotype Intron Snps

Corresponding Organization :

Other organizations : University of Michigan–Ann Arbor

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Variable analysis

independent variables

Three GABRA2 SNPs (rs279827, rs279826, and rs279858)

dependent variables

Not explicitly mentioned

control variables

Kept all three GABRA2 SNPs in Hardy–Weinberg equilibrium
Included duplicates (78 for the array and 12 for the Taqman assay) with no discrepancies observed

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