Chunk #16 — MATERIALS AND METHODS — Part I: Family-based SNP panel — SNP selection

Source

Using genetic information from candidate gene and genome-wide association studies in risk prediction for alcohol dependence.

Embedded

yes

Text

not genotyped on the arrays rather than use imputed SNPs or remove the SNPs altogether. Proxy SNPs on the Illumina chip with an r2 > 0.70 were found for 32 additional SNPs based on LD calculations in the HapMap CEU data using Haploview (Barrett et al., 2005) and PLINK v1.07. An additional 32 SNPs did not have proxies. Seven of these SNPs had proxies in the list of COGA family sample SNPs for which proxy SNPs existed on the Illumina chip, based on LD calculations using Haploview. The final list contained 81 SNPs.