NG00088 - GWAS Summary Statistics of informed conditioning analysis in African Americans- Mez et al. (2017)

The dataset contains the genome-wide association study (GWAS) summary-level statistics after meta-analyzing GWAS results from 8 parent studies with African American sample. The 1825 LOAD cases and 3784 cognitively normal controls for the meta-analysis were assembled by the Alzheimer's Disease Genetic Consortium (ADGC). The detail information for sample recruitment, genotyping, imputation, QC, etc. has been reported previously (Mez et al. Alzheimers Dement. 2017).

GWAS was performed separately in each study. First, we derived a posterior liability for affection (AD) status conditioned on age, sex, diabetes status, current smoking status, and educational attainment with parameters informed by external prevalence information. To do this, we used the software LTSC (Zaitlen et al. PLoS Genet. 2012). Then, we assessed association between the posterior liability and a genome-wide set of single-nucleotide polymorphisms (SNPs), controlling for PCs of population structure, APOE and ABCA7. The additive genetic effect of each SNP after imputation was estimated using regression analysis.

SNP effect estimates and their SEs were combined by a fixed effect model with inverse variance weighted method using the METAL software. After the meta-analysis, the SNPs with available estimates in at least half of the data sets are reported.

The p-value data is generally available to all users using the link below; however, gaining access to the complete dataset requires a formal data request.