Key variants via the Alzheimer's Disease Sequencing Project whole genome sequence data
Wang, Yanbing Sarnowski, Chloé Lin, Honghuang Pitsillides, Achilleas N Heard-Costa, Nancy L Choi, Seung Hoan Wang, Dongyu Bis, Joshua C Blue, Elizabeth E Boerwinkle, Eric
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Abstract
INTRODUCTION: Genome-wide association studies (GWAS) have identified loci associated with Alzheimer's disease (AD) but did not identify specific causal genes or variants within those loci. Analysis of whole genome sequence (WGS) data, which interrogates the entire genome and captures rare variations, may identify causal variants within GWAS loci.
METHODS: We performed single common variant association analysis and rare variant aggregate analyses in the pooled population (N cases = 2184, N controls = 2383) and targeted analyses in subpopulations using WGS data from the Alzheimer's Disease Sequencing Project (ADSP). The analyses were restricted to variants within 100 kb of 83 previously identified GWAS lead variants.
RESULTS: Seventeen variants were significantly associated with AD within five genomic regions implicating the genes OARD1/NFYA/TREML1, JAZF1, FERMT2, and SLC24A4. KAT8 was implicated by both single variant and rare variant aggregate analyses.
DISCUSSION: This study demonstrates the utility of leveraging WGS to gain insights into AD loci identified via GWAS.
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Wang Y, Sarnowski C, Lin H, Pitsillides AN, Heard-Costa NL, Choi SH, Wang D, Bis JC, Blue EE; Alzheimer's Disease Neuroimaging Initiative (ADNI); Boerwinkle E, De Jager PL, Fornage M, Wijsman EM, Seshadri S, Dupuis J, Peloso GM, DeStefano AL; Alzheimer's Disease Sequencing Project (ADSP). Key variants via the Alzheimer's Disease Sequencing Project whole genome sequence data. Alzheimers Dement. 2024 May;20(5):3290-3304. doi: 10.1002/alz.13705. Epub 2024 Mar 21. PMID: 38511601; PMCID: PMC11095439.