Genome-wide and gene-based association implicates FRMD6 in alzheimer disease

Hong MG, Reynolds CA, Feldman AL, Kallin M, Lambert JC, Amouyel P, Ingelsson E, Pedersen NL, Prince JA

Human Mutation 33 (3) 521-529 [2012-03-00; online 2012-01-23]

Genome-wide association studies (GWAS) that allow for allelic heterogeneity may facilitate the discovery of novel genes not detectable by models that require replication of a single variant site. One strategy to accomplish this is to focus on genes rather than markers as units of association, and so potentially capture a spectrum of causal alleles that differ across populations. Here, we conducted a GWAS of Alzheimer disease (AD) in 2,586 Swedes and performed gene-based meta-analysis with three additional studies from France, Canada, and the United States, in total encompassing 4,259 cases and 8,284 controls. Implementing a newly designed gene-based algorithm, we identified two loci apart from the region around APOE that achieved study-wide significance in combined samples, the strongest finding being for FRMD6 on chromosome 14q (P = 2.6 × 10(-14)) and a weaker signal for NARS2 that is immediately adjacent to GAB2 on chromosome 11q (P = 7.8 × 10(-9)). Ontology-based pathway analyses revealed significant enrichment of genes involved in glycosylation. Results suggest that gene-based approaches that accommodate allelic heterogeneity in GWAS can provide a complementary avenue for gene discovery and may help to explain a portion of the missing heritability not detectable with single nucleotide polymorphisms (SNPs) derived from marker-specific meta-analysis.

NGI Uppsala (SNP&SEQ Technology Platform)

National Genomics Infrastructure

PubMed 22190428

DOI 10.1002/humu.22009

Crossref 10.1002/humu.22009

mid: NIHMS344656
pmc: PMC3326347

Publications 9.5.0