Translating Alzheimer's disease–associated polymorphisms into functional candidates: a survey of IGAP genes and SNPs

Research output: Contribution to journalArticlepeer-review

23 Scopus citations

Abstract

The International Genomics of Alzheimer's Project (IGAP) is a consortium for characterizing the genetic landscape of Alzheimer's disease (AD). The identified and/or confirmed 19 single-nucleotide polymorphisms (SNPs) associated with AD are located on non-coding DNA regions, and their functional impacts on AD are as yet poorly understood. We evaluated the roles of the IGAP SNPs by integrating data from many resources, based on whether the IGAP SNP was (1) a proxy for a coding SNP or (2) associated with altered mRNA transcript levels. For (1), we confirmed that 12 AD-associated coding common SNPs and five nonsynonymous rare variants are in linkage disequilibrium with the IGAP SNPs. For (2), the IGAP SNPs in CELF1 and MS4A6A were associated with expression of their neighboring genes, MYBPC3 and MS4A6A, respectively, in blood. The IGAP SNP in DSG2 was an expression quantitative trait loci (eQTL) for DLGAP1 and NETO1 in the human frontal cortex. The IGAP SNPs in ABCA7, CD2AP, and CD33 each acted as eQTL for AD-associated genes in brain. Our approach for identifying proxies and examining eQTL highlighted potentially impactful, novel gene regulatory phenomena pertinent to the AD phenotype.

Original languageEnglish
Pages (from-to)135-146
Number of pages12
JournalNeurobiology of Aging
Volume74
DOIs
StatePublished - Feb 2019

Bibliographical note

Publisher Copyright:
© 2018 Elsevier Inc.

Keywords

  • ADGC
  • ADSP
  • GWAS
  • Neuroinflammation
  • WES

ASJC Scopus subject areas

  • General Neuroscience
  • Aging
  • Developmental Biology
  • Clinical Neurology
  • Geriatrics and Gerontology

Fingerprint

Dive into the research topics of 'Translating Alzheimer's disease–associated polymorphisms into functional candidates: a survey of IGAP genes and SNPs'. Together they form a unique fingerprint.

Cite this