Functional and genetic analysis of haplotypic sequence variation at the nicastrin genomic locus

the Genetic and Environmental Risk for Alzheimer’s Disease (GERAD1) Consortium, the Translational Genomics Research Institute (TGen) Consortium, the European Alzheimer Disease Initiative (EADI)

Research output: Contribution to journalArticlepeer-review

4 Scopus citations


Nicastrin (NCSTN) is a component of the γ-secretase complex and therefore potentially a candidate risk gene for Alzheimer's disease. Here, we have developed a novel functional genomics methodology to express common locus haplotypes to assess functional differences. DNA recombination was used to engineer 5 bacterial artificial chromosomes (BACs) to each express a different haplotype of the NCSTN locus. Each NCSTN-BAC was delivered to knockout nicastrin (Ncstn-/-) cells and clonal NCSTN-BAC+/Ncstn-/- cell lines were created for functional analyses. We showed that all NCSTN-BAC haplotypes expressed nicastrin protein and rescued γ-secretase activity and amyloid beta (Aβ) production in NCSTN-BAC+/Ncstn-/- lines. We then showed that genetic variation at the NCSTN locus affected alternative splicing in human postmortem brain tissue. However, there was no robust functional difference between clonal cell lines rescued by each of the 5 different haplotypes. Finally, there was no statistically significant association of NCSTN with disease risk in the 4 cohorts. We therefore conclude that it is unlikely that common variation at the NCSTN locus is a risk factor for Alzheimer's disease.

Original languageEnglish (US)
Pages (from-to)1848.e1-1848.e13
JournalNeurobiology of aging
Issue number8
StatePublished - Aug 1 2012


  • Alzheimer's disease
  • Functional genomics
  • Haplotype variation
  • Nicastrin
  • γ-Secretase complex

ASJC Scopus subject areas

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


Dive into the research topics of 'Functional and genetic analysis of haplotypic sequence variation at the nicastrin genomic locus'. Together they form a unique fingerprint.

Cite this