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Linkage disequilibrium and haplotype tagging polymorphisms in the Tau H1 haplotype.

Publication ,  Journal Article
Oliveira, SA; Scott, WK; Zhang, F; Stajich, JM; Fujiwara, K; Hauser, M; Scott, BL; Pericak-Vance, MA; Vance, JM; Martin, ER
Published in: Neurogenetics
September 2004

We and others have previously detected association of the Tau H1 haplotype on chromosome 17 with risk of idiopathic Parkinson disease (PD). The H1 haplotype appears to have a fundamental importance in neurodegeneration, as multiple studies have shown it is also associated with an increased risk for progressive supranuclear palsy, corticobasal degeneration, frontotemporal lobar degeneration syndromes, and primary progressive aphasia. Therefore, to divide the H1 haplotype into sub-haplotypes that could be more significantly associated with the risk of developing PD, and to delimit the genes lying in the H1 haplotype, we analyzed 34 single nucleotide polymorphisms (SNPs) spanning over 3.15 megabases in the region containing Tau. These SNPs are located in or flank the corticotropin-releasing hormone receptor 1, presenilin homolog 2, Tau, Saitohin, and KIAA1267 genes. Analysis of linkage disequilibrium (LD) using these 34 SNPs suggests that the H1 haplotype extends over about 1.3 megabases, making it the largest region of LD reported to date. Of the 29 SNPs lying in this region of LD, 5 were identified as "haplotype tagging" SNPs (htSNPs), capturing 96% of the sample's haplotype diversity. Association analysis with these htSNPs revealed a new H1 sub-haplotype that is significantly associated with PD ( P<0.02). These results define the genes and regulatory regions included in this region of LD, containing an important susceptibility allele contributing to increased risk of neurodegeneration.

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Published In

Neurogenetics

DOI

ISSN

1364-6745

Publication Date

September 2004

Volume

5

Issue

3

Start / End Page

147 / 155

Location

United States

Related Subject Headings

  • tau Proteins
  • Receptors, Corticotropin-Releasing Hormone
  • Presenilin-2
  • Polymorphism, Single Nucleotide
  • Polymorphism, Genetic
  • Pedigree
  • Parkinson Disease
  • Neurology & Neurosurgery
  • Neurodegenerative Diseases
  • Models, Genetic
 

Citation

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Oliveira, S. A., Scott, W. K., Zhang, F., Stajich, J. M., Fujiwara, K., Hauser, M., … Martin, E. R. (2004). Linkage disequilibrium and haplotype tagging polymorphisms in the Tau H1 haplotype. Neurogenetics, 5(3), 147–155. https://doi.org/10.1007/s10048-004-0180-5
Oliveira, Sofia A., William K. Scott, Fengyu Zhang, Jeffrey M. Stajich, Kenichiro Fujiwara, Michael Hauser, Burton L. Scott, Margaret A. Pericak-Vance, Jeffery M. Vance, and Eden R. Martin. “Linkage disequilibrium and haplotype tagging polymorphisms in the Tau H1 haplotype.Neurogenetics 5, no. 3 (September 2004): 147–55. https://doi.org/10.1007/s10048-004-0180-5.
Oliveira SA, Scott WK, Zhang F, Stajich JM, Fujiwara K, Hauser M, et al. Linkage disequilibrium and haplotype tagging polymorphisms in the Tau H1 haplotype. Neurogenetics. 2004 Sep;5(3):147–55.
Oliveira, Sofia A., et al. “Linkage disequilibrium and haplotype tagging polymorphisms in the Tau H1 haplotype.Neurogenetics, vol. 5, no. 3, Sept. 2004, pp. 147–55. Pubmed, doi:10.1007/s10048-004-0180-5.
Oliveira SA, Scott WK, Zhang F, Stajich JM, Fujiwara K, Hauser M, Scott BL, Pericak-Vance MA, Vance JM, Martin ER. Linkage disequilibrium and haplotype tagging polymorphisms in the Tau H1 haplotype. Neurogenetics. 2004 Sep;5(3):147–155.
Journal cover image

Published In

Neurogenetics

DOI

ISSN

1364-6745

Publication Date

September 2004

Volume

5

Issue

3

Start / End Page

147 / 155

Location

United States

Related Subject Headings

  • tau Proteins
  • Receptors, Corticotropin-Releasing Hormone
  • Presenilin-2
  • Polymorphism, Single Nucleotide
  • Polymorphism, Genetic
  • Pedigree
  • Parkinson Disease
  • Neurology & Neurosurgery
  • Neurodegenerative Diseases
  • Models, Genetic