Statistical models for haplotype sharing in case-parent trio data.


Journal Article

BACKGROUND: Haplotype sharing statistics have been introduced in an ad-hoc way, often relying heavily on permutation testing. As a result, applying these approaches to whole genome association studies or to evaluate their properties in extensive simulation experiments is problematic. Further, permutation testing may be inappropriate in the presence of phase ambiguity and population stratification. AIMS: To present a simple framework for a class of haplotype sharing statistics useful for association mapping in case-parent trio data. This framework allows derivation of novel haplotype sharing tests as well as simple variance estimators and asymptotic distributions for haplotype sharing tests. RESULTS AND CONCLUSIONS: We validated that our approach is appropriately sized using simulated data, and illustrate the methodology by analyzing a Crohn's disease dataset. We find that haplotype-based analyses are much more powerful than single-locus analyses for these data.

Full Text

Duke Authors

Cited Authors

  • Allen, AS; Satten, GA

Published Date

  • 2007

Published In

Volume / Issue

  • 64 / 1

Start / End Page

  • 35 - 44

PubMed ID

  • 17483595

Pubmed Central ID

  • 17483595

International Standard Serial Number (ISSN)

  • 0001-5652

Digital Object Identifier (DOI)

  • 10.1159/000101421


  • eng

Conference Location

  • Switzerland