Effects of marker information on sib‐pair linkage analysis of a rare disease

Jeannette F. Korczak, Elizabeth W. Pugh, Smita Premkumar, Xiuqing Guo, Robert C. Elston, Joan E. Bailey‐Wilson

Research output: Contribution to journalArticlepeer-review

Abstract

Model‐free sib‐pair linkage analysis was used to screen the GAW9 ‐ Problem 1 data set for evidence of linkage of a rare disease to any of 360 highly polymorphic marker loci. Negative regressions nominally significant at the α = 0.05 level were obtained for 44 markers; however all of these proved to be Type I errors. None of the four disease loci were detected by sib‐pair linkage, which was not surprising, given the particular model and sampling scheme used to generate these data. Neither deleting parental marker genotypic information nor misspecifying marker allele frequency estimates substantially increased the Type I error rate. A two‐stage testing procedure using a 10 or 20 cM map and a liberal first stage significance level gave the same overall results as a one‐stage 2 cM map but required only about 42% or 22% as many markers, respectively. ©1995 Wiley‐Liss, Inc.

Original languageEnglish (US)
Pages (from-to)625-630
Number of pages6
JournalGenetic epidemiology
Volume12
Issue number6
DOIs
StatePublished - 1995

Keywords

  • allele frequencies
  • marker spacing
  • two‐stage linkage testing procedure

ASJC Scopus subject areas

  • Epidemiology
  • Genetics(clinical)

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