Format

Send to

Choose Destination
See comment in PubMed Commons below
Am J Hum Genet. 2007 Nov;81(5):895-905. Epub 2007 Sep 12.

A randomization test for controlling population stratification in whole-genome association studies.

Author information

1
Computer Science Division, University of California Berkeley, Berkeley, CA 94720, USA. kimmel@cs.berkeley.edu

Abstract

Population stratification can be a serious obstacle in the analysis of genomewide association studies. We propose a method for evaluating the significance of association scores in whole-genome cohorts with stratification. Our approach is a randomization test akin to a standard permutation test. It conditions on the genotype matrix and thus takes into account not only the population structure but also the complex linkage disequilibrium structure of the genome. As we show in simulation experiments, our method achieves higher power and significantly better control over false-positive rates than do existing methods. In addition, it can be easily applied to whole-genome association studies.

PMID:
17924333
PMCID:
PMC2265648
DOI:
10.1086/521372
[Indexed for MEDLINE]
Free PMC Article
PubMed Commons home

PubMed Commons

0 comments
How to join PubMed Commons

    Supplemental Content

    Full text links

    Icon for Elsevier Science Icon for PubMed Central
    Loading ...
    Support Center