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Am J Hum Genet. 2007 Aug;81(2):208-27. Epub 2007 Jul 3.

A Bayesian measure of the probability of false discovery in genetic epidemiology studies.

Author information

1
Department of Biostatistics, University of Washington, Seattle, WA 98195, USA. jonno@u.washington.edu

Erratum in

  • Am J Hum Genet. 2008 Sep;83(3):424.

Abstract

In light of the vast amounts of genomic data that are now being generated, we propose a new measure, the Bayesian false-discovery probability (BFDP), for assessing the noteworthiness of an observed association. BFDP shares the ease of calculation of the recently proposed false-positive report probability (FPRP) but uses more information, has a noteworthy threshold defined naturally in terms of the costs of false discovery and nondiscovery, and has a sound methodological foundation. In addition, in a multiple-testing situation, it is straightforward to estimate the expected numbers of false discoveries and false nondiscoveries. We provide an in-depth discussion of FPRP, including a comparison with the q value, and examine the empirical behavior of these measures, along with BFDP, via simulation. Finally, we use BFDP to assess the association between 131 single-nucleotide polymorphisms and lung cancer in a case-control study.

PMID:
17668372
PMCID:
PMC1950810
DOI:
10.1086/519024
[Indexed for MEDLINE]
Free PMC Article

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