A Bayesian measure of the probability of false discovery in genetic epidemiology studies.
paper
Cited
Public
Unavailable
- Authors
- Wakefield, Jon
- Year
- 2007
- Journal
- American journal of human genetics
- PMID
- 17668372
- DOI
- 10.1086/519024
- PMCID
- PMC1950810
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.
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| Field Synopsis and Re-analysis of Systematic Meta-analyses of Genetic Association Studies in Multiple Sclerosis: a Bayesian Approach. | Park JH et al. | β | 2018 | β |
| Fine-mapping and functional studies highlight potential causal variants for rheumatoid arthritis and type 1 diabetes. | Westra HJ et al. | β | 2018 | β |
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| Identification of nine new susceptibility loci for endometrial cancer. | O'Mara TA et al. | β | 2018 | β |
| Influence of obesity-related risk factors in the aetiology of glioma. | Disney-Hogg L et al. | β | 2018 | β |
| Insights into the genetic epidemiology of Crohn's and rare diseases in the Ashkenazi Jewish population. | Rivas MA et al. | β | 2018 | β |
| Large-scale genome-wide meta-analysis of polycystic ovary syndrome suggests shared genetic architecture for different diagnosis criteria. | Day F et al. | β | 2018 | β |
| Multiancestry genome-wide association study of 520,000 subjects identifies 32 loci associated with stroke and stroke subtypes. | Malik R et al. | β | 2018 | β |
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| Variants in Notch signalling pathway genes, PSEN1 and MAML2, predict overall survival in Chinese patients with epithelial ovarian cancer. | Xu Y et al. | β | 2018 | β |
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| Using prior information from the medical literature in GWAS of oral cancer identifies novel susceptibility variant on chromosome 4--the AdAPT method. | Johansson M et al. | β | 2012 | β |
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