Bayesian refinement of association signals for 14 loci in 3 common diseases

By J. Maller, G. McVean, Jake K. Byrnes, Damjan Vukcevic, Kimmo Palin, Z. Su, J. Howson, A. Auton, S. Myers, Andrew Morris and 27 more. 2012

508 citations recorded by the source corpus.

Subfields: Genetics, Pathology and Forensic Medicine, Surgery

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Citations in the corpus

Eliciting priors and relaxing the single causal variant assumption in colocalisation analyses (2019, methodology): “[14, 15] Importantly, this requires no reference LD matrix and allows combining data from traits studied in differently structured populations.”
The power of genetic diversity in genome-wide association studies of lipids (2021, methodology): “Bayes factors 56,57 (BFs) for each variant in the ancestry-specific meta-analysis were approximated as follows: where β and s.e. are the effect size and standard error of the effect size estimate from the Raremetal meta-analysis, and N AS is the ancestry-specific sample size.”
A simple new approach to variable selection in regression, with application to genetic fine mapping (2018, methodology): “Although the term “Credible Set” has been used in fine-mapping applications before, most previous uses either assumed there was a single effect variable (Maller et al., 2012), or defined a CS as a set that contains all effect variables (Hormozdiari et al.”
Integrating Functional Data to Prioritize Causal Variants in Statistical Fine-Mapping Studies (2014, methodology): “Identification of causal variants underlying risk loci is performed within fine-mapping studies [2,3,4] through sequencing (or array typing and imputation) followed by variant prioritization using marginal association statistics or posterior probabilities [5,6,7].”
Identifying Causal Variants at Loci with Multiple Signals of Association (2014, methodology): “Unfortunately, LD hinders the identification of causal variants at risk loci in fine-mapping studies as at each locus, there are often tens to hundreds of variants tightly linked to the reported associated single-nucleotide polymorphism (SNP) (Malo et al. 2008; Maller et al. 2012; Yang et al. 2012).”
An Expanded Genome-Wide Association Study of Type 2 Diabetes in Europeans (2017, unknown): “credible set fine-mapping (33) to investigate whether 1000G imputation allowed us to better”