The flashfm approach for fine-mapping multiple quantitative traits
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Publication Date
2021-10-22Journal Title
Nature Communications
Publisher
Nature Publishing Group UK
Volume
12
Issue
1
Language
en
Type
Article
This Version
VoR
Metadata
Show full item recordCitation
Hernández, N., Soenksen, J., Newcombe, P., Sandhu, M., Barroso, I., Wallace, C., & Asimit, J. L. (2021). The flashfm approach for fine-mapping multiple quantitative traits. Nature Communications, 12 (1) https://doi.org/10.1038/s41467-021-26364-y
Description
Funder: “Expanding excellence in England” award from Research England
Abstract
Abstract: Joint fine-mapping that leverages information between quantitative traits could improve accuracy and resolution over single-trait fine-mapping. Using summary statistics, flashfm (flexible and shared information fine-mapping) fine-maps signals for multiple traits, allowing for missing trait measurements and use of related individuals. In a Bayesian framework, prior model probabilities are formulated to favour model combinations that share causal variants to capitalise on information between traits. Simulation studies demonstrate that both approaches produce broadly equivalent results when traits have no shared causal variants. When traits share at least one causal variant, flashfm reduces the number of potential causal variants by 30% compared with single-trait fine-mapping. In a Ugandan cohort with 33 cardiometabolic traits, flashfm gave a 20% reduction in the total number of potential causal variants from single-trait fine-mapping. Here we show flashfm is computationally efficient and can easily be deployed across publicly available summary statistics for signals in up to six traits.
Keywords
Article, /631/208/205/2138, /631/208/480, /45/43, /141, /139, article
Sponsorship
RCUK | Medical Research Council (MRC) (MC UU 00002/9, MC_UU_00002/4, MR/R021368/1)
DH | National Institute for Health Research (NIHR) (BRC-1215-20014, BRC-1215-20014, BRC-1215-20014)
Wellcome Trust (Wellcome) (WT107881)
Identifiers
s41467-021-26364-y, 26364
External DOI: https://doi.org/10.1038/s41467-021-26364-y
This record's URL: https://www.repository.cam.ac.uk/handle/1810/329778
Rights
Licence:
http://creativecommons.org/licenses/by/4.0/
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