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Ischaemic stroke metaGRS

dataset
posted on 2019-07-02, 23:22 authored by Gad AbrahamGad Abraham, Michael InouyeMichael Inouye
A genomic risk score (metaGRS, a meta-score combining multiple GRSs) for ischaemic stroke, consisting of 3.2 million SNPs that had MAF >1% in the UK Biobank British white subset and imputation INFO >0.4 over the entire UK Biobank dataset.

Also provided is a version further excluding ambiguous strand SNPs (A/T or G/C), leaving 2.76 million SNPs. This score had very similar performance in the UK Biobank validation set in terms of association with age of ischaemic stroke.

The rsids, positions, and alleles are with respect to UK Biobank genotyping release 2 (hg19).

Also included are the SNP weights for each component GRS that contributed to the stroke metaGRS, as well as the weights for the metaGRS itself.


To apply the metaGRS scores to new data with plink use:

plink --bfile your_data \
--score metaGRS_stroke_IS_MAF0.01_INFO0.4_exclATGC.txt 2 4 18 header sum

Funding

Using systems biology to model and predict human diseases

National Health and Medical Research Council

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Large-Scale Multi-Omic Analysis and Risk Prediction of Complex Human Disease

National Health and Medical Research Council

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Horizon 2020 #666881

Horizon 2020 #667375

EXC 1010:  Munich Cluster for Systems Neurology (SyNergy)

Deutsche Forschungsgemeinschaft

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UK Medical Research Council MR/L003120/1

British Heart Foundation RG/13/13/30194

Horizon 2020 SVDs@target

Horizon 2020 CoSTREAM

CRC 1123 (B3)

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