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GWAMA specifications


Unique identifier OMICS_00235
Alternative name Genome-Wide Association Meta-Analysis
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes




No version available


  • person_outline Reedik Mägi

Publication for Genome-Wide Association Meta-Analysis

GWAMA citations


Exploring the phenotypic consequences of tissue specific gene expression variation inferred from GWAS summary statistics

Nat Commun
PMCID: 5940825
PMID: 29739930
DOI: 10.1038/s41467-018-03621-1

[…] Supplementary Data  shows the list of GWA/GWAMA studies we considered in this analysis. We applied S-PrediXcan to these studies using the transcriptome models trained on GTEx studies for patched version 6. For simplicity, S-PrediXcan only con […]


The polymorphism rs6918289 located in the downstream region of the TREM2 gene is associated with TNF α levels and IMT F

Sci Rep
PMCID: 5940861
PMID: 29740051
DOI: 10.1038/s41598-018-25553-y

[…] in all available individuals of SFS (children and adults combined; n = 809) and in the replication population (n = 916). Meta-analysis of the discovery and replication cohorts was performed using the GWAMA software and a random-effect method. Thirdly, in 350 individuals of the SFS, rs6918289 was tested for association with IMT-F. Bonferroni correction was applied in order to adjust for multiple te […]


Genetic susceptibility markers for a breast colorectal cancer phenotype: Exploratory results from genome wide association studies

PLoS One
PMCID: 5919670
PMID: 29698419
DOI: 10.1371/journal.pone.0196245

[…] Association P-values of the discovery data (CCFR and BCFR) and replication data (GECCO) were meta-analyzed using the Genome-wide Association Meta-Analysis Software, GWAMA (v. 2.1), which uses an inverse variance method []. […]


Integrative network analysis highlights biological processes underlying GLP 1 stimulated insulin secretion: A DIRECT study

PLoS One
PMCID: 5749727
PMID: 29293525
DOI: 10.1371/journal.pone.0189886

[…] ender, glucose tolerance status, insulin sensitivity index, and familiarity (NTR only) as potential confounders. Fixed-effect meta-analysis (quantitative trait) of the two studies was performed using GWAMA [] with double genomic control, i.e. for the results from the individual studies (-gc) and from the meta-analysis (-gco). […]


Evaluating the glucose raising effect of established loci via a genetic risk score

PLoS One
PMCID: 5681259
PMID: 29125842
DOI: 10.1371/journal.pone.0186669
call_split See protocol

[…] ve genetic model to investigate the association of the 36 SNPs on glucose levels in both studies. We conducted an inverse variance weighted meta-analysis in a sample of individuals of Greek ancestry. GWAMA (Genome-Wide Association Meta-Analysis) was used for the meta-analysis performed for the two studies []. Statistical analysis was performed using R version 3.1.1. We present continuous variables […]


Identification of a novel proinsulin associated SNP and demonstration that proinsulin is unlikely to be a causal factor in subclinical vascular remodelling using Mendelian randomisation

PMCID: 5679136
PMID: 29040868
DOI: 10.1016/j.atherosclerosis.2017.09.031

[…] The same analyses and models as the discovery analysis were applied. To improve power and examine consistency of effects, replication results were combined in an inverse variance meta-analysis, using GWAMA . […]


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GWAMA institution(s)
Genetic and Genomic Epidemiology Unit, Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK

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