MAGMA specifications


Unique identifier OMICS_10909
Alternative name Multi-marker Analysis of GenoMic Annotation
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data MAGMA can be used to analyse both raw genotype data as well as summary SNP p-values from a previous GWAS or meta-analysis.
Operating system Unix/Linux, Mac OS
Programming languages C++
Computer skills Advanced
Stability Beta
Maintained Yes


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MAGMA article

MAGMA citation

PMCID: 5959890

[…] for all genes. a bonferroni-adjusted p-value of 0.05/18,251 = 2.7 × 10−6 was used to identify significant genes. the 1000 genomes phase 3 data16 were used to map ld in both the independent locus and magma analyses., to test for pleiotropic associations between snps and ad and gene expression/dna methylation in the brain, summary data-based mendelian randomisation (smr) was performed17. gwas […]

MAGMA institution(s)
Department of Complex Trait Genetics, Center for Neurogenomics and Cognitive Research, VU University Amsterdam, Amsterdam, Netherlands; Institute for Computing and Information Sciences, Radboud University Nijmegen, Nijmegen, Netherlands; Informatics Institute, University of Amsterdam, Amsterdam, Netherlands; Department of Clinical Genetics, VU University Medical Centre Amsterdam, Neuroscience Campus Amsterdam, Netherlands
MAGMA funding source(s)
This study was conducted as part of the Complexity project of the Netherlands Scientific Organisation, grant NWO 645-000-003.

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