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Winkler, T.W.* ; Day, F.R.* ; Croteau-Chonka, D.C.* ; Wood, A.R.* ; Locke, A.E.* ; Mägi, R.* ; Ferreira, T.* ; Fall, T.* ; Graff, M.* ; Justice, A.E.* ; Luan, J.* ; Gustafsson, S.* ; Randall, J.C.* ; Vedantam, S.* ; Workalemahu, T.* ; Kilpeläinen, T.O.* ; Scherag, A.* ; Esko, T.* ; Kutalik, Z.* ; Heid, I.M. ; Loos, R.J.* ; GIANT Consortium (Albrecht, E. ; Müller-Nurasyid, M. ; Grallert, H. ; Peters, A. ; Thorand, B. ; Gieger, C. ; Illig, T. ; Wichmann, H.-E.)

Quality control and conduct of genome-wide association meta-analyses.

Nat. Protoc. 9, 1192-1212 (2014)
DOI PMC
Open Access Green as soon as Postprint is submitted to ZB.
Rigorous organization and quality control (QC) are necessary to facilitate successful genome-wide association meta-analyses (GWAMAs) of statistics aggregated across multiple genome-wide association studies. This protocol provides guidelines for (i) organizational aspects of GWAMAs, and for (ii) QC at the study file level, the meta-level across studies and the meta-analysis output level. Real-world examples highlight issues experienced and solutions developed by the GIANT Consortium that has conducted meta-analyses including data from 125 studies comprising more than 330,000 individuals. We provide a general protocol for conducting GWAMAs and carrying out QC to minimize errors and to guarantee maximum use of the data. We also include details for the use of a powerful and flexible software package called EasyQC. Precise timings will be greatly influenced by consortium size. For consortia of comparable size to the GIANT Consortium, this protocol takes a minimum of about 10 months to complete.
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Publication type Article: Journal article
Document type Scientific Article
Corresponding Author
ISSN (print) / ISBN 1754-2189
e-ISSN 1750-2799
Journal Nature Protocols
Quellenangaben Volume: 9, Issue: 5, Pages: 1192-1212 Article Number: , Supplement: ,
Publisher Nature Publishing Group
Non-patent literature Publications
Reviewing status Peer reviewed
Institute(s) Institute of Epidemiology II (EPI2)
Institute of Genetic Epidemiology (IGE)
CCG Nutrigenomics and Type 2 Diabetes (KKG-KDN)