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

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dc.contributor.authorWinkler, T.W.
dc.contributor.authorDay, F.R.
dc.contributor.authorCroteau-Chonka, D.C.
dc.contributor.authorWood, A.R.
dc.contributor.authorLocke, A.E.
dc.contributor.authorMaegi, R.
dc.contributor.authorFerreira, T.
dc.contributor.authorFall, T.
dc.contributor.authorGraff, M.
dc.contributor.authorJustice, A.E.
dc.contributor.authorLuan, J.
dc.contributor.authorGustafsson, S.
dc.contributor.authorRandall, J.C.
dc.contributor.authorVedantam, S.
dc.contributor.authorWorkalemahu, T.
dc.contributor.authorKilpelainen, T.O.
dc.contributor.authorScherag, A.
dc.contributor.authorEsko, T.
dc.contributor.authorKutalik, Z.
dc.contributor.authorHeid, I.M.
dc.contributor.authoret al.
dc.date.issued2014
dc.description.abstractRigorous 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.
dc.description.statementofresponsibilityThomas W Winkler, Felix R Day, Damien C Croteau-Chonka, Andrew R Wood, Adam E Locke, Reedik Mägi, Teresa Ferreira, Tove Fall, Mariaelisa Graff, Anne E Justice, Jian, an Luan, Stefan Gustafsson, Joshua C Randall, Sailaja Vedantam, Tsegaselassie Workalemahu, Tuomas O Kilpeläinen, André Scherag, Tonu Esko, Zoltán Kutalik, Iris M Heid, Ruth J F Loos, the Genetic Investigation of Anthropometric Traits, GIANT, Consortium
dc.identifier.citationNature Protocols, 2014; 9(5):1192-1212
dc.identifier.doi10.1038/nprot.2014.071
dc.identifier.issn1754-2189
dc.identifier.issn1750-2799
dc.identifier.urihttp://hdl.handle.net/2440/102703
dc.language.isoen
dc.publisherNature Publishing Group
dc.rights© 2014 Nature America Inc. All rights reserved.
dc.source.urihttps://doi.org/10.1038/nprot.2014.071
dc.subjectGenetic Investigation of Anthropometric Traits (GIANT) Consortium; quality control; software; meta-analysis as topic; genome-wide association study
dc.titleQuality control and conduct of genome-wide association meta-analyses
dc.typeJournal article
pubs.publication-statusPublished

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