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https://hdl.handle.net/2440/102703
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Type: | Journal article |
Title: | Quality control and conduct of genome-wide association meta-analyses |
Author: | Winkler, T.W. Day, F.R. Croteau-Chonka, D.C. Wood, A.R. Locke, A.E. Maegi, R. Ferreira, T. Fall, T. Graff, M. Justice, A.E. Luan, J. Gustafsson, S. Randall, J.C. Vedantam, S. Workalemahu, T. Kilpelainen, T.O. Scherag, A. Esko, T. Kutalik, Z. Heid, I.M. et al. |
Citation: | Nature Protocols, 2014; 9(5):1192-1212 |
Publisher: | Nature Publishing Group |
Issue Date: | 2014 |
ISSN: | 1754-2189 1750-2799 |
Statement of Responsibility: | Thomas 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 |
Abstract: | 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. |
Keywords: | Genetic Investigation of Anthropometric Traits (GIANT) Consortium; quality control; software; meta-analysis as topic; genome-wide association study |
Rights: | © 2014 Nature America Inc. All rights reserved. |
DOI: | 10.1038/nprot.2014.071 |
Published version: | http://dx.doi.org/10.1038/nprot.2014.071 |
Appears in Collections: | Aurora harvest 3 Translational Health Science publications |
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