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

Gerard Waeber, David Schlessinger, Nilesh J. Samani, Kari Stefansson, Thomas Illig, Iris M. Heid, Joel N. Hirschhorn, Dawn M. Waterworth, Frida Renström, Cornelia M. van Duijn, Lori L. Bonnycastle, Angela Doering, Candace Guiducci, Mark J. Caulfield, Kaisa Silander, David P. Strachan, Nicholas J. Timpson, Anna Dominiczak, Patricia Munroe, Tiinamaija Tuomi, Thomas Meitinger, Christopher J. Groves, Michael R. Erdos, Alexander Drong, Aki S. Havulinna, Johanna Kuusisto, Michael N. Weedon, Yurii S. Aulchenko, Stefania Bandinelli, Jian'an Luan, Anders Hamsten, Serena Sanna, Rolf Holle, David Hadley, Peter Vollenweider, Claudia Lamina, Christian Gieger, Nicole Soranzo, Manjinder S. Sandhu, Peter Nordström, Luigi Ferrucci, Peter Almgren, Debbie A. Lawlor, John C. Chambers, Inga Prokopenko, Alex S. F. Doney, Karol Estrada, Gabriel Crawford, G. Bragi Walters, Helen N. Lyon, Felicity Payne, Francis S. Collins, Kijoung Song, Inês Barroso, Frank B. Hu, Amanda J. Bennett, Richard N. Bergman, Blanca M. Herrera, Anne U. Jackson, Paul W. Franks, Weihua Zhang, Amy J. Swift, Massimo Mangino, Cuilin Zhang, Joshua C. Randall, John W. Holloway, Manuela Uda, Heather M. Stringham, Chris Wallace, Noha Lim, Shah Ebrahim, Fernando Rivadeneira, Michael Boehnke, Laura J. Scott, Cyrus Cooper, Harald Grallert, Lu Qi, Cecilia M. Lindgren, Toshiko Tanaka, Najaf Amin, John F. Peden, Markku Laakso, Jaana Laitinen, Leonie C. Jacobs, George Davey Smith, Paul Elliott, Veikko Salomaa, Albert Hofman, Anna Nordström, Nita G. Forouhi, Lynn Cherkas, Gonçalo R. Abecasis, Pekka Jousilahti, Bo Isomaa, Timothy M. Frayling, Leif Groop, Karen Jameson, Andrew P. Morris, Xin Yuan, Colin N. A. Palmer, Peter Chines, Guido Fischer, Lachlan Coin, David J. Hunter, Karen L. Mohlke, Marjo-Riitta Jarvelin, Unnur Thorsteinsdottir, Augustine Kong, Mario A. Morken, Andrew D. Morris, Andrew T. Hattersley, Ian N. M. Day, Jing Hua Zhao, Ruth J. F. Loos, H.-Erich Wichmann, Vincent Mooser, Leena Peltonen, Wendy L. McArdle, Gudmar Thorleifsson, Narisu Narisu, Timothy D. Spector, Angelo Scuteri, Stephen J. Chanock, Scott Grundy, Edward Lakatta, Valgerdur Steinthorsdottir, Ben A. Oostra, Paul Scheet, Elizabeth K. Speliotes, Jaspal S. Kooner, Cristen J. Willer, Fredrik Karpe, Panos Deloukas, G. Mark Lathrop, Jacqueline C. M. Witteman, Aimo Ruokonen, André G. Uitterlinden, Jaakko Tuomilehto, Nicholas J. Wareham, Suzannah J. Bumpstead, M. Carola Zillikens, Genome-Wide Association Scan Meta-Analysis Identifies Three Loci Influencing Adiposity and Fat Distribution PLoS. ,(2009)

M. C. WHITLOCK, Combining probability from independent tests: the weighted Z-method is superior to Fisher's approach Journal of Evolutionary Biology. ,vol. 18, pp. 1368- 1373 ,(2005) , 10.1111/J.1420-9101.2005.00917.X

Sonja I Berndt, Stefan Gustafsson, Reedik Mägi, Andrea Ganna, Eleanor Wheeler, Mary F Feitosa, Anne E Justice, Keri L Monda, Damien C Croteau-Chonka, Felix R Day, Tõnu Esko, Tove Fall, Teresa Ferreira, Davide Gentilini, Anne U Jackson, Jian'an Luan, Joshua C Randall, Sailaja Vedantam, Cristen J Willer, Thomas W Winkler, Andrew R Wood, Tsegaselassie Workalemahu, Yi-Juan Hu, Sang Hong Lee, Liming Liang, Dan-Yu Lin, Josine L Min, Benjamin M Neale, Gudmar Thorleifsson, Jian Yang, Eva Albrecht, Najaf Amin, Jennifer L Bragg-Gresham, Gemma Cadby, Martin Den Heijer, Niina Eklund, Krista Fischer, Anuj Goel, Jouke-Jan Hottenga, Jennifer E Huffman, Ivonne Jarick, Åsa Johansson, Toby Johnson, Stavroula Kanoni, Marcus E Kleber, Inke R Koenig, Kati Kristiansson, Zoltán Kutalik, Claudia Lamina, Cecile Lecoeur, Guo Li, Massimo Mangino, Wendy L McArdle, Carolina Medina-Gomez, Martina Mueller-Nurasyid, Julius S Ngwa, Ilja M Nolte, Lavinia Paternoster, Sonali Pechlivanis, Markus Perola, Marjolein J Peters, Michael Preuss, Lynda M Rose, Jianxin Shi, Dmitry Shungin, Albert Vernon Smith, Rona J Strawbridge, Ida Surakka, Alexander Teumer, Mieke D Trip, Jonathan Tyrer, Jana V Van Vliet-Ostaptchouk, Liesbeth Vandenput, Lindsay L Waite, Jing Hua Zhao, Devin Absher, Folkert W Asselbergs, Mustafa Atalay, Antony P Attwood, Anthony J Balmforth, Hanneke Basart, John Beilby, Lori L Bonnycastle, Paolo Brambilla, Marcel Bruinenberg, Harry Campbell, Daniel I Chasman, Peter S Chines, Francis S Collins, John M Connell, William O Cookson, Ulf De Faire, Femmie De Vegt, Mariano Dei, Maria Dimitriou, Sarah Edkins, Karol Estrada, David M Evans, Martin Farrall, Marco M Ferrario, Jean Ferrieres, Lude Franke, Francesca Frau, Pablo V Gejman, Harald Grallert, Henrik Groenberg, Vilmundur Gudnason, Alistair S Hall, Per Hall, Anna-Liisa Hartikainen, Caroline Hayward, Nancy L Heard-Costa, Andrew C Heath, Johannes Hebebrand, Georg Homuth, Frank B Hu, Sarah E Hunt, Elina Hyppoenen, Carlos Iribarren, Kevin B Jacobs, John-Olov Jansson, Antti Jula, Mika Kähönen, Sekar Kathiresan, Frank Kee, Kay-Tee Khaw, Mika Kivimäki, Wolfgang Koenig, Aldi T Kraja, Meena Kumari, Kari Kuulasmaa, Johanna Kuusisto, Jaana H Laitinen, Timo A Lakka, Claudia Langenberg, Lenore J Launer, Lars Lind, Jaana Lindström, Jianjun Liu, Antonio Liuzzi, Marja-Liisa Lokki, Mattias Lorentzon, Pamela A Madden, Patrik K Magnusson, Paolo Manunta, Diana Marek, Winfried Maerz, Irene Mateo Leach, Barbara McKnight, Sarah E Medland, None, Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture Nature Genetics. ,vol. 45, pp. 501- 512 ,(2013) , 10.1038/NG.2606

B. Devlin, Kathryn Roeder, Genomic control for association studies. Biometrics. ,vol. 55, pp. 997- 1004 ,(1999) , 10.1111/J.0006-341X.1999.00997.X

Carl A Anderson, Fredrik H Pettersson, Geraldine M Clarke, Lon R Cardon, Andrew P Morris, Krina T Zondervan, None, Data quality control in genetic case-control association studies Nature Protocols. ,vol. 5, pp. 1564- 1573 ,(2010) , 10.1038/NPROT.2010.116

Bartha M. Knoppers, Edward S. Dove, Jan-Eric Litton, J.J. Nietfeld, Questioning the Limits of Genomic Privacy American Journal of Human Genetics. ,vol. 91, pp. 577- 578 ,(2012) , 10.1016/J.AJHG.2012.05.027

Jeroen R Huyghe, Anne U Jackson, Marie P Fogarty, Martin L Buchkovich, Alena Stančáková, Heather M Stringham, Xueling Sim, Lingyao Yang, Christian Fuchsberger, Henna Cederberg, Peter S Chines, Tanya M Teslovich, Jane M Romm, Hua Ling, Ivy McMullen, Roxann Ingersoll, Elizabeth W Pugh, Kimberly F Doheny, Benjamin M Neale, Mark J Daly, Johanna Kuusisto, Laura J Scott, Hyun Min Kang, Francis S Collins, Gonçalo R Abecasis, Richard M Watanabe, Michael Boehnke, Markku Laakso, Karen L Mohlke, Exome array analysis identifies new loci and low-frequency variants influencing insulin processing and secretion Nature Genetics. ,vol. 45, pp. 197- 201 ,(2013) , 10.1038/NG.2507

Alisa K Manning, Marie-France Hivert, Robert A Scott, Jonna L Grimsby, Nabila Bouatia-Naji, Han Chen, Denis Rybin, Ching-Ti Liu, Lawrence F Bielak, Inga Prokopenko, Najaf Amin, Daniel Barnes, Gemma Cadby, Jouke-Jan Hottenga, Erik Ingelsson, Anne U Jackson, Toby Johnson, Stavroula Kanoni, Claes Ladenvall, Vasiliki Lagou, Jari Lahti, Cecile Lecoeur, Yongmei Liu, Maria Teresa Martinez-Larrad, May E Montasser, Pau Navarro, John RB Perry, Laura J Rasmussen-Torvik, Perttu Salo, Naveed Sattar, Dmitry Shungin, Rona J Strawbridge, Toshiko Tanaka, Cornelia M Van Duijn, Ping An, Mariza De Andrade, Jeanette S Andrews, Thor Aspelund, Mustafa Atalay, Yurii Aulchenko, Beverley Balkau, Stefania Bandinelli, Jacques S Beckmann, John P Beilby, Claire Bellis, Richard N Bergman, John Blangero, Mladen Boban, Michael Boehnke, Eric Boerwinkle, Lori L Bonnycastle, Dorret I Boomsma, Ingrid B Borecki, Yvonne Böttcher, Claude Bouchard, Eric Brunner, Danijela Budimir, Harry Campbell, Olga Carlson, Peter S Chines, Robert Clarke, Francis S Collins, Arturo Corbatón-Anchuelo, David Couper, Ulf De Faire, George V Dedoussis, Panos Deloukas, Maria Dimitriou, Josephine M Egan, Gudny Eiriksdottir, Michael R Erdos, Johan G Eriksson, Elodie Eury, Luigi Ferrucci, Ian Ford, Nita G Forouhi, Caroline S Fox, Maria Grazia Franzosi, Paul W Franks, Timothy M Frayling, Philippe Froguel, Pilar Galan, Eco De Geus, Bruna Gigante, Nicole L Glazer, Anuj Goel, Leif Groop, Vilmundur Gudnason, Göran Hallmans, Anders Hamsten, Ola Hansson, Tamara B Harris, Caroline Hayward, Simon Heath, Serge Hercberg, Andrew A Hicks, Aroon Hingorani, Albert Hofman, Jennie Hui, Joseph Hung, Marjo-Riitta Jarvelin, Min A Jhun, Paul CD Johnson, J Wouter Jukema, Antti Jula, WH Kao, Jaakko Kaprio, Sharon LR Kardia, Sirkka Keinanen-Kiukaanniemi, Mika Kivimaki, Ivana Kolcic, Peter Kovacs, Meena Kumari, Johanna Kuusisto, Kirsten Ohm Kyvik, Markku Laakso, Timo Lakka, Lars Lannfelt, G Mark Lathrop, Lenore J Launer, Karin Leander, Guo Li, Lars Lind, Jaana Lindstrom, Stéphane Lobbens, Ruth JF Loos, Jian'an Luan, Valeriya Lyssenko, Reedik Mägi, Patrik KE Magnusson, Michael Marmot, Pierre Meneton, Karen L Mohlke, Vincent Mooser, Mario A Morken, Iva Miljkovic, Narisu Narisu, Jeff O'Connell, Ken K Ong, Ben A Oostra, Lyle J Palmer, Aarno Palotie, James S Pankow, John F Peden, Nancy L Pedersen, Marina Pehlic, Leena Peltonen, Brenda Penninx, Marijana Pericic, Markus Perola, None, A genome-wide approach accounting for body mass index identifies genetic variants influencing fasting glycemic traits and insulin resistance. Nature Genetics. ,vol. 44, pp. 659- 669 ,(2012) , 10.1038/NG.2274

Ruth JF Loos, Cecilia M Lindgren, Shengxu Li, Eleanor Wheeler, Jing Hua Zhao, Inga Prokopenko, Michael Inouye, Rachel M Freathy, Antony P Attwood, Jacques S Beckmann, Sonja I Berndt, Prostate, Lung, Colorectal, and Ovarian (PLCO) Cancer Screening Trial Jacobs Kevin B 53 Chanock Stephen J 11 54 Hayes Richard B 11, Sven Bergmann, Amanda J Bennett, Sheila A Bingham, Murielle Bochud, Morris Brown, Stéphane Cauchi, John M Connell, Cyrus Cooper, George Davey Smith, Ian Day, Christian Dina, Subhajyoti De, Emmanouil T Dermitzakis, Alex SF Doney, Katherine S Elliott, Paul Elliott, David M Evans, I Sadaf Farooqi, Philippe Froguel, Jilur Ghori, Christopher J Groves, Rhian Gwilliam, David Hadley, Alistair S Hall, Andrew T Hattersley, Johannes Hebebrand, Iris M Heid, KORA Lamina Claudia 29 Gieger Christian 29 30 Illig Thomas 29 Meitinger Thomas 55 56 Wichmann H-Erich 29 30, Blanca Herrera, Anke Hinney, Sarah E Hunt, Marjo-Riitta Jarvelin, Toby Johnson, Jennifer DM Jolley, Fredrik Karpe, Andrew Keniry, Kay-Tee Khaw, Robert N Luben, Massimo Mangino, Jonathan Marchini, Wendy L McArdle, Ralph McGinnis, David Meyre, Patricia B Munroe, Andrew D Morris, Andrew R Ness, Matthew J Neville, Alexandra C Nica, Ken K Ong, Stephen O'Rahilly, Katharine R Owen, Colin NA Palmer, Konstantinos Papadakis, Simon Potter, Anneli Pouta, Lu Qi, Nurses' Health Study Kraft Peter 57 Hankinson Susan E 58 Hunter David J 40 44 57 58 Hu Frank B 40 58, Joshua C Randall, Nigel W Rayner, Susan M Ring, Manjinder S Sandhu, André Scherag, Matthew A Sims, Kijoung Song, Nicole Soranzo, Elizabeth K Speliotes, Diabetes Genetics Initiative Lyon Helen N 44 48 50 Voight Benjamin F 44 59 60 61 Ridderstrale Martin 62 Groop Leif 62 63, Holly E Syddall, Sarah A Teichmann, Nicholas J Timpson, Jonathan H Tobias, Manuela Uda, SardiNIA Study Scheet Paul 64 Sanna Serena 46 Abecasis Goncalo R 64 Albai Giuseppe 46 Nagaraja Ramaiah 65 Schlessinger David 65, Carla I Ganz Vogel, Chris Wallace, Dawn M Waterworth, Michael N Weedon, Wellcome Trust Case Control Consortium, Cristen J Willer, FUSION Jackson Anne U 47 Tuomilehto Jaakko 66 66 68 Collins Francis S 69 Boehnke Michael 47 Mohlke Karen L 70, Vicki L Wraight, Xin Yuan, Eleftheria Zeggini, Joel N Hirschhorn, David P Strachan, Willem H Ouwehand, Mark J Caulfield, Nilesh J Samani, Timothy M Frayling, Peter Vollenweider, Gerard Waeber, Vincent Mooser, Panos Deloukas, Mark I McCarthy, Nicholas J Wareham, Inês Barroso, None, Common variants near MC4R are associated with fat mass, weight and risk of obesity. Nature Genetics. ,vol. 40, pp. 768- 775 ,(2008) , 10.1038/NG.140

Peter M. Visscher, William G. Hill, The Limits of Individual Identification from Sample Allele Frequencies: Theory and Statistical Analysis PLOS Genetics. ,vol. 5, ,(2009) , 10.1371/JOURNAL.PGEN.1000628