Genotype imputation for genome-wide association studies

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Roberta Pastorino, Cristina Menni, Monserrata Barca, Luisa Foco, Valeria Saddi, Giovanna Gazzaniga, Raffaela Ferrai, Luca Mascaretti, Frank Dudbridge, Carlo Berzuini, Salvatore Bruno Murgia, Maria Luisa Piras, Anna Ticca, Pier Paolo Bitti, Luisa Bernardinelli, Association between Protective and Deleterious HLA Alleles with Multiple Sclerosis in Central East Sardinia PLOS ONE. ,vol. 4, ,(2009) , 10.1371/JOURNAL.PONE.0006526

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Jonathan Marchini, Bryan Howie, Comparing algorithms for genotype imputation. American Journal of Human Genetics. ,vol. 83, pp. 535- 539 ,(2008) , 10.1016/J.AJHG.2008.09.007

Matthew Stephens, David J. Balding, Bayesian statistical methods for genetic association studies Nature Reviews Genetics. ,vol. 10, pp. 681- 690 ,(2009) , 10.1038/NRG2615

Yongtao Guan, Matthew Stephens, Practical Issues in Imputation-Based Association Mapping PLoS Genetics. ,vol. 4, pp. e1000279- ,(2008) , 10.1371/JOURNAL.PGEN.1000279

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

Matthew Stephens, Nicholas J. Smith, Peter Donnelly, A new statistical method for haplotype reconstruction from population data American Journal of Human Genetics. ,vol. 68, pp. 978- 989 ,(2001) , 10.1086/319501

Jonathan Marchini, Peter Donnelly, Niall Cardin, Zhan Su, A Bayesian Method for Detecting and Characterizing Allelic Heterogeneity and Boosting Signals in Genome-Wide Association Studies arXiv: Methodology. ,(2010) , 10.1214/09-STS311

Augustine Kong, Gisli Masson, Michael L Frigge, Arnaldur Gylfason, Pasha Zusmanovich, Gudmar Thorleifsson, Pall I Olason, Andres Ingason, Stacy Steinberg, Thorunn Rafnar, Patrick Sulem, Magali Mouy, Frosti Jonsson, Unnur Thorsteinsdottir, Daniel F Gudbjartsson, Hreinn Stefansson, Kari Stefansson, Detection of sharing by descent, long-range phasing and haplotype imputation Nature Genetics. ,vol. 40, pp. 1068- 1075 ,(2008) , 10.1038/NG.216