Screening of 134 Single Nucleotide Polymorphisms (SNPs) Previously Associated With Type 2 Diabetes Replicates Association With 12 SNPs in Nine Genes

Screening of 134 Single Nucleotide Polymorphisms (SNPs) Previously Associated With Type 2 Diabetes Replicates Association With 12 SNPs in Nine Genes Cristen J. Willer 1 , Lori L. Bonnycastle 2 , Karen N. Conneely 1 , William L. Duren 1 , Anne U. Jackson 1 , Laura J. Scott 1 , Narisu Narisu 2 , Peter S. Chines 2 , Andrew Skol 1 , Heather M. Stringham 1 , John Petrie 2 , Michael R. Erdos 2 , Amy J. Swift 2 , Sareena T. Enloe 2 , Andrew G. Sprau 2 , Eboni Smith 2 , Maurine Tong 2 , Kimberly F. Doheny 3 , Elizabeth W. Pugh 3 , Richard M. Watanabe 4 , Thomas A. Buchanan 5 , Timo T. Valle 6 , Richard N. Bergman 7 , Jaakko Tuomilehto 6 8 , Karen L. Mohlke 9 , Francis S. Collins 2 and Michael Boehnke 1 1 Department of Biostatistics and Center for Statistical Genetics, University of Michigan, Ann Arbor, Michigan 2 Genome Technology Branch, National Human Genome Research Institute, Bethesda, Maryland 3 Center for Inherited Disease Research, Johns Hopkins University School of Medicine, Baltimore, Maryland 4 Department of Preventive Medicine, Keck School of Medicine, University of Southern California, Los Angeles, California 5 Department of Medicine, Division of Endocrinology, Keck School of Medicine, University of Southern California, Los Angeles, California 6 Diabetes and Genetic Epidemiology Unit, Department of Epidemiology and Health Promotion, National Public Health Institute, Helsinki, Finland 7 Department of Physiology and Biophysics, Keck School of Medicine, University of Southern California, Los Angeles, California 8 Department of Public Health, University of Helsinki, Helsinki, Finland, and the South Ostrobothnia Central Hospital, Seinäjoki, Finland 9 Department of Genetics, University of North Carolina, Chapel Hill, North Carolina Address correspondence and reprint requests to Michael Boehnke, PhD, Department of Biostatistics, School of Public Health, University of Michigan, 1420 Washington Heights, Ann Arbor, MI 48109-2029. E-mail: boehnke{at}umich.edu Abstract More than 120 published reports have described associations between single nucleotide polymorphisms (SNPs) and type 2 diabetes. However, multiple studies of the same variant have often been discordant. From a literature search, we identified previously reported type 2 diabetes–associated SNPs. We initially genotyped 134 SNPs on 786 index case subjects from type 2 diabetes families and 617 control subjects with normal glucose tolerance from Finland and excluded from analysis 20 SNPs in strong linkage