A large genome-wide association study of age-related macular degeneration highlights contributions of rare and common variants

• Published in: Nature genetics Vol. 48; no. 2; pp. 134 - 143
• Main Authors: Fritsche, Lars G, Igl, Wilmar, Grassmann, Felix, Sengupta, Sebanti, Bragg-Gresham, Jennifer L, Burdon, Kathryn P, Hebbring, Scott J, Wen, Cindy, Zack, Donald, Souied, Eric, Scholl, Hendrik P N, Bala, Elisa, Lee, Kristine E, Hunter, David J, Sardell, Rebecca J, Cipriani, Valentina, Hoffman, Joshua D, Schick, Tina, Guymer, Robyn H, Johnson, Matthew P, Jiang, Yingda, Buitendijk, Gabriëlle H S, Zhan, Xiaowei, Kwong, Alan M, Brooks, Matthew, Branham, Kari E, Foerster, Johanna R, Souzeau, Emmanuelle, McAllister, Ian L, Isaacs, Timothy, Hall, Janette, Lake, Stewart, Mackey, David A, Constable, Ian J, Craig, Jamie E, Yang, Zhenglin, Su, Zhiguang, Luo, Hongrong, Chen, Daniel, Ouyang, Hong, Mao, Guanping, Ferreyra, Henry, Stark, Klaus, Brandl, Caroline, Morrison, Margaux A, Morgan, Denise J, Park, Kyu Hyung, Farrer, Lindsay A, Li, Mingyao, Curcio, Christine A, Mohand-Saïd, Saddek, Benchaboune, Mustapha, Cree, Angela J, Rennie, Christina A, Goverdhan, Srinivas V, Grunin, Michelle, Campochiaro, Peter, Katsanis, Nicholas, Blanché, Hélène, Igo, Robert P, Truitt, Barbara, Peachey, Neal S, Klein, Ronald, Postel, Eric A, Courtenay, Monique D, Schwartz, Stephen G, Liew, Gerald, Tan, Ava G, Gopinath, Bamini, Merriam, John C, Smith, R Theodore, Shahid, Humma, Moore, Anthony T, McGrath, J Allie, Brantley, Milam A, Agarwal, Anita, Saksens, Nicole T M, de Jong, Eiko K, Cain, Melinda S, Richardson, Andrea J, Martin, Tammy M, Doheny, Kimberly F, Romm, Jane, Hayward, Caroline, Klein, Michael L, Baird, Paul N, Fauser, Sascha, Yates, John R W, Allikmets, Rando, Schaumberg, Debra A, Klein, Barbara E K, Hagstrom, Stephanie A, Lotery, Andrew J, Léveillard, Thierry, Hewitt, Alex W, Swaroop, Anand, Chew, Emily Y, Pericak-Vance, Margaret A, DeAngelis, Margaret, Heid, Iris M
• Format: Journal Article
• Language: English
• Published: New York Nature Publishing Group US 01.02.2016; Nature Publishing Group
• Subjects: 45/43; 631/208/205/2138; 631/208/212; 692/699/375/365; Agriculture; Angiogenesis; Animal Genetics and Genomics; Biomedicine; Cancer Research; Confidence intervals; Data analysis; Datasets; Development and progression; Disease; Gene expression; Gene Function; Genealogy; Genetic aspects; Genetic Predisposition to Disease; Genetic variation; Genetics; Genome-Wide Association Study; Genomes; Genomics; Health aspects; Human Genetics; Humans; Identification and classification; Life Sciences; Macular degeneration; Macular Degeneration - genetics; Mutation; Proteins; Quality control; Studies
• ISSN: 1061-4036; 1546-1718; 1546-1718
• DOI: 10.1038/ng.3448

Iris Heid, Gonçalo Abecasis, Sudha Iyengar and colleagues report the results of a large genome-wide association meta-analysis of macular degeneration based on over 43,000 subjects. They identify 16 new risk loci, including some very rare coding variants. Advanced age-related macular degeneration (AMD) is the leading cause of blindness in the elderly, with limited therapeutic options. Here we report on a study of >12 million variants, including 163,714 directly genotyped, mostly rare, protein-altering variants. Analyzing 16,144 patients and 17,832 controls, we identify 52 independently associated common and rare variants ( P < 5 × 10 −8 ) distributed across 34 loci. Although wet and dry AMD subtypes exhibit predominantly shared genetics, we identify the first genetic association signal specific to wet AMD, near MMP9 (difference P value = 4.1 × 10 −10 ). Very rare coding variants (frequency <0.1%) in CFH , CFI and TIMP3 suggest causal roles for these genes, as does a splice variant in SLC16A8 . Our results support the hypothesis that rare coding variants can pinpoint causal genes within known genetic loci and illustrate that applying the approach systematically to detect new loci requires extremely large sample sizes.